doc_id sent_index relation_id relation trigger trigger_offset arg_num arg_base_np arg_protein arg_domain arg_site arg_sugar PSource SiteSource NProtein NID SiteName sent_text 34229070 7 24 gly sialylated 1245:1254 arg1 sialylated O-glycans sialylated O-glycans We found a dense cluster of truncated O-glycans on the region nearby beginning of E2 domain and high abundance of sialylated O-glycans on the region close to β-cleavage site. 34229070 7 45 gly region 1273:1278 arg1 sialylated O-glycans region sialylated O-glycans region We found a dense cluster of truncated O-glycans on the region nearby beginning of E2 domain and high abundance of sialylated O-glycans on the region close to β-cleavage site. 34229070 7 98 gly O-glycans 1256:1264 arg1 the region the region the region Site region We found a dense cluster of truncated O-glycans on the region nearby beginning of E2 domain and high abundance of sialylated O-glycans on the region close to β-cleavage site. 31336250 5 35 gly aglycosylated 1062:1074 arg1 an aglycosylated Fc variant an aglycosylated Fc variant Fterm variant High-throughput screening of the resulting library led to the identification of an aglycosylated Fc variant that exhibited almost double the antibody-dependent cell-mediated cytotoxicity than wild-type glycosylated Fc. 32030495 0 76 gly N-glycoprotein 55:68 arg1 N-glycoprotein N-glycoprotein Fterm N-glycoprotein A quantitative N-glycoproteomics study of cell-surface N-glycoprotein markers of MCF-7/ADR cancer stem cells. 34631661 4 28 part_of protein 1077:1083 arg1 glycopeptides S protein glycopeptides OGER Site S protein Q15517 glycopeptides To further evaluate the sialic acid linkages presenting on S protein, a two-step amidation process, employing dimethylamine and ammonium hydroxide reactions in a solid support system, was developed to differentially modify the sialic acid linkages on the glycans and glycopeptides from the S protein. 33340519 3 36 gly glycosylated 548:559 arg1 the human cellular receptor the human cellular receptor Fterm receptor The viral spike glycoprotein (S) of SARS-CoV-2 and the human cellular receptor, angiotensin-converting enzyme 2 (ACE2) are both densely glycosylated. 33340519 3 48 gly glycoprotein 428:439 arg1 viral spike glycoprotein viral spike glycoprotein Fterm glycoprotein The viral spike glycoprotein (S) of SARS-CoV-2 and the human cellular receptor, angiotensin-converting enzyme 2 (ACE2) are both densely glycosylated. 34257876 10 11 part_of protein 1593:1599 arg1 the site protein the site Fterm Site protein site With this approach, information on the site of glycosylation, the glycoform, the source protein, and the target protein of the cross-linked pair were obtained. 34257876 10 86 part_of protein 1617:1623 arg1 the site protein the site Fterm Site protein site With this approach, information on the site of glycosylation, the glycoform, the source protein, and the target protein of the cross-linked pair were obtained. 33664361 7 64 gly N-glycosylated 1112:1125 arg1 the ZIKV E protein protein site Fterm protein site This confirmed that this site of the ZIKV E protein is highly N-glycosylated but with very high micro-heterogeneity. 32432921 7 8 part_of protein 1057:1063 arg1 the N-glycosylation site protein the N-glycosylation site Fterm Site protein site In this work, we have determined the quantitative distribution of AF-hSP-D oligomers, characterized the sugars attached through the N-glycosylation site of the protein, and compared the activity of hSP-D from AF and PAP with respect to their ability to bind and agglutinate bacteria. 31156631 8 42 gly deglycosylation 828:842 arg1 N-linked α-gal-containing proteins N-linked α-gal-containing proteins PNGase F treatment confirmed the deglycosylation of N-linked α-gal-containing proteins in tick salivary glands. 28922609 12 12 gly FAC 2195:2197 arg1 secreted, glycosylation site secreted, glycosylation site site Conversely, disulfide bond was unique to FAC; secreted, glycosylation site: N-linked, glycosylation, glycoprotein, polymorphism, and sequence variant were associated solely with FAP. 28922609 12 76 gly glycoprotein 2255:2266 arg1 glycoprotein glycoprotein Fterm glycoprotein Conversely, disulfide bond was unique to FAC; secreted, glycosylation site: N-linked, glycosylation, glycoprotein, polymorphism, and sequence variant were associated solely with FAP. 32001344 6 67 gly glycosylation 986:998 arg1 the protein the protein Fterm protein We further show that N-linked glycosylation is required for efficient secretion and solubility of the protein. 30852271 0 36 part_of protein 39:45 arg1 the membrane protein ectodomain membrane protein the membrane protein ectodomain PUBTATOR Site membrane protein 935182 ectodomain N-Linked glycosylation of the membrane protein ectodomain regulates infectious bronchitis virus-induced ER stress response, apoptosis and pathogenesis. 30852271 0 38 part_of membrane 30:37 arg1 the membrane protein ectodomain membrane protein the membrane protein ectodomain PUBTATOR Site membrane protein 935182 ectodomain N-Linked glycosylation of the membrane protein ectodomain regulates infectious bronchitis virus-induced ER stress response, apoptosis and pathogenesis. 31275257 1 32 gly origin 285:290 arg1 dietary glycans origin dietary glycans Fterm origin The human Intestinal mucus is formed by glycoproteins, the O- and N-linked glycans which constitute a crucial source of carbon for commensal gut bacteria, especially when deprived of dietary glycans of plant origin. 31275257 1 73 gly glycoproteins 117:129 arg1 glycoproteins glycoproteins O- Fterm glycoproteins The human Intestinal mucus is formed by glycoproteins, the O- and N-linked glycans which constitute a crucial source of carbon for commensal gut bacteria, especially when deprived of dietary glycans of plant origin. 31275257 1 73 gly glycoproteins 117:129 arg1 glycoproteins glycoproteins N-linked glycans Fterm glycoproteins The human Intestinal mucus is formed by glycoproteins, the O- and N-linked glycans which constitute a crucial source of carbon for commensal gut bacteria, especially when deprived of dietary glycans of plant origin. 31498587 5 16 gly glycopeptides 676:688 arg2 MUC1-Tf and -STn glycopeptides MUC1-Tf and -STn glycopeptides glycopeptides The conjugates of MUC1-Tf and -STn glycopeptides with Qβ were utilized to immunize immune-tolerant human MUC1 transgenic (MUC1.Tg) mice, which elicited superior levels of anti-MUC1 IgG antibodies with titers reaching over 2 million units. 30476078 8 107 gly sialylation 1657:1667 arg1 the MC38-glycovariants MC38-glycovariants sialylation Fterm MC38-glycovariants Moreover, Lewisx expression was found to influence core-fucosylation, sialylation, antennarity and the subtypes of N-glycans in the MC38-glycovariants. 30476078 8 103 gly core-fucosylation 1638:1654 arg1 the MC38-glycovariants MC38-glycovariants core-fucosylation Fterm MC38-glycovariants Moreover, Lewisx expression was found to influence core-fucosylation, sialylation, antennarity and the subtypes of N-glycans in the MC38-glycovariants. 30476078 8 103 gly core-fucosylation 1638:1654 arg1 the MC38-glycovariants MC38-glycovariants N-glycans Fterm MC38-glycovariants Moreover, Lewisx expression was found to influence core-fucosylation, sialylation, antennarity and the subtypes of N-glycans in the MC38-glycovariants. 30476078 8 107 gly sialylation 1657:1667 arg1 the MC38-glycovariants MC38-glycovariants N-glycans Fterm MC38-glycovariants Moreover, Lewisx expression was found to influence core-fucosylation, sialylation, antennarity and the subtypes of N-glycans in the MC38-glycovariants. 29531238 4 1 part_of sites 805:809 arg1 4,412 glycoproteins glycoproteins sites Fterm Site glycoproteins sites Only 27.4% of all NLGs are experimentally validated sites on 4,412 glycoproteins. 28490633 11 56 gly glycoproteins 1717:1729 arg1 misfolded glycoproteins misfolded glycoproteins Fterm glycoproteins In conclusion, we have determined the UGGT structure, which enabled us to develop a plausible functional model of the mechanism for UGGT's selectivity for misfolded glycoproteins. 33030205 7 15 part_of domains 1494:1500 arg1 glycoprotein-specific peptidases peptidases domains OGER Site peptidases P28838 domains This structural evidence provides unprecedented insight into how the ancillary domains in glycoprotein-specific peptidases can noncatalytically recognize specific glycosylated motifs that are common in mucin and mucin-like molecules. 29237830 7 42 gly glycoprotein 1085:1096 arg1 LASV glycoprotein LASV glycoprotein Fterm glycoprotein To study LASV receptor use in the context of productive arenavirus infection, we employed recombinant lymphocytic choriomeningitis virus expressing LASV glycoprotein (rLCMV-LASV GP) as a validated biosafety level 2 (BSL2) model. 30944176 4 33 gly glycosylation 567:579 arg2 this glycosylation site this glycosylation site site All contemporary ZIKV isolates encode an N-linked glycosylation site in the envelope (E) protein (N154), but this glycosylation site is absent in many historical ZIKV isolates. 30944176 4 63 gly glycosylation 503:515 arg2 an N-linked glycosylation site an N-linked glycosylation site site All contemporary ZIKV isolates encode an N-linked glycosylation site in the envelope (E) protein (N154), but this glycosylation site is absent in many historical ZIKV isolates. 29030255 7 62 part_of CA 914:915 arg1 the protein sequence CA VI the protein sequence PUBTATOR Site CA VI 765 sequence Moreover, alignment of two or more sequences revealed that the protein sequence of pufferfish CA VI has 34%-37% identity with mammalian and fish CA II sequences. 29030255 7 71 part_of protein 883:889 arg1 the protein sequence protein the protein sequence Fterm Site protein sequence Moreover, alignment of two or more sequences revealed that the protein sequence of pufferfish CA VI has 34%-37% identity with mammalian and fish CA II sequences. 29030255 7 100 part_of II 968:969 arg1 mammalian and fish CA II sequences CA II mammalian and fish CA II sequences PUBTATOR Site CA II 760 sequences Moreover, alignment of two or more sequences revealed that the protein sequence of pufferfish CA VI has 34%-37% identity with mammalian and fish CA II sequences. 29030255 7 106 part_of CA 965:966 arg1 mammalian and fish CA II sequences CA II mammalian and fish CA II sequences PUBTATOR Site CA II 760 sequences Moreover, alignment of two or more sequences revealed that the protein sequence of pufferfish CA VI has 34%-37% identity with mammalian and fish CA II sequences. 30550553 1 59 gly motif 174:178 arg1 two phenylalanines two phenylalanines phenylalanines The glycolipid transfer protein, GLTP, can be found in the cytoplasm, and it has a FFAT-like motif (two phenylalanines in an acidic tract) that targets it to the endoplasmic reticulum (ER). 31498587 3 24 part_of MUC1 434:437 arg1 MUC1 glycopeptides SAPDT*RPAP (T* is the glycosylation site) MUC1 MUC1 glycopeptides SAPDT*RPAP (T* is the glycosylation site) PUBTATOR Site MUC1 17829 glycopeptides In order to target these antigens as potential anticancer vaccines, MUC1 glycopeptides SAPDT*RPAP (T* is the glycosylation site) bearing the Tf and the STn antigen, respectively, have been synthesized. 31498587 3 67 part_of T 465:465 arg1 the glycosylation site T the glycosylation site PUBTATOR Site T 21956 site In order to target these antigens as potential anticancer vaccines, MUC1 glycopeptides SAPDT*RPAP (T* is the glycosylation site) bearing the Tf and the STn antigen, respectively, have been synthesized. 34257876 10 22 gly glycosylation 1552:1564 arg2 the site the site site With this approach, information on the site of glycosylation, the glycoform, the source protein, and the target protein of the cross-linked pair were obtained. 30523150 1 61 gly levels 233:238 arg1 cellular proteins proteins levels Fterm proteins The addition of a single β-d-GlcNAc sugar (O-GlcNAc) by O-GlcNAc-transferase (OGT) and O-GlcNAc removal by O-GlcNAcase (OGA) maintain homeostatic O-GlcNAc levels on cellular proteins. 32965048 7 51 gly N-glycopeptides 1433:1447 arg2 2986 intact N-glycopeptides 2986 intact N-glycopeptides N-glycopeptides RESULTS We identified 2986 intact N-glycopeptides with comprehensive site and structure information for the peptide backbones (amino acid sequences and N-glycosites) and the N-glycan moieties (monosaccharide compositions, sequences/linkages). 32965048 7 83 gly N-glycosites 1551:1562 arg2 N-glycosites N-glycosites sequences and N-glycosites RESULTS We identified 2986 intact N-glycopeptides with comprehensive site and structure information for the peptide backbones (amino acid sequences and N-glycosites) and the N-glycan moieties (monosaccharide compositions, sequences/linkages). 32965048 7 111 gly backbones 1515:1523 arg1 amino acid sequences sequences and N-glycosites sequences and N-glycosites RESULTS We identified 2986 intact N-glycopeptides with comprehensive site and structure information for the peptide backbones (amino acid sequences and N-glycosites) and the N-glycan moieties (monosaccharide compositions, sequences/linkages). 29769320 9 5 part_of OGT 1615:1617 arg1 the TPR regions OGT the TPR regions PUBTATOR Site OGT 8473 regions Thus, here we reveal two additional mutations encoding residues in the TPR regions of OGT that appear causal for XLID and provide evidence that the relatively stable and active TPR variants may share a common, unelucidated mechanism of altering gene expression profiles in human embryonic stem cells. 29769320 9 57 part_of TPR 1600:1602 arg1 the TPR regions TPR the TPR regions PUBTATOR Site TPR 7175 regions Thus, here we reveal two additional mutations encoding residues in the TPR regions of OGT that appear causal for XLID and provide evidence that the relatively stable and active TPR variants may share a common, unelucidated mechanism of altering gene expression profiles in human embryonic stem cells. 27343203 4 81 gly glycosylation 725:737 arg2 the N-linked glycosylation site the N-linked glycosylation site site One variant comprised the full extracellular portion of CD23, including the stalk and head domain; 1 variant was identical with the first, except for an amino acid exchange in the stalk region abolishing the N-linked glycosylation site; and 2 variants represented the head domain, 1 complete and 1 truncated. 32374435 8 42 gly glycoprotein 1706:1717 arg1 safe glycoprotein pharmaceutical production safe glycoprotein pharmaceutical production Fterm glycoprotein Our findings reinforce accumulating evidence that robustly customizing the N-glycosylation pathway in P. pastoris to produce particular human-type structures is still an incompletely solved synthetic biology challenge, which will require further innovation to enable safe glycoprotein pharmaceutical production. 29339411 5 27 gly glycosylation 1056:1068 arg2 the multiple sites the multiple sites sites From the multiple sites of glycosylation, five were unambiguously identified on the 437-amino acid C9LY14 protein (Thr149, Ser182, Thr199, Thr259, and Ser334), the only flagellin protein identified. 29339411 5 6 gly protein 1135:1141 arg1 Ser182 Thr149, Ser182, Thr199, Thr259, and Ser334 Thr149, Ser182, Thr199, Thr259, and Ser334 From the multiple sites of glycosylation, five were unambiguously identified on the 437-amino acid C9LY14 protein (Thr149, Ser182, Thr199, Thr259, and Ser334), the only flagellin protein identified. 29339411 5 6 gly protein 1135:1141 arg1 Thr149 Thr149, Ser182, Thr199, Thr259, and Ser334 Thr149, Ser182, Thr199, Thr259, and Ser334 From the multiple sites of glycosylation, five were unambiguously identified on the 437-amino acid C9LY14 protein (Thr149, Ser182, Thr199, Thr259, and Ser334), the only flagellin protein identified. 29339411 5 6 gly protein 1135:1141 arg1 Thr259 Thr149, Ser182, Thr199, Thr259, and Ser334 Thr149, Ser182, Thr199, Thr259, and Ser334 From the multiple sites of glycosylation, five were unambiguously identified on the 437-amino acid C9LY14 protein (Thr149, Ser182, Thr199, Thr259, and Ser334), the only flagellin protein identified. 29339411 5 6 gly protein 1135:1141 arg1 Ser334 Thr149, Ser182, Thr199, Thr259, and Ser334 Thr149, Ser182, Thr199, Thr259, and Ser334 From the multiple sites of glycosylation, five were unambiguously identified on the 437-amino acid C9LY14 protein (Thr149, Ser182, Thr199, Thr259, and Ser334), the only flagellin protein identified. 29339411 5 6 gly protein 1135:1141 arg1 Thr149 Thr149, Ser182, Thr199, Thr259, and Ser334 Thr149, Ser182, Thr199, Thr259, and Ser334 From the multiple sites of glycosylation, five were unambiguously identified on the 437-amino acid C9LY14 protein (Thr149, Ser182, Thr199, Thr259, and Ser334), the only flagellin protein identified. 29339411 5 6 gly protein 1135:1141 arg1 Thr259 Thr149, Ser182, Thr199, Thr259, and Ser334 Thr149, Ser182, Thr199, Thr259, and Ser334 From the multiple sites of glycosylation, five were unambiguously identified on the 437-amino acid C9LY14 protein (Thr149, Ser182, Thr199, Thr259, and Ser334), the only flagellin protein identified. 29339411 5 6 gly protein 1135:1141 arg1 Ser334 Thr149, Ser182, Thr199, Thr259, and Ser334 Thr149, Ser182, Thr199, Thr259, and Ser334 From the multiple sites of glycosylation, five were unambiguously identified on the 437-amino acid C9LY14 protein (Thr149, Ser182, Thr199, Thr259, and Ser334), the only flagellin protein identified. 29339411 5 6 gly protein 1135:1141 arg1 Thr259 Thr149, Ser182, Thr199, Thr259, and Ser334 Thr149, Ser182, Thr199, Thr259, and Ser334 From the multiple sites of glycosylation, five were unambiguously identified on the 437-amino acid C9LY14 protein (Thr149, Ser182, Thr199, Thr259, and Ser334), the only flagellin protein identified. 29339411 5 6 gly protein 1135:1141 arg1 Ser334 Thr149, Ser182, Thr199, Thr259, and Ser334 Thr149, Ser182, Thr199, Thr259, and Ser334 From the multiple sites of glycosylation, five were unambiguously identified on the 437-amino acid C9LY14 protein (Thr149, Ser182, Thr199, Thr259, and Ser334), the only flagellin protein identified. 29339411 5 6 gly protein 1135:1141 arg1 Ser334 Thr149, Ser182, Thr199, Thr259, and Ser334 Thr149, Ser182, Thr199, Thr259, and Ser334 From the multiple sites of glycosylation, five were unambiguously identified on the 437-amino acid C9LY14 protein (Thr149, Ser182, Thr199, Thr259, and Ser334), the only flagellin protein identified. 32699088 4 52 gly glycosylation 692:704 arg2 head glycosylation sites head glycosylation sites sites Variable sites are almost exclusive to H1N1 IAVs of human origin, where the number of head glycosylation sites first increased over time and then decreased with and after the introduction of the 2009 pandemic H1N1 IAV of Eurasian swine origin. 32109505 5 66 gly glycosylation 681:693 arg2 the sole glycosylation site the sole glycosylation site site Here, experimental data performed with deglycosylating agents assess that the sole glycosylation site contains complex glycans with a molecular weight of 2.5 kDa. 32109505 5 35 gly contains 700:707 arg1 the sole glycosylation site AND complex glycans the sole glycosylation site complex glycans site Here, experimental data performed with deglycosylating agents assess that the sole glycosylation site contains complex glycans with a molecular weight of 2.5 kDa. 30029404 0 41 gly glycopeptides 125:137 arg2 N-linked glycopeptides N-linked glycopeptides glycopeptides Preparation of iminodiacetic acid functionalized silica capillary trap column for on-column selective enrichment of N-linked glycopeptides. 33560857 4 19 gly N-glycosylation 787:801 arg2 21 out of 28 potential N-glycosylation sites 21 out of 28 potential N-glycosylation sites sites The present study investigated CEA samples purified from human colon carcinoma and human liver metastases and enabled the characterization of 21 out of 28 potential N-glycosylation sites with respect to their occupancy. 30069741 4 40 gly sialylated 719:728 arg1 sialylated proteins sialylated proteins Fterm proteins The precise replication of human glycans is challenging, owing to the absence of a pathway in plants for the synthesis of sialylated proteins and the necessary precursors, but this can now be achieved by the coordinated expression of multiple human enzymes. 31783892 4 39 part_of PDCD1 622:626 arg1 the coding sequence PDCD1 the coding sequence PUBTATOR Site PDCD1 Q15116 sequence Our results showed ABE editing altered the coding sequence of N74 residue of PDCD1 and downregulated PD-1 expression in CAR-T cells. 34106099 2 63 gly glycosylated 291:302 arg1 Many proteins Many proteins Fterm proteins Many proteins in the brain associated with the synapse and important for synaptic transmission are highly glycosylated and their glycosylation could be important for learning and memory related molecular processes and synaptic plasticity. 28679762 6 115 gly glycosylated 1077:1088 arg1 an N-linked glycosylated protein an N-linked glycosylated protein Fterm protein While we find that AAVR is an N-linked glycosylated protein, this glycosylation is not a strict requirement for AAV2 binding or functional transduction. 33177111 1 11 gly glycoproteins 210:222 arg1 glycoproteins glycoproteins Fterm glycoproteins Altered glycosylations, which are associated with expression and activities of glycosyltransferases, can dramatically affect the function of glycoproteins and modify the behavior of tumor cells. 28535613 7 31 part_of rhBMP-4 1298:1304 arg1 The N-terminal amino acid sequences rhBMP-4 The N-terminal amino acid sequences OGER Site rhBMP-4 P12644 sequences The N-terminal amino acid sequences and N-linked glycosylation of the purified rhBMP-4 were confirmed by N-terminal sequencing and de-N-glycosylation analysis, respectively. 31932305 10 3 part_of GPI 1484:1486 arg1 the GPI ω-site GPI the GPI ω-site OGER Site GPI P06744 ω-site However, increasing the spacing between E6 protein and the GPI ω-site (aa 4-7) resulted in extensive post-translational processing of the GPI anchor to a form that was TL/ECL-reactive, suggesting the addition of LacNAc structures, confirmed by identical assays with BiPNHP, a non-N-glycosylated GPI-anchored reporter. 30814666 8 35 gly Mtb glycoproteins 975:991 arg1 Mtb glycoproteins Mtb glycoproteins Fterm Mtb glycoproteins Collectively, the bulk of Mtb glycoproteins are involved in cell envelope biosynthesis, fatty acid and lipid metabolism, two-component systems, and pathogen-host interaction that are either surface exposed or located in the cell wall. 32915505 0 14 part_of Protein 103:109 arg1 the Receptor Binding Domain Spike Protein the Receptor Binding Domain PUBTATOR Spike Protein 43740568 Structural Characterization of N-Linked Glycans in the Receptor Binding Domain of the SARS-CoV-2 Spike Protein and their Interactions with Human Lectins. 29793953 12 8 gly either 2357:2362 arg1 sites sites sites NTCP introduced to HepG2 cells was glycosylated at two N-linked glycosylation sites, but mutating either or both sites failed to prevent infection by cell culture-derived HBV or to confer susceptibility to serum-derived HBV. 29793953 12 24 gly glycosylation 2323:2335 arg2 two N-linked glycosylation sites two N-linked glycosylation sites sites NTCP introduced to HepG2 cells was glycosylated at two N-linked glycosylation sites, but mutating either or both sites failed to prevent infection by cell culture-derived HBV or to confer susceptibility to serum-derived HBV. 29793953 12 25 gly glycosylated 2294:2305 arg1 NTCP NTCP sites PUBTATOR NTCP 6554 sites NTCP introduced to HepG2 cells was glycosylated at two N-linked glycosylation sites, but mutating either or both sites failed to prevent infection by cell culture-derived HBV or to confer susceptibility to serum-derived HBV. 29622560 2 39 part_of disintegrin 275:285 arg1 thrombospondin motifs disintegrin thrombospondin motifs Fterm Site disintegrin motifs The ADAMTS (a disintegrin and metalloproteinase with thrombospondin motifs) family of proteases has recently been implicated in TAA formation. 29622560 2 46 part_of metalloproteinase 291:307 arg1 thrombospondin motifs metalloproteinase thrombospondin motifs Fterm Site metalloproteinase motifs The ADAMTS (a disintegrin and metalloproteinase with thrombospondin motifs) family of proteases has recently been implicated in TAA formation. 30905461 3 79 gly glycoproteins 294:306 arg1 glycoproteins glycoproteins Fterm glycoproteins SA in glycoproteins modulates a wide range of physiological and pathological processes and has been routinely measured in hospital since 1950s. 29562282 8 47 gly glycoprotein 1245:1256 arg1 a heavily O-GlcNAcylated and abundant nuclear pore glycoprotein NUP62 a heavily O-GlcNAcylated and abundant nuclear pore glycoprotein OGER NUP62 P37198 Confocal imaging shows that AANL co-localizes extensively with NUP62, a heavily O-GlcNAcylated and abundant nuclear pore glycoprotein. 33578083 8 15 gly glycosylated 1863:1874 arg1 glycosylated neuropeptides glycosylated neuropeptides neuropeptides We demonstrate the utility of these new software features by finding previously unrecognized glycopeptides in publicly available data, including glycosylated neuropeptides from rat brain. 33578083 8 79 gly glycopeptides 1811:1823 arg2 previously unrecognized glycopeptides previously unrecognized glycopeptides glycopeptides We demonstrate the utility of these new software features by finding previously unrecognized glycopeptides in publicly available data, including glycosylated neuropeptides from rat brain. 33578083 8 79 gly glycopeptides 1811:1823 arg2 glycosylated neuropeptides glycosylated neuropeptides neuropeptides We demonstrate the utility of these new software features by finding previously unrecognized glycopeptides in publicly available data, including glycosylated neuropeptides from rat brain. 35518855 9 66 gly fucosylated 1437:1447 arg1 the fucosylated N-glycans the fucosylated N-glycans And the abundance of the fucosylated N-glycans was increased from 40.9% (PCTs) to 48.3% (LUSC). 33205259 5 28 gly glycosylation 920:932 arg2 site site site Here we provide a perspective overview on the MS-based technologies relevant for biotherapeutic product characterisation with an emphasis on the recent developments that allow determination of glycosylation features such as site of glycosylation, sialic acid linkage, glycan structure, and content. 28366604 8 32 part_of CD4i 1303:1306 arg1 the CD4i domain CD4i the CD4i domain PUBTATOR Site CD4i 920 domain Thus, we identified a determinant of the CD4i domain that might affect vaccine-elicited anti-V2 Ab and ADCC responses to SIVmac239. 31810853 6 78 part_of have 954:957 arg1 antigenic proteins AND a signal peptide antigenic proteins a signal peptide Fterm Site proteins peptide Also, further prediction analyses including structural, B cell and MHC-I/II epitope sites as well as post-translational modifications were performed for antigenic proteins that have a signal peptide or a high antigenicity value. 34864596 10 31 gly fucosylated 1698:1708 arg1 the mostly core fucosylated biantennary glycans the mostly core fucosylated biantennary glycans The results suggested no ADCC function - structure relationship due to the mostly core fucosylated biantennary glycans found. 34523671 3 13 gly engineered 935:944 arg1 sequon sequon sequon Using RP-HPLC with a novel phenyl bonded phase to resolve intact protein glycoforms, the effect of sequon mutation on O-glycosylation initiation was examined through in vitro modification of the naturally O-glycosylated human interferon α-2b, and a sequon engineered human growth hormone. 34523671 3 99 gly glycoforms 752:761 arg1 intact protein glycoforms intact protein glycoforms Fterm protein Using RP-HPLC with a novel phenyl bonded phase to resolve intact protein glycoforms, the effect of sequon mutation on O-glycosylation initiation was examined through in vitro modification of the naturally O-glycosylated human interferon α-2b, and a sequon engineered human growth hormone. 34343291 8 52 part_of insulin-binding 1126:1140 arg1 insulin-binding residues insulin insulin-binding residues PUBTATOR Site insulin 3630 residues The perturbations include an increase in the flexibility of insulin-binding residues, which may affect insulin binding with IR. 29622560 1 8 part_of ECM 233:235 arg1 composition ECM composition OGER Site ECM Q13201 position OBJECTIVE Thoracic aortic aneurysm (TAA), a degenerative disease of the aortic wall, is accompanied by changes in the structure and composition of the aortic ECM (extracellular matrix). 31341641 11 42 gly glycosylation 1730:1742 arg2 N-linked glycosylation sites N-linked glycosylation sites sites Furthermore, we observed that the nucleotide composition of indels was distinct from the flanking sequence, with higher frequencies of G and lower frequencies of T. Indels affected N-linked glycosylation sites more often in V1 and V2 than expected by chance, consistent with positive selection on glycosylation patterns within these regions. 30178920 4 11 gly glycopeptides 1041:1053 arg2 glycopeptides glycopeptides glycopeptides The monolith is also employed to the digests mixture of BSA and IgG (50:1, m/m), indicating the high enrichment selectivity of glycopeptides even in the presence of a large interference ratio. 31787385 5 36 gly glycoprotein 915:926 arg1 a glycoprotein a glycoprotein Fterm glycoprotein The SL-bioemulsifier produced by strain SL-1 was identified as a glycoprotein with stable emulsifying activity over a wide range of environmental conditions. 32559081 1 1 gly glycosylated 171:182 arg1 a fully glycosylated full-length SARS-CoV-2 spike (S) protein a fully glycosylated full-length SARS-CoV-2 spike (S) protein Fterm protein This technical study describes all-atom modeling and simulation of a fully glycosylated full-length SARS-CoV-2 spike (S) protein in a viral membrane. 32559081 1 47 gly protein 217:223 arg1 all-atom modeling and simulation protein all-atom modeling and simulation Fterm protein This technical study describes all-atom modeling and simulation of a fully glycosylated full-length SARS-CoV-2 spike (S) protein in a viral membrane. 30177911 9 9 gly glycosylated 1589:1600 arg1 proteins proteins Fterm proteins In a more original way, our proteomic analyses, confirmed by sWGA-enrichment and click-chemistry, revealed that rhoptries, proteins necessary for invasion, are glycosylated. 32168410 14 70 gly deglycosylation 1652:1666 arg1 the native protein the native protein Fterm protein Complete deglycosylation of the native protein was achieved by a deglycosylation workflow. 29562282 1 40 part_of proteins 206:213 arg1 threonine proteins threonine Fterm AminoAcid proteins threonine O-linked N-acetylglucosamine (O-GlcNAcylation) is an important post-translational modification on serine or threonine of proteins, mainly observed in nucleus or cytoplasm. 29562282 1 40 part_of proteins 206:213 arg1 serine proteins serine Fterm AminoAcid proteins serine O-linked N-acetylglucosamine (O-GlcNAcylation) is an important post-translational modification on serine or threonine of proteins, mainly observed in nucleus or cytoplasm. 34885895 4 50 gly glycosylated 566:577 arg1 Not all N-X-[S/T] sequons Not all N-X-[S/T] sequons Not all N-X-[S/T] sequons are glycosylated, thus the N-X-[S/T] sequon is a necessary but not sufficient determinant for protein glycosylation. 30375453 9 13 part_of ADAMTS13 1261:1268 arg1 ADAMTS13 cleavage site ADAMTS13 ADAMTS13 cleavage site PUBTATOR Site ADAMTS13 11093 site Systems with N-linked glycans encountered higher energy barriers for full unfolding and even for unfolding up to the point of ADAMTS13 cleavage site exposure. 30149081 6 4 gly glycoproteins 973:985 arg1 glycoproteins glycoproteins Fterm glycoproteins The hemagglutination activity of rHEL2 lectins was strongly inhibited by glycoproteins containing mucin-type O-glycans. 30149081 6 57 gly containing 987:996 arg1 glycoproteins AND mucin-type O-glycans glycoproteins mucin-type O-glycans Fterm glycoproteins The hemagglutination activity of rHEL2 lectins was strongly inhibited by glycoproteins containing mucin-type O-glycans. 32334683 8 1 gly glycoproteins 1319:1331 arg1 glycoproteins glycoproteins Fterm glycoproteins We show that FTIR spectra of glycoproteins provide a global but accurate fingerprint of the glycosylation profile. 33263330 9 37 gly glycoproteins 1789:1801 arg1 homogeneous glycoproteins homogeneous glycoproteins Fterm glycoproteins It is proposed that the GlycoDelete cell line could serve as a valuable go-to option for the production of homogeneous glycoproteins and their complexes for structural studies by X-ray crystallography and cryo-electron microscopy. 34687007 6 25 gly glycopeptides 1156:1168 arg2 glycopeptides glycopeptides glycopeptides General principles and practical examples of the most often used LC methods for Ig purification are described, together with typical workflows for N- and O-glycan analysis on the level of free glycans, glycopeptides, subunits, or intact Igs. 29869806 3 27 gly O-glycoproteins 780:794 arg1 O-glycoproteins O-glycoproteins Fterm O-glycoproteins Here, we illustrate the potential of integrating data from capillary electrophoresis of transferrin, two-dimensional electrophoresis of N- and O-glycoproteins, mass spectrometry analyses of total serum N-linked glycans and mucin core1 O-glycosylated apolipoprotein C-III for the determination of various culprit CDG gene mutations. 31275257 9 30 part_of mucin 1386:1390 arg1 several mucin motifs mucin several mucin motifs PUBTATOR Site mucin 100508689 motifs In total, the structural modification of several mucin motifs, sialylated mucin ones in particular, was evidenced for nine clones. 31275257 9 35 part_of mucin 1411:1415 arg1 several mucin motifs mucin several mucin motifs PUBTATOR Site mucin 100508689 motifs In total, the structural modification of several mucin motifs, sialylated mucin ones in particular, was evidenced for nine clones. 29708979 4 51 part_of MUC16 583:587 arg1 the retained carboxy-terminal (CT) fragment MUC16 the retained carboxy-terminal (CT) fragment PUBTATOR Site MUC16 94025 fragment Recent reports have indicated that the retained carboxy-terminal (CT) fragment of MUC16 might play an important role in tumorigenicity in diverse types of cancers. 33107910 3 52 gly N-glycosylation 339:353 arg2 An N-glycosylation site An N-glycosylation site site An N-glycosylation site was introduced at position 178 of the H chain constant region of adalimumab Fab through site-directed mutagenesis (H:L178N Fab), and the H:L178N Fab was produced in Pichia pastoris. 29746846 2 29 gly distribution 357:368 arg1 different placental regions different placental regions different placental regions Site regions Our aim was to determine how O-GlcNAc levels are affected by hyperglycemia and the O-GlcNAc distribution in different placental regions. 30445613 7 34 gly N-glycosylated 1097:1110 arg1 an N-glycosylated protein database an N-glycosylated protein database Fterm database We further screened an N-glycosylated protein database of C. elegans, and identified 456 germline-expressed genes coding N-glycosylated proteins. 30445613 7 69 gly N-glycosylated 1195:1208 arg1 N-glycosylated proteins N-glycosylated proteins Fterm proteins We further screened an N-glycosylated protein database of C. elegans, and identified 456 germline-expressed genes coding N-glycosylated proteins. 32409993 3 3 gly N-glycans 528:536 arg1 a protein protein N-glycans Fterm protein The studies have shown that many glycoproteins hold multiple N-glycans, yet little is known about the redundancy of N-glycans on a protein. 32409993 3 54 gly glycoproteins 445:457 arg1 many glycoproteins many glycoproteins Fterm glycoproteins The studies have shown that many glycoproteins hold multiple N-glycans, yet little is known about the redundancy of N-glycans on a protein. 32298658 2 54 gly glycosylation 362:374 arg2 gain glycosylation sites gain glycosylation sites sites Additionally, human-adapted HAs gain glycosylation sites over time, although their biological function is poorly defined. 30040982 3 24 gly N-glycosylated 373:386 arg1 membrane proteins membrane proteins Fterm proteins Both GFRA1 and RET are membrane proteins which are N-glycosylated but no O-linked sialylation site on GFRA1 or RET has been reported. 28254785 3 14 gly modifications 509:521 arg1 Notch1 epidermal growth factor-like (EGF) domains 8 and 12 Notch1 epidermal growth factor-like (EGF) domains 8 and 12 Notch1 epidermal growth factor-like (EGF) domains 8 and 12 Site domains O-Linked fucose modifications on Notch1 epidermal growth factor-like (EGF) domains 8 and 12 engage the EGF3 and C2 domains of Jag1, respectively, and different Notch1 domains are favored in binding to Jag1 than those that bind to the Delta-like 4 ligand. 30042931 2 35 gly glycosylation 440:452 arg2 two glycosylation sites two glycosylation sites sites JEV E protein has one N-linked glycosylation site at N154 (G2 site), but the related dengue virus E protein has two glycosylation sites at N67 (G1 site) and N153 (G2 site). 30042931 2 85 gly glycosylation 355:367 arg2 one N-linked glycosylation site one N-linked glycosylation site site JEV E protein has one N-linked glycosylation site at N154 (G2 site), but the related dengue virus E protein has two glycosylation sites at N67 (G1 site) and N153 (G2 site). 34545811 2 4 gly N-glycans 323:331 arg1 surface glycoproteins glycoproteins N-glycans Fterm glycoproteins Here, we observed that N-glycans on surface glycoproteins of dendrites shift from immature to mature forms containing sialic acid in response to increased neuronal activation. 34545811 2 45 gly glycoproteins 344:356 arg1 surface glycoproteins surface glycoproteins Fterm glycoproteins Here, we observed that N-glycans on surface glycoproteins of dendrites shift from immature to mature forms containing sialic acid in response to increased neuronal activation. 30021839 7 54 part_of EDEM1 1382:1386 arg1 the C terminus EDEM1 the C terminus PUBTATOR Site EDEM1 9695 terminus Lastly, we identified an additional intrinsically disordered region (IDR) located at the C terminus of EDEM1 in addition to its previously identified N-terminal IDR. 30514763 4 48 gly glycosylation 790:802 arg2 three O-linked glycosylation sites three O-linked glycosylation sites sites Using affinity-purified MIC2 and MS/MS analysis along with enzymatic digestion assays, we observed that at least seven C-linked and three O-linked glycosylation sites exist within MIC2, with >95% occupancy at these O-glycosylation sites. 30514763 4 59 gly O-glycosylation 858:872 arg2 these O-glycosylation sites these O-glycosylation sites sites Using affinity-purified MIC2 and MS/MS analysis along with enzymatic digestion assays, we observed that at least seven C-linked and three O-linked glycosylation sites exist within MIC2, with >95% occupancy at these O-glycosylation sites. 29842980 9 24 part_of glycoprotein 1448:1459 arg1 additional N-linked glycosylation site glycoprotein additional N-linked glycosylation site Fterm Site glycoprotein site Presence of additional N-linked glycosylation site at amino acid 283 of VP7 glycoprotein suggests that the major neutralizing epitope on the VP7 (G3) of RotaTeq vaccine differs from the currently circulating G3 strains. 29842980 9 37 part_of epitope 1498:1504 arg1 the VP7 VP7 epitope Cterm Site VP7 epitope Presence of additional N-linked glycosylation site at amino acid 283 of VP7 glycoprotein suggests that the major neutralizing epitope on the VP7 (G3) of RotaTeq vaccine differs from the currently circulating G3 strains. 29864502 6 72 gly glycosylation 1109:1121 arg2 a non-conserved N-linked glycosylation site a non-conserved N-linked glycosylation site site Overall, analysis of antigenic sites in the VP7 protein demonstrated the presence of several amino acid substitutions in the epitopes exposed on the surface including a non-conserved N-linked glycosylation site (D123N) in G14P[12] strains, while changes in antigenic sites of VP8* were minor. 33998969 1 1 gly residue 287:293 arg1 AsnXxxThr/Ser sequon AsnXxxThr/Ser sequon sequon N-glycosylation is a complex mechanism in which the carbohydrate molecules bind to the Asn amino acid in the N-glycan consensus sequence (AsnXxxThr/Ser sequon, where Xxx is any residue, excluding Pro). 33998969 1 40 gly sequence 238:245 arg1 any residue any residue residue N-glycosylation is a complex mechanism in which the carbohydrate molecules bind to the Asn amino acid in the N-glycan consensus sequence (AsnXxxThr/Ser sequon, where Xxx is any residue, excluding Pro). 30933973 9 83 gly glycosylation 1826:1838 arg1 gp120 gp120 residues OGER gp120 Q14624 residues Features predicting neutralization sensitivity or resistance included 26 surface-accessible residues in the VRC01 and CD4 binding footprints, the length of gp120, the length of Env, the number of cysteines in gp120, the number of cysteines in Env, and 4 potential N-linked glycosylation sites; the top features will be advanced to the primary sieve analysis. 30933973 9 83 gly glycosylation 1826:1838 arg1 gp120 gp120 sites OGER gp120 Q14624 sites Features predicting neutralization sensitivity or resistance included 26 surface-accessible residues in the VRC01 and CD4 binding footprints, the length of gp120, the length of Env, the number of cysteines in gp120, the number of cysteines in Env, and 4 potential N-linked glycosylation sites; the top features will be advanced to the primary sieve analysis. 31616924 6 83 gly sialylated 996:1005 arg1 sialylated core 1 (Neu5Acα2-3Galβ1-3GalNAcα1-) glycosylation sialylated core 1 (Neu5Acα2-3Galβ1-3GalNAcα1-) glycosylation Plasma APOE held more abundant (20.5%) N-terminal (Thr8) sialylated core 1 (Neu5Acα2-3Galβ1-3GalNAcα1-) glycosylation compared to CSF APOE (0.1%). 34780171 8 58 gly glycosylation 1815:1827 arg1 MET ERBB2 MET PUBTATOR ERBB2 2064 MET Without the immunoprecipitation step, the large-scale glycoproteomic atlas also reveals site-specific glycosylation of many druggable receptor proteins, such as EGFR, MET, ERBB2, ERBB3, AXL, and IGF1R. 34780171 8 58 gly glycosylation 1815:1827 arg1 MET IGF1R MET PUBTATOR IGF1R 3480 MET Without the immunoprecipitation step, the large-scale glycoproteomic atlas also reveals site-specific glycosylation of many druggable receptor proteins, such as EGFR, MET, ERBB2, ERBB3, AXL, and IGF1R. 34780171 8 58 gly glycosylation 1815:1827 arg1 MET EGFR MET PUBTATOR EGFR 1956 MET Without the immunoprecipitation step, the large-scale glycoproteomic atlas also reveals site-specific glycosylation of many druggable receptor proteins, such as EGFR, MET, ERBB2, ERBB3, AXL, and IGF1R. 34780171 8 58 gly glycosylation 1815:1827 arg1 MET ERBB3 MET PUBTATOR ERBB3 2065 MET Without the immunoprecipitation step, the large-scale glycoproteomic atlas also reveals site-specific glycosylation of many druggable receptor proteins, such as EGFR, MET, ERBB2, ERBB3, AXL, and IGF1R. 34780171 8 58 gly glycosylation 1815:1827 arg1 MET AXL MET PUBTATOR AXL 558 MET Without the immunoprecipitation step, the large-scale glycoproteomic atlas also reveals site-specific glycosylation of many druggable receptor proteins, such as EGFR, MET, ERBB2, ERBB3, AXL, and IGF1R. 34780171 8 58 gly glycosylation 1815:1827 arg1 MET proteins MET Fterm proteins MET Without the immunoprecipitation step, the large-scale glycoproteomic atlas also reveals site-specific glycosylation of many druggable receptor proteins, such as EGFR, MET, ERBB2, ERBB3, AXL, and IGF1R. 31139149 1 42 gly proteins 194:201 arg1 The dynamic O-linked-N-acetylglucosamine posttranslational modification proteins The dynamic O-linked-N-acetylglucosamine posttranslational modification Fterm proteins The dynamic O-linked-N-acetylglucosamine posttranslational modification of nucleocytoplasmic proteins has emerged as a key regulator of diverse cellular processes including several hallmarks of cancer. 31139149 1 71 gly modification 160:171 arg1 nucleocytoplasmic proteins AND The dynamic O-linked-N-acetylglucosamine posttranslational modification nucleocytoplasmic proteins The dynamic O-linked-N-acetylglucosamine posttranslational modification Fterm proteins The dynamic O-linked-N-acetylglucosamine posttranslational modification of nucleocytoplasmic proteins has emerged as a key regulator of diverse cellular processes including several hallmarks of cancer. 31336133 0 51 gly hyper-N-glycosylated 98:117 arg1 a hyper-N-glycosylated variant a hyper-N-glycosylated variant Fterm variant Effect of ANITVNITV peptide fusion on the bioactivity and pharmacokinetics of human IFN-α2b and a hyper-N-glycosylated variant. 31967800 3 9 gly N-glycopeptides 856:870 arg2 complex intact N-glycopeptides complex intact N-glycopeptides N-glycopeptides With the recent availability of an independent NCEs setup, we found that the combination of 20%/30%/30% is better than 20%/30%/40%; in the analysis of complex intact N-glycopeptides enriched from gastric cancer tissues, total IDs with spectrum-level FDR ≤ 1%, site-specific IDs with site-determining fragment ions, and structure-specific IDs with structure-diagnostic fragment ions were increased by 42% (4,767 → 6,746), 57% (599 → 942), and 97% (1771 → 3495), respectively. 28511131 8 71 gly glycosylation 1429:1441 arg2 N-linked glycosylation site (NGS) analysis N-linked glycosylation site (NGS) analysis site N-linked glycosylation site (NGS) analysis revealed a novel potential NGS at GP5 amino acid position 59 in two of the subgroup 2 Henan isolates. 30581149 2 49 gly allergenic 450:459 arg1 peptide-specific peptide-specific peptide-specific OBJECTIVES To engineer recombinant glycoproteins resembling carbohydrate-specific IgE epitopes from venoms, pollen and mites which can discriminate carbohydrate-specific IgE from allergenic, peptide-specific IgE. 30581149 2 88 gly glycoproteins 306:318 arg1 recombinant glycoproteins recombinant glycoproteins Fterm glycoproteins OBJECTIVES To engineer recombinant glycoproteins resembling carbohydrate-specific IgE epitopes from venoms, pollen and mites which can discriminate carbohydrate-specific IgE from allergenic, peptide-specific IgE. 30135544 5 34 gly glycosylation 715:727 arg2 the glycosylation site the glycosylation site site In contrast, PrP F198S, a pathological mutant with an altered residue within the glycosylation site, and an unglycosylated PrP mutant, N181D/N197D, primarily exist in the cytoplasm. 33606939 2 28 gly glycosylation 242:254 arg1 viral proteins viral proteins Fterm proteins The extensive glycosylation of viral proteins almost certainly affects the antibody response, but the investigation of such effects is hampered by the huge range of structures and interactions of surface glycans through their inherent complexity and flexibility. 34331854 7 37 gly glycoproteins 1099:1111 arg1 cross-linked N-linked glycoproteins cross-linked N-linked glycoproteins Fterm glycoproteins In addition, covalently cross-linked complexes could be isolated, and protein components of cross-linked N-linked glycoproteins were identified by proteomics analysis. 28408270 1 59 gly serine-rich 149:159 arg1 Pneumococcal serine-rich repeat protein serine Pneumococcal serine-rich repeat protein serine Pneumococcal serine-rich repeat protein (PsrP) is a glycoprotein that mediates Streptococcus pneumoniae attachment to lung cells and promotes biofilm formation. 28408270 1 14 gly glycoprotein 188:199 arg1 Pneumococcal serine-rich repeat protein glycoprotein Pneumococcal serine-rich repeat protein Fterm glycoprotein Pneumococcal serine-rich repeat protein (PsrP) is a glycoprotein that mediates Streptococcus pneumoniae attachment to lung cells and promotes biofilm formation. 33560857 8 63 gly N-glycosylation 1318:1332 arg2 certain N-glycosylation sites certain N-glycosylation sites sites Moreover, notable differences were found on certain N-glycosylation sites between primary adenocarcinoma and metastatic tumor in regard to branching, bisection, sialylation, and fucosylation. 29708979 5 39 part_of CT 729:730 arg1 CT fragment CT CT fragment Cterm Site CT fragment However, limited data is available on the fate and existence of CT fragment on the surface of the cancer cell. 27343203 7 60 part_of unknown 1203:1209 arg1 A hitherto unknown IgE-binding site IgE A hitherto unknown IgE-binding site PUBTATOR Site IgE P01854 site RESULTS: A hitherto unknown IgE-binding site was mapped on the stalk region of CD23, and the non-N-glycosylated monomeric version of CD23 was superior in IgE binding compared with glycosylated CD23. 30982611 3 91 gly glycosylation 640:652 arg2 functionally important N-linked glycosylation (Asn514) and glycosylphosphatidylinositol (GPI) anchor (Ser529) sites functionally important N-linked glycosylation (Asn514) and glycosylphosphatidylinositol (GPI) anchor (Ser529) sites sites This variant, located in the final exon of GPC4, results in premature termination of the protein 51 amino acid residues prior to the stop codon, and in concomitant loss of functionally important N-linked glycosylation (Asn514) and glycosylphosphatidylinositol (GPI) anchor (Ser529) sites. 27728760 1 1 gly glycoproteins 155:167 arg1 glycoproteins glycoproteins Fterm glycoproteins In this report, we use a proteomic strategy to identify glycoproteins on the surface of exosomes derived from myeloid-derived suppressor cells (MDSCs), and then test if selected glycoproteins contribute to exosome-mediated chemotaxis and migration of MDSCs. 27728760 1 57 gly glycoproteins 277:289 arg1 selected glycoproteins selected glycoproteins Fterm glycoproteins In this report, we use a proteomic strategy to identify glycoproteins on the surface of exosomes derived from myeloid-derived suppressor cells (MDSCs), and then test if selected glycoproteins contribute to exosome-mediated chemotaxis and migration of MDSCs. 31194940 1 39 gly glycoprotein 156:167 arg1 HIV-1 envelope glycoprotein HIV-1 envelope glycoprotein Fterm glycoprotein The fusion peptide (FP) of HIV-1 envelope glycoprotein (Env) is essential for mediating viral entry. 34401920 6 3 gly glycosylation 833:845 arg2 at least one glycosylation site at least one glycosylation site site 82 N-linked glycoproteins with at least one glycosylation site were identified. 34401920 6 59 gly glycoproteins 801:813 arg1 82 N-linked glycoproteins 82 N-linked glycoproteins Fterm glycoproteins 82 N-linked glycoproteins with at least one glycosylation site were identified. 30653653 1 8 gly glycoprotein 181:192 arg1 glycoprotein glycoprotein The congenital disorders of glycosylation (CDG) are defects in glycoprotein and glycolipid glycan synthesis and attachment. 33045166 3 16 gly glycopeptides 786:798 arg2 homogeneous N-linked glycopeptides homogeneous N-linked glycopeptides glycopeptides This synthetic strategy demonstrates potential utility in accessing a wide range of homogeneous N-linked glycopeptides for the examination of their biological function. 32022078 7 9 gly deglycosylated 951:964 arg1 the gas-phase deglycosylated peptide the gas-phase deglycosylated peptide peptide Then, searching for Y0 (the gas-phase deglycosylated peptide) in HCD spectra, the potential glycoforms of these glycopeptides could be lined up. 32022078 7 19 gly glycoforms 1005:1014 arg1 these glycopeptides these glycopeptides glycopeptides Then, searching for Y0 (the gas-phase deglycosylated peptide) in HCD spectra, the potential glycoforms of these glycopeptides could be lined up. 32022078 7 42 gly glycopeptides 1025:1037 arg2 these glycopeptides these glycopeptides glycopeptides Then, searching for Y0 (the gas-phase deglycosylated peptide) in HCD spectra, the potential glycoforms of these glycopeptides could be lined up. 31837192 9 27 gly glycoproteins 1674:1686 arg1 several plant-produced glycoproteins several plant-produced glycoproteins Fterm glycoproteins Transient BGAL1 down-regulation by RNA interference (RNAi) and BGAL1 depletion by genome editing drastically reduce β-galactosidase activity in N. benthamiana and increase the amounts of fully galactosylated complex N-glycans on several plant-produced glycoproteins. 30210230 7 126 part_of rh1-1 1272:1276 arg1 highly conserved regions rh1-1 highly conserved regions PUBTATOR Site rh1-1 30295 regions Results Using gRNAs that targeted highly conserved regions of rh1-1, a series of dominant and recessive alleles were recovered that resulted in the rapid degeneration of rod photoreceptors. 32817340 7 3 gly modified 1631:1638 arg3 the S-layer protein AND the same heptameric glycan the S-layer protein the same heptameric glycan Fterm protein In addition, we confirmed that the S-layer protein is modified with the same heptameric glycan, suggesting a common N-glycosylation pathway. 28742148 4 17 gly O-GlcNAc 866:873 arg1 proteins proteins O-GlcNAc Fterm proteins O-GlcNAcylation consists in the addition of O-linked-N-acetylglucosamine (O-GlcNAc) on Serine or Threonine residues, a process controlled by two enzymes: O-GlcNAc transferase (OGT), which transfers O-GlcNAc on proteins, and O-GlcNAcase (OGA), which removes it. 28742148 4 78 gly O-linked-N-acetylglucosamine 712:739 arg1 Threonine Threonine Threonine AminoAcid Threonine residues O-GlcNAcylation consists in the addition of O-linked-N-acetylglucosamine (O-GlcNAc) on Serine or Threonine residues, a process controlled by two enzymes: O-GlcNAc transferase (OGT), which transfers O-GlcNAc on proteins, and O-GlcNAcase (OGA), which removes it. 28742148 4 78 gly O-linked-N-acetylglucosamine 712:739 arg1 Serine Serine Serine AminoAcid Serine O-GlcNAcylation consists in the addition of O-linked-N-acetylglucosamine (O-GlcNAc) on Serine or Threonine residues, a process controlled by two enzymes: O-GlcNAc transferase (OGT), which transfers O-GlcNAc on proteins, and O-GlcNAcase (OGA), which removes it. 30541852 13 111 gly glycosylation 1972:1984 arg1 SLC19A1 and also other residues SLC19A1 and also other residues residues We show that GLN infection is limited to mouse cells due to both a mutation in the mouse gene preventing the glycosylation of SLC19A1 and also other residues conserved within the rat but not in the hamster and human proteins. 28976803 0 21 part_of kinase 6:11 arg1 IP3-4 kinase Arg1 kinase IP3-4 kinase Arg1 Fterm AminoAcid kinase Arg1 IP3-4 kinase Arg1 regulates cell wall homeostasis and surface architecture to promote Cryptococcus neoformans infection in a mouse model. 33554253 3 42 part_of Fab 522:524 arg1 their biotinylated Fab fragments Fab their biotinylated Fab fragments PUBTATOR Site Fab 2187 fragments In this study, the enzyme Sortase A (SrtA) was used for the proteolytic cleavage of rIgGs to produce their biotinylated Fab fragments by locating the cleavage site close to the hinge region. 31000023 2 17 gly glycoprotein 221:232 arg1 a glycoprotein a glycoprotein Fterm glycoprotein It was determined as a glycoprotein comprising 23.65% carbohydrate content with O-linked glycan and showed specific activity of 90.01 ± 1.2 U/mg against laminarin. 30210230 14 8 part_of rh1-1 2096:2100 arg1 the 3'-coding region rh1-1 the 3'-coding region PUBTATOR Site rh1-1 30295 region Targeting of the 3'-coding region of rh1-1 resulted in the recovery of an allele encoding a premature stop codon (S347*) upstream of the conserved VSPA sorting sequence and a second in-frame allele that disrupted the putative phosphorylation site at S339. 30712568 7 0 gly N-glycosylation 1602:1616 arg2 348 unique N-glycosylation sites 348 unique N-glycosylation sites sites Finally, the Fe3O4@PMSA was applied for enriching N-linked glycopeptides from human serum, and 348 unique N-glycosylation sites and 419 glycopeptides from 158 glycoproteins were strictly identified from 1 μL human serum. 30712568 7 9 gly glycopeptides 1555:1567 arg2 N-linked glycopeptides N-linked glycopeptides glycopeptides Finally, the Fe3O4@PMSA was applied for enriching N-linked glycopeptides from human serum, and 348 unique N-glycosylation sites and 419 glycopeptides from 158 glycoproteins were strictly identified from 1 μL human serum. 30712568 7 62 gly glycoproteins 1655:1667 arg1 158 glycoproteins 158 glycoproteins Fterm glycoproteins Finally, the Fe3O4@PMSA was applied for enriching N-linked glycopeptides from human serum, and 348 unique N-glycosylation sites and 419 glycopeptides from 158 glycoproteins were strictly identified from 1 μL human serum. 30712568 7 3 gly glycopeptides 1632:1644 arg1 158 glycoproteins glycoproteins glycopeptides Fterm glycoproteins glycopeptides Finally, the Fe3O4@PMSA was applied for enriching N-linked glycopeptides from human serum, and 348 unique N-glycosylation sites and 419 glycopeptides from 158 glycoproteins were strictly identified from 1 μL human serum. 32281997 7 18 gly glycoprotein 1188:1199 arg1 glycoprotein standards glycoprotein standards Fterm glycoprotein The approach was demonstrated using glycoprotein standards and further applied to analyze the glycosylation of the murine mammary gland NMuMG cell line. 33270232 6 15 gly glycoprotein 665:676 arg1 Ub glycoprotein Ub glycoprotein Fterm glycoprotein Interestingly, immunized rabbits produced antibodies to both Ub glycoprotein and rUb; but antibodies against carbohydrates were immunodominant, rather than antibodies to the protein moiety of EhUbiquitin. 30865517 6 12 gly modification 1238:1249 arg1 complex subunit proteins AND direct increased O-GlcNAc modification complex subunit proteins direct increased O-GlcNAc modification Fterm proteins However, the observed bioenergetic changes appeared not to be due to direct increased O-GlcNAc modification of complex subunit proteins. 30865517 6 45 gly proteins 1270:1277 arg1 direct increased O-GlcNAc modification proteins direct increased O-GlcNAc modification Fterm proteins However, the observed bioenergetic changes appeared not to be due to direct increased O-GlcNAc modification of complex subunit proteins. 30250045 10 15 gly sialylated 1467:1476 arg1 sialylated glycan modification sialylated glycan modification The specific detection of mesothelioma with SKM9-2 can thus be performed by the recognition of sialylated glycan modification in the specific region of HEG1. 29090410 6 52 gly glycosylation 1007:1019 arg2 the putative N-linked glycosylation sites the putative N-linked glycosylation sites sites In particular, the S32H, N33D, D34N, and S36G variations resulted in that HNhx lost all the putative N-linked glycosylation sites at amino acid positions 30, 32, 33, 34, and 35. 32938717 1 65 gly glycoproteins 325:337 arg1 glycoproteins glycoproteins Fterm glycoproteins Oligosaccharyltransferase (OST) is responsible for the first step in the N-linked glycosylation, transferring an oligosaccharide chain onto asparagine residues to create glycoproteins. 32965048 8 24 gly N-glycosites 1741:1752 arg2 419 N-glycosites 419 N-glycosites N-glycosites The 2986 intact N-glycopeptide IDs corresponded to 754 putative N-glycan linkage structures on 419 N-glycosites of 450 peptide backbones from 327 intact N-glycoproteins. 32965048 8 36 gly N-glycoproteins 1795:1809 arg1 327 intact N-glycoproteins 327 intact N-glycoproteins Fterm N-glycoproteins The 2986 intact N-glycopeptide IDs corresponded to 754 putative N-glycan linkage structures on 419 N-glycosites of 450 peptide backbones from 327 intact N-glycoproteins. 32965048 8 123 gly N-glycopeptide 1658:1671 arg2 The 2986 intact N-glycopeptide IDs The 2986 intact N-glycopeptide IDs N-glycopeptide The 2986 intact N-glycopeptide IDs corresponded to 754 putative N-glycan linkage structures on 419 N-glycosites of 450 peptide backbones from 327 intact N-glycoproteins. 32965048 8 131 gly structures 1723:1732 arg1 419 N-glycosites 419 N-glycosites 419 N-glycosites Site N-glycosites The 2986 intact N-glycopeptide IDs corresponded to 754 putative N-glycan linkage structures on 419 N-glycosites of 450 peptide backbones from 327 intact N-glycoproteins. 29609090 8 26 gly N-glycoproteins 1323:1337 arg1 important therapeutic mammalian N-glycoproteins important therapeutic mammalian N-glycoproteins Fterm N-glycoproteins The efficient glycosylation of natural short peptides by AaNGT showed its potential to modify important therapeutic mammalian N-glycoproteins. 29609090 8 38 gly glycosylation 1211:1223 arg1 natural short peptides natural short peptides peptides The efficient glycosylation of natural short peptides by AaNGT showed its potential to modify important therapeutic mammalian N-glycoproteins. 31671706 5 1 gly glycosylation 1013:1025 arg2 each glycosylation site each glycosylation site site Finally, it was clearly confirmed that N-linked glycans for each glycosylation site showed significantly different patterns in microheterogeneity, which may indicate certain functions for each glycosylation site in the protein. 31671706 5 25 gly glycosylation 1141:1153 arg2 each glycosylation site each glycosylation site site Finally, it was clearly confirmed that N-linked glycans for each glycosylation site showed significantly different patterns in microheterogeneity, which may indicate certain functions for each glycosylation site in the protein. 28057501 6 21 part_of had 942:944 arg1 PYC protein AND three potential N-linked glycosylation sites PYC protein three potential N-linked glycosylation sites Fterm Site protein sites Furthermore, PYC protein also had three potential N-linked glycosylation sites, among them, -N-S-T-I- at 36 amino acid, -N-G-T-V- at 237 amino acid, and -N-G-S-S- at 517 amino acid were the most possible N-glycosylation sites. 31511323 10 25 gly glycosylation 1516:1528 arg2 a single intact glycosylation site a single intact glycosylation site site Interestingly, β2 with a single intact glycosylation site was as effective as the WT in promoting NaV1.5 surface localization. 28970495 7 22 part_of CD22 1248:1251 arg1 the ectodomain CD22 the ectodomain PUBTATOR Site CD22 933 ectodomain Here the authors structurally characterize the ectodomain of CD22 and present its crystal structure with the bound therapeutic antibody epratuzumab, which gives insights into the mechanism of inhibition of B-cell activation. 33629527 9 25 gly fucosylated 1450:1460 arg1 Almost all N-glycan structures Almost all N-glycan structures Almost all N-glycan structures were fucosylated. 31337705 5 35 gly sialylated 690:699 arg1 sialylated Lewis A sialylated Lewis A Herein, we found that the highest percentage of bovine sperm bound to the 3'-O-sulfated form of Lewis A (suLeA) trisaccharide and sialylated Lewis A and that fluoresceinated versions of each localized to receptors on the anterior head of the sperm. 33826885 5 48 gly occupancy 698:706 arg2 the N160 site the N160 site N160 site Occupancy of the N133 site is increased by changing N133 to NxS, whereas occupancy of the N160 site is restored by reverting the nearby N156 sequon to NxS. 32168410 1 103 part_of containing 202:211 arg1 The protective/inhibitory B subunits AND two N-glycosylation sites The protective/inhibitory B subunits two N-glycosylation sites Fterm Site subunits sites BACKGROUND The protective/inhibitory B subunits of coagulation factor XIII (FXIII-B) is a ~80 kDa glycoprotein containing two N-glycosylation sites. 32168410 1 103 part_of containing 202:211 arg1 a ~80 kDa glycoprotein AND two N-glycosylation sites a ~80 kDa glycoprotein two N-glycosylation sites Fterm Site glycoprotein sites BACKGROUND The protective/inhibitory B subunits of coagulation factor XIII (FXIII-B) is a ~80 kDa glycoprotein containing two N-glycosylation sites. 30016717 12 8 gly containing 2238:2247 arg1 620 peptides AND one or more O-GlcNAc sites 620 peptides one or more O-GlcNAc sites peptides A total of 620 peptides containing one or more O-GlcNAc sites were identified; interestingly, several of them belong to low expressed proteins, in particular proteins involved in signalling pathways. 34780171 4 16 gly sialoglycopeptides 964:981 arg2 sialoglycopeptides sialoglycopeptides sialoglycopeptides In a model study using lung cancer cells, early elution by a high percentage of acetonitrile prominently prefilters nonglycopeptides, facilitating high enrichment specificity for glycopeptides (92-96%) and sialoglycopeptides (77-89%) in the subsequent hydrophilic fractions. 34780171 4 49 gly glycopeptides 937:949 arg2 glycopeptides glycopeptides glycopeptides In a model study using lung cancer cells, early elution by a high percentage of acetonitrile prominently prefilters nonglycopeptides, facilitating high enrichment specificity for glycopeptides (92-96%) and sialoglycopeptides (77-89%) in the subsequent hydrophilic fractions. 34780171 4 75 gly nonglycopeptides 874:889 arg2 nonglycopeptides nonglycopeptides nonglycopeptides In a model study using lung cancer cells, early elution by a high percentage of acetonitrile prominently prefilters nonglycopeptides, facilitating high enrichment specificity for glycopeptides (92-96%) and sialoglycopeptides (77-89%) in the subsequent hydrophilic fractions. 30486487 5 11 gly glycosylation 669:681 arg2 N-linked glycosylation sites N-linked glycosylation sites sites E2 protein was confirmed by Western blot assay, which showed that E2 protein possesses N-linked glycosylation sites. 33222001 7 13 gly core-fucosylated 1091:1106 arg1 a complex core-fucosylated N-linked glycan a complex core-fucosylated N-linked glycan Furthermore, a complex core-fucosylated N-linked glycan was detected that could discriminate a primary tumour with and without LNM. 32168410 10 89 gly Deglycosylation 1128:1142 arg1 the native protein the native protein Fterm protein Deglycosylation of the native protein was achieved by repeated digestion at elevated PNGase F concentration. 31341641 4 71 part_of gp120 590:594 arg1 the gp120 variable regions gp120 the gp120 variable regions PUBTATOR Site gp120 3700 regions Here, we develop and report results from a phylogenetic method to estimate indel rates for the gp120 variable regions across five major subtypes and two circulating recombinant forms (CRFs) of HIV-1 group M. 33826885 0 41 gly trimers 53:59 arg1 glycan occupancy trimers glycan occupancy Fterm trimers Enhancing glycan occupancy of soluble HIV-1 envelope trimers to mimic the native viral spike. 34855283 6 44 gly core-fucosylated 1040:1055 arg1 LacdiNAc-containing, tri-antennary, and core-fucosylated glycans LacdiNAc-containing, tri-antennary, and core-fucosylated glycans In addition to several bi-antennary and/or bisecting glycans that were commonly elevated in ICC and HCC, a number of LacdiNAc-containing, tri-antennary, and core-fucosylated glycans were uniquely increased in ICC. 34200965 3 13 gly glycosylated 439:450 arg1 membrane proteins membrane proteins Fterm proteins In particular, membrane proteins are frequently highly glycosylated, which is both linked to physiological processes and of high relevance in various disease mechanisms. 34809984 2 58 gly glycosylation 215:227 arg1 these proteins these proteins Fterm proteins The glycosylation profile of these proteins is a key quality parameter as it can affect their safety, efficacy, and stability. 31702909 8 81 part_of variant 1274:1280 arg1 all N-linked glycosylation sites CD19 variant all N-linked glycosylation sites OGER Site CD19 variant P15391 sites A designed CD19 variant with all N-linked glycosylation sites removed successfully bound antibody in the yeast display context, which provides a lead for aglycosylated applications. 31837192 4 54 gly glycoproteins 740:752 arg1 many plant-derived glycoproteins many plant-derived glycoproteins Fterm glycoproteins Despite significant efforts to optimize the expression of β1,4-galactosyltransferase, many plant-derived glycoproteins still exhibit incomplete processed N-glycans with heterogeneous terminal galactosylation. 31168022 7 13 part_of Tn-antigen 880:889 arg1 potential Tn-antigen sites Tn potential Tn-antigen sites PUBTATOR Site Tn 7123 sites Of these, desmocollin and desmoglein shared many similar characteristics, including molecular mass, pI, and potential Tn-antigen sites. 33525794 4 62 gly glycoprotein 1110:1121 arg1 high-value glycoprotein targets high-value glycoprotein targets Fterm glycoprotein Here, we highlight recent advances in the deployment of metabolic engineering tools and strategies to develop microbial cell glyco-factories for the production of high-value glycoprotein targets with applications in research and medicine. 31722217 0 39 gly Glycosylation 0:12 arg1 Specific Notch EGF Repeats Specific Notch EGF Repeats Glycosylation of Specific Notch EGF Repeats by O-Fut1 and Fringe Regulates Notch Signaling in Drosophila. 31425910 8 25 part_of MAPK 1983:1986 arg1 the allosteric lipid binding site p38 MAPK the allosteric lipid binding site PUBTATOR Site p38 MAPK 1432 site Biochemical and computational data further support a mechanism of action implying binding to the allosteric lipid binding site of p38 MAPK and subsequent activation of the noncanonical autophosphorylation route. 30506260 3 12 gly glycosylate 633:643 arg1 proteins proteins Fterm proteins Chlamydomonas reinhardtii chloroplast is an attractive platform for expressing malaria antigens because it is capable of folding complex proteins, including those requiring disulfide bond formation, while lack the ability to glycosylate proteins; a valuable quality of any malaria protein expression system, since the Plasmodium parasite lacks N-linked glycosylation machinery. 32764711 7 42 part_of site 1294:1297 arg1 the E protein protein site Fterm Site protein site The observed pattern was supported by examination of the glycopeptides, providing additional information about the glycosylation site in the E protein. 32719555 2 5 gly O-glycoproteins 550:564 arg1 different human O-glycoproteins different human O-glycoproteins Fterm O-glycoproteins Here, we have developed a set of orthogonal pathways for eukaryotic O-linked protein glycosylation in Escherichia coli that installed the cancer-associated mucin-type glycans Tn, T, sialyl-Tn and sialyl-T onto serine residues in acceptor motifs derived from different human O-glycoproteins. 31164895 8 24 gly fucosylation 1320:1331 arg1 proteins proteins Fterm proteins We show that the P. tricornutum transporter is able to rescue the fucosylation of proteins in this CHO-gmt5 mutant cell line, thus demonstrating the functional activity of the diatom transporter and its appropriate Golgi localization. 31164895 8 69 gly proteins 1336:1343 arg1 the fucosylation proteins the fucosylation Fterm proteins We show that the P. tricornutum transporter is able to rescue the fucosylation of proteins in this CHO-gmt5 mutant cell line, thus demonstrating the functional activity of the diatom transporter and its appropriate Golgi localization. 29463718 6 31 part_of TRP 714:716 arg1 the TRP domain TRP the TRP domain OGER Site TRP P17643 domain Intramolecular interactions exist between the TRP domain and the S4-S5 linker, N-terminal domain, and N and C termini. 34401920 7 69 gly glycosylation 878:890 arg2 the sequon the sequon sequon, Asn N-Linked glycosylation occurred at the sequon, Asn-X-Ser/Thr, and the proportions of Ser and Thr glycosylation at the hydroxy position were found 39.6% and 60.3%, respectively. 30755292 4 16 gly N-glycosylation 808:822 arg2 potential N-glycosylation sites potential N-glycosylation sites sites METHODS We determined the HA sequences of A(H3N2) viruses detected in Yokohama, Japan during the 2016/17 and 2017/18 influenza seasons to identify amino acid substitutions and the loss or gain of potential N-glycosylation sites in HA, both of which potentially affect the antigenicity of HA. 27704558 2 56 gly glycoprotein 397:408 arg1 the small integrin binding ligand N-linked glycoprotein (SIBLING) family the small integrin binding ligand N-linked glycoprotein (SIBLING) family Fterm glycoprotein Bone sialoprotein (BSP) is with osteopontin (OPN) a member of the small integrin binding ligand N-linked glycoprotein (SIBLING) family, involved in bone formation, hematopoiesis and angiogenesis. 33116178 8 67 gly structures 1309:1318 arg1 recombinant proteins proteins structures Fterm proteins The functionally characterized SmFucTs can also be applied to synthesize complex N-glycan structures on recombinant proteins to study their contribution to immunomodulation. 29460617 1 18 gly glycosylation 111:123 arg1 nucleocytoplasmic proteins nucleocytoplasmic proteins Fterm proteins The glycosylation of nucleocytoplasmic proteins with O-linked N-acetylglucosamine residues (O-GlcNAc) is conserved among metazoans and is particularly abundant within brain. 32432921 9 16 gly attached 1380:1387 arg1 the N-glycosylation site AND The glycan the N-glycosylation site The glycan site The glycan attached to the N-glycosylation site was found to be composed of fucose, galactose, sialic acid, and N-acetylglucosamine. 32432921 9 31 gly N-glycosylation 1396:1410 arg2 the N-glycosylation site the N-glycosylation site site The glycan attached to the N-glycosylation site was found to be composed of fucose, galactose, sialic acid, and N-acetylglucosamine. 32553552 4 58 gly N-glycoproteins 569:583 arg1 the N-glycoproteins the N-glycoproteins Fterm N-glycoproteins The present study used mass spectrometry-based approaches to characterize the N-glycoproteins present in the midgut cell microvilli of Spodoptera frugiperda. 34857845 8 46 gly used 1568:1571 arg2 tri- and tetra-antennary core fucosylated glycopeptides tri- and tetra-antennary core fucosylated glycopeptides glycopeptides Further studies are needed to verify whether tri- and tetra-antennary core fucosylated glycopeptides could be used as markers of liver disease progression. 34857845 8 48 gly fucosylated 1533:1543 arg1 tri- and tetra-antennary core fucosylated glycopeptides tri- and tetra-antennary core fucosylated glycopeptides glycopeptides Further studies are needed to verify whether tri- and tetra-antennary core fucosylated glycopeptides could be used as markers of liver disease progression. 34857845 8 102 gly glycopeptides 1545:1557 arg2 tri- and tetra-antennary core fucosylated glycopeptides tri- and tetra-antennary core fucosylated glycopeptides glycopeptides Further studies are needed to verify whether tri- and tetra-antennary core fucosylated glycopeptides could be used as markers of liver disease progression. 31671706 6 16 part_of protein 1308:1314 arg1 the five glycosylation sites protein the five glycosylation sites Fterm Site protein sites Based on the mapping results, the unique features in glycan microheterogeneity for the five glycosylation sites of VEGFR-IgG fusion protein were compared site-specifically and further discussed to understand the functional meaning of each glycosylation pattern. 32001344 7 25 gly glycosylation 1157:1169 arg2 the active N-linked glycosylation sites the active N-linked glycosylation sites sites By site-directed mutagenesis, we identified amino acids 57 and 330 as the active N-linked glycosylation sites on V3 when expressed in this cell type. 32693290 3 44 gly peptide 660:666 arg1 Thr163 Thr159, Thr163 and Thr169 Thr159, Thr163 and Thr169 Three O-linked glycan sites were identified in the activation peptide (Thr159, Thr163 and Thr169), where Thr163 has not been reported previously. 32693290 3 44 gly peptide 660:666 arg1 Thr159 Thr159, Thr163 and Thr169 Thr159, Thr163 and Thr169 Three O-linked glycan sites were identified in the activation peptide (Thr159, Thr163 and Thr169), where Thr163 has not been reported previously. 32693290 3 44 gly peptide 660:666 arg1 Thr159 Thr159, Thr163 and Thr169 Thr159, Thr163 and Thr169 Three O-linked glycan sites were identified in the activation peptide (Thr159, Thr163 and Thr169), where Thr163 has not been reported previously. 31164864 5 26 gly proteins 786:793 arg1 O-GlcNAcylation proteins O-GlcNAcylation Fterm proteins O-GlcNAcylation of proteins is controlled by two enzymes: the O-GlcNAc transferase (OGT), which transfers a monosaccharide to serine/threonine residues on target proteins, and the O-GlcNAcase (OGA), which removes it. 31164895 10 36 gly -fucosylation 1759:1771 arg1 the diatom endogenous glycoproteins the diatom endogenous glycoproteins Fterm glycoproteins Our findings show that overexpression of the FuT54599 leads to a significant increase of the α(1,3)-fucosylation of the diatom endogenous glycoproteins. 31164895 10 81 gly glycoproteins 1798:1810 arg1 the diatom endogenous glycoproteins glycoproteins the α(1,3)-fucosylation Fterm glycoproteins Our findings show that overexpression of the FuT54599 leads to a significant increase of the α(1,3)-fucosylation of the diatom endogenous glycoproteins. 33347638 6 106 gly glycoprotein 1053:1064 arg1 the newly identified glycans glycoprotein the newly identified glycans Fterm glycoprotein Finally, we constructed a new assay to quantify a candidate glycoprotein with the newly identified glycans. 32699088 0 36 gly Sites 16:20 arg1 the Influenza A Virus Neuraminidase Head Domain Domain Sites Fterm Domain N-Linked Glycan Sites on the Influenza A Virus Neuraminidase Head Domain Are Required for Efficient Viral Incorporation and Replication. 32168410 4 1 gly Asparagine-linked 574:590 arg1 Asparagine-linked carbohydrates Asparagine Asparagine-linked carbohydrates Asparagine METHODS Asparagine-linked carbohydrates were released from human FXIIII-B by PNGase F digestion. 32461612 2 17 gly glycoprotein 368:379 arg1 the spike (S) glycoprotein the spike (S) glycoprotein Fterm glycoprotein Vaccine development focuses on the principal target of the neutralizing humoral immune response, the spike (S) glycoprotein. 30445613 1 27 gly glycosylation 214:226 arg1 proteins proteins Fterm proteins N-linked glycosylation of proteins is the most common post-translational modification of proteins. 28490633 8 13 part_of thioredoxin-like 1247:1262 arg1 the first thioredoxin-like domain thioredoxin the first thioredoxin-like domain OGER Site thioredoxin P10599 domain We also used hydrogen-deuterium exchange mass spectrometry to map the binding site of an accessory protein, Sep15, to the first thioredoxin-like domain. 28490633 8 15 part_of protein 1218:1224 arg1 the binding site protein the binding site Fterm Site protein site We also used hydrogen-deuterium exchange mass spectrometry to map the binding site of an accessory protein, Sep15, to the first thioredoxin-like domain. 28031460 6 43 gly α2,6-sialylated 1017:1031 arg1 the target α2,6-sialylated proteins the target α2,6-sialylated proteins Fterm proteins Using proteomic analysis, integrin-β1 was identified as one of the target α2,6-sialylated proteins in adipose tissues, and phosphorylation of its downstream molecule focal adhesion kinase was found to be decreased after HFD feeding. 34647616 5 21 gly sialylated 1162:1171 arg1 heavily sialylated F241A antibody N-glycans heavily sialylated F241A antibody N-glycans Furthermore, overexpression of recombinant human α-2,6-sialyltransferase resulted in a predominance of α-2,6-sialylation rather than α-2,3-sialylation for both WT and heavily sialylated F241A antibody N-glycans. 31866443 8 18 part_of proteins 1126:1133 arg1 reduced glutamine proteins reduced glutamine Fterm AminoAcid proteins glutamine Functional studies in human adipocytes established a mechanistic link between reduced glutamine, O-GlcNAcylation of nuclear proteins, and a pro-inflammatory transcriptional response. 33177111 6 15 gly glycosylation 789:801 arg2 one N-linked glycosylation site one N-linked glycosylation site site CD55 had one N-linked glycosylation site in addition to a Ser/Thr-rich domain, which was expected to be heavily O-glycosylated. 33177111 6 65 gly O-glycosylated 879:892 arg1 a Ser/Thr-rich domain a Ser/Thr-rich domain domain CD55 had one N-linked glycosylation site in addition to a Ser/Thr-rich domain, which was expected to be heavily O-glycosylated. 28687873 3 17 gly sialylated 544:553 arg1 sialylated glycan receptor analogues sialylated glycan receptor analogues METHODS Surface plasmon resonance analysis and competitive inhibition with sialylated glycan receptor analogues were used to determine the affinity and the preference of sialic acid receptor. 32258897 2 60 gly heterogeneity 335:347 arg1 carbohydrate moieties carbohydrate moieties Herein, we characterized N-glycosylation heterogeneity of R27T, which includes both N-glycan site occupancy heterogeneity (macro-heterogeneity) and complexity of carbohydrate moieties (micro-heterogeneity). 32258897 1 13 gly glycosylation 182:194 arg2 an additional glycosylation site an additional glycosylation site site We previously developed a biobetter version of rhIFN-β (R27T) that possesses an additional glycosylation site compared with rhIFN-β 1a. 30404931 9 58 part_of possess 1098:1104 arg1 all OMV-enriched lipoproteins AND a lipoprotein export sequence all OMV-enriched lipoproteins a lipoprotein export sequence Fterm Site lipoproteins sequence We found that all OMV-enriched lipoproteins possess a lipoprotein export sequence (LES), and we show that this signal mediates translocation of SusG from the periplasmic face of the OM toward the extracellular milieu. 32384234 5 71 gly glycosylated 1272:1283 arg1 a multiply glycosylated peptide a multiply glycosylated peptide peptide Importantly, direct elimination of one or more O-glycans under negative-mode MS2 affords an easy way to discover additional O-glycosylations on a multiply glycosylated peptide by virtue of enumerating the dehydration scars imprinted on the O-glycosylated sites. 32384234 5 77 gly O-glycosylated 1357:1370 arg1 the O-glycosylated sites the O-glycosylated sites sites Importantly, direct elimination of one or more O-glycans under negative-mode MS2 affords an easy way to discover additional O-glycosylations on a multiply glycosylated peptide by virtue of enumerating the dehydration scars imprinted on the O-glycosylated sites. 29899104 6 44 gly glycosylation 942:954 arg1 the E protein the E protein Fterm protein The mutation S156P in the domain I resulted in disruption of N-linked glycosylation at amino acid 154 of the E protein and changed the conformation of "150 loop" of the E protein, which reduced virus replication in lungs and abrogated transmission in ducks. 31450586 7 24 gly glycopeptides 958:970 arg2 1299 unique N-linked glycopeptides 1299 unique N-linked glycopeptides glycopeptides We identified 1299 unique N-linked glycopeptides corresponding to 460 proteins. 30913278 7 15 gly pro-drug 1224:1231 arg1 GlcNAc-6-acetate pro GlcNAc-6-acetate pro Here we report that GlcNAc-6-acetate is a superior pro-drug form of GlcNAc. 29454068 15 87 gly serine122 2052:2060 arg1 O-GlcNAcylation serine122 O-GlcNAcylation serine122 LAY SUMMARY: O-GlcNAcylation of ribosomal receptor for activated C-kinase 1 at the amino acid serine122 promotes its stability, ribosome localization and interaction with the protein kinase, PKCβII, thus driving the translation of oncogenes and tumorigenesis of hepatocellular carcinoma. 33578083 3 22 gly glycans 858:864 arg1 the initial glycan database database glycans Fterm database Even at this level, however, glycopeptide analysis poses challenges: finding glycopeptide spectra when they are a tiny fraction of the total spectra; assigning spectra with unanticipated glycans, not in the initial glycan database; and finding, scoring, and labeling diagnostic peaks in tandem mass spectra. 33578083 3 78 gly glycopeptide 748:759 arg2 finding glycopeptide spectra finding glycopeptide spectra glycopeptide Even at this level, however, glycopeptide analysis poses challenges: finding glycopeptide spectra when they are a tiny fraction of the total spectra; assigning spectra with unanticipated glycans, not in the initial glycan database; and finding, scoring, and labeling diagnostic peaks in tandem mass spectra. 33578083 3 87 gly glycopeptide 700:711 arg2 glycopeptide analysis glycopeptide analysis glycopeptide Even at this level, however, glycopeptide analysis poses challenges: finding glycopeptide spectra when they are a tiny fraction of the total spectra; assigning spectra with unanticipated glycans, not in the initial glycan database; and finding, scoring, and labeling diagnostic peaks in tandem mass spectra. 28302723 11 2 gly proteins 2084:2091 arg1 the O-GlcNAc post-translational modification proteins the O-GlcNAc post-translational modification Fterm proteins Thus, a single amino acid substitution in the regulatory domain (the tetratricopeptide repeat domain) of OGT, which catalyzes the O-GlcNAc post-translational modification of nuclear and cytosolic proteins, appears causal for XLID. 30852271 3 8 part_of protein 523:529 arg1 the M protein ectodomain M protein the M protein ectodomain OGER Site M protein P54296 ectodomain In this study, we confirm that N-linked glycosylation occurs at two predicted sites in the M protein ectodomain of infectious bronchitis coronavirus (IBV). 30852271 3 20 part_of M 521:521 arg1 the M protein ectodomain M protein the M protein ectodomain OGER Site M protein P54296 ectodomain In this study, we confirm that N-linked glycosylation occurs at two predicted sites in the M protein ectodomain of infectious bronchitis coronavirus (IBV). 29325746 3 60 part_of Ruviapyrase 554:564 arg1 some de novo sequences Ruviapyrase some de novo sequences Fterm Site Ruviapyrase sequences The LC-MS/MS analysis did not identify any protein in NCBI protein database, nevertheless some de novo sequences of Ruviapyrase showed putative conserved domain of apyrase superfamily. 32898699 16 4 gly N-glycosylation 2308:2322 arg1 proteins proteins Fterm proteins Our report deals with identification of differences in N-glycosylation of proteins in tissue and serum samples from the individuals showing sensitivity or resistance to platinum/taxane-based chemotherapy. 30422384 3 10 gly glycosylated 625:636 arg1 recombinant glycosylated pro-ATSf-9 recombinant glycosylated pro-ATSf-9 pro We chemically synthesized aglycosyl pro-AT and pro-CT and purified recombinant glycosylated pro-ATSf-9 . 32326134 3 50 gly O-glycosylation 487:501 arg2 O-glycosylation sites O-glycosylation sites sites This study investigates the structural and quantitative characteristics of O-glycans and identifies O-glycosylation sites in BSM using liquid chromatography-tandem mass spectrometry. 29997173 4 46 part_of HMGB1 824:828 arg1 the antiinflammatory Box A domain HMGB1 the antiinflammatory Box A domain OGER Site HMGB1 P09429 domain Suppression of T cell function was blocked by anti-HMGB1 antibody or the antiinflammatory Box A domain of HMGB1. 29782851 3 31 gly second 484:489 arg1 a region a region region Cbln1, 2 and 4 harbor two N-linked glycosylation sites, one at the N-terminus is in a region implicated in Nrxn binding and the second is in the C1q domain, a region involved in Grid2 binding. 29782851 3 31 gly second 484:489 arg1 the C1q domain the C1q domain domain Cbln1, 2 and 4 harbor two N-linked glycosylation sites, one at the N-terminus is in a region implicated in Nrxn binding and the second is in the C1q domain, a region involved in Grid2 binding. 29782851 3 47 gly N-terminus 423:432 arg1 a region a region region Cbln1, 2 and 4 harbor two N-linked glycosylation sites, one at the N-terminus is in a region implicated in Nrxn binding and the second is in the C1q domain, a region involved in Grid2 binding. 29782851 3 57 gly glycosylation 391:403 arg2 two N-linked glycosylation sites two N-linked glycosylation sites sites Cbln1, 2 and 4 harbor two N-linked glycosylation sites, one at the N-terminus is in a region implicated in Nrxn binding and the second is in the C1q domain, a region involved in Grid2 binding. 33826885 3 50 part_of sequons 533:539 arg1 BG505 SOSIP BG505 SOSIP sequons Cterm BG505 SOSIP To eliminate glycan holes and mimic the glycosylation of native BG505 Env, we replace all 12 NxS sequons on BG505 SOSIP with NxT. 31281932 0 34 gly proteins 69:76 arg1 sialylation proteins sialylation Fterm proteins Comparison of α2,6-sialyltransferases for sialylation of therapeutic proteins. 31281932 0 46 gly sialylation 42:52 arg1 therapeutic proteins therapeutic proteins Fterm proteins Comparison of α2,6-sialyltransferases for sialylation of therapeutic proteins. 34401920 3 15 gly glycoproteins 559:571 arg1 putative glycoproteins putative glycoproteins Fterm glycoproteins Results of SDS-PAGE and periodic acid-Schiff staining revealed that most serum proteins with high abundance were putative glycoproteins. 31067000 8 10 gly domain 1268:1273 arg1 V domain glycans V domain glycans RESULTS In both data sets, FDR-derived IgG ACPA displayed markedly lower levels of V domain glycans (<50%) compared to IgG ACPA from RA patients. 33664361 6 58 gly glycopeptide 966:977 arg2 the former glycopeptide the former glycopeptide glycopeptide Nevertheless, N-glycosylation could be proved by enzymatic de-N-glycosylation with PNGase F, resulting in a strong MS-signal of the former glycopeptide with deamidated asparagine at the potential N-glycosylation site N444. 33664361 6 34 gly N-glycosylation 1023:1037 arg2 N444 site N444 site N444 Nevertheless, N-glycosylation could be proved by enzymatic de-N-glycosylation with PNGase F, resulting in a strong MS-signal of the former glycopeptide with deamidated asparagine at the potential N-glycosylation site N444. 31308178 2 40 gly glycoproteins 411:423 arg1 endothelial glycoproteins endothelial glycoproteins Fterm glycoproteins By altering the N-glycosylation machinery in the endoplasmic reticulum and Golgi, proinflammatory cytokines promote the modification of endothelial glycoproteins such as vascular endothelial growth factor receptor 2 (VEGFR2) with sialic acid-capped N-glycans. 33806155 8 5 gly O-glycosylation 1393:1407 arg1 subunit vaccine design subunit vaccine design Fterm subunit This suggests possible complementary functions of O-glycans in immune shielding and negligible effects of O-glycosylation on subunit vaccine design for SARS-CoV-2. 32842538 3 35 gly glycosylation 369:381 arg2 a single N-linked glycosylation site a single N-linked glycosylation site site The prM protein of all ZIKV strains contains a single N-linked glycosylation site, while not all strains contain an N-linked site in the E protein. 32001344 8 24 part_of protein 1341:1347 arg1 the carboxy region protein (G3 the carboxy region OGER Site protein (G3 P46379 region Furthermore, exon deletion constructs of V3 revealed that exons 11-13, which code for portions of the carboxy region of the protein (G3 domain), are essential for V3 processing and secretion. 32001344 8 31 part_of G3 1350:1351 arg1 G3 domain protein (G3 G3 domain OGER Site protein (G3 P46379 domain Furthermore, exon deletion constructs of V3 revealed that exons 11-13, which code for portions of the carboxy region of the protein (G3 domain), are essential for V3 processing and secretion. 32965048 10 28 gly N-glycosites 1999:2010 arg2 106 new N-glycosites 106 new N-glycosites N-glycosites CONCLUSIONS We found 106 new N-glycosites not annotated in the current UniProt database. 30962950 1 0 gly glycoproteins 165:177 arg1 glycoproteins glycoproteins Fterm glycoproteins The goal of the present study was to identify glycoproteins associated with the postoperative relapse of hepatocellular carcinoma (HCC) and to investigate their potential role in HCC metastasis. 34551980 3 38 part_of sites 877:881 arg1 the protein protein sites Fterm Site protein sites To address this challenge, we describe a combinatorial strategy termed shotgun scanning glycomutagenesis in which DNA libraries encoding all possible glycosylation site variants of a given protein are constructed and subsequently expressed in glycosylation-competent bacteria, thereby enabling rapid determination of glycosylatable sites in the protein. 31480247 5 19 gly glycosylation 948:960 arg2 the glycosylation motif the glycosylation motif motif Using site-directed mutagenesis to obtain mutated versions of the two PSIs, with and without the glycosylation motif, we observed that altering the glycosylation pattern interferes with the trafficking of the protein as the non-glycosylated PSI-B, unlike its native glycosylated form, is able to bypass ER-to-Golgi blockage and accumulate in the vacuole. 33806155 2 87 gly O-glycosites 435:446 arg2 a few O-glycosites a few O-glycosites O-glycosites SARS-CoV-2 surface protein S presents as a trimer on the viral surface and is covered by a dense shield of N-linked glycans, and a few O-glycosites have been reported. 28490633 7 36 part_of thioredoxin-like 1093:1108 arg1 first thioredoxin-like domains thioredoxin first thioredoxin-like domains OGER Site thioredoxin P10599 domains Introduction of biotinylation sites into a fungal UGGT expressed in Escherichia coli allowed identification of the catalytic and first thioredoxin-like domains. 31266872 1 49 gly glycoproteins 443:455 arg1 phylogenetically and antigenically distinct envelope glycoproteins phylogenetically and antigenically distinct envelope glycoproteins Fterm glycoproteins As a consequence of their independent evolutionary origins in apes and Old World monkeys, human immunodeficiency virus type 1 (HIV-1) and simian immunodeficiency viruses of the SIVsmm/mac lineage express phylogenetically and antigenically distinct envelope glycoproteins. 33030205 1 9 gly glycosylation 103:115 arg1 proteins proteins Fterm proteins The glycosylation of proteins is typically considered as a stabilizing modification, including resistance to proteolysis. 31333671 5 35 gly glycosylation 729:741 arg2 N-linked glycosylation motifs N-linked glycosylation motifs motifs Sequences were analyzed for clonal relationships, degree of somatic hypermutation, IGHV gene usage, evidence of antigenic selection, and N-linked glycosylation motifs. 29569918 3 9 gly sialylated 602:611 arg1 unsialylated and sialylated glycans unsialylated and sialylated glycans Combining these two methods, we developed tandem labeling and double labeling strategies that permit the detection of unsialylated and sialylated glycans or the detection of O- and N-linked glycans on the same tissue section, respectively. 29569918 3 10 gly unsialylated 585:596 arg1 unsialylated and sialylated glycans unsialylated and sialylated glycans Combining these two methods, we developed tandem labeling and double labeling strategies that permit the detection of unsialylated and sialylated glycans or the detection of O- and N-linked glycans on the same tissue section, respectively. 33167210 9 60 gly glycopeptides 1489:1501 arg2 PSA glycopeptides PSA glycopeptides glycopeptides Next to seminal plasma, the method is also expected to be of use for studying PSA glycopeptides derived from other biofluids and/or in other disease contexts. 30657688 4 40 gly moiety 636:641 arg1 peptides peptides peptides Site peptides In this method, the O-GlcNAc moiety on peptides was labeled with UDP-GalNAz followed by copper-free azide-alkyne cycloaddition with a multifunctional reagent bearing a terminal cyclooctyne, a disulfide bridge, and a biotin handle. 34278967 4 79 gly glycosylation 1020:1032 arg2 N-/O-linked glycosylation site N-/O-linked glycosylation site site The Lens culinaris-derived lentil lectin which specifically bind to oligomannose-type glycans and GlcNAc at the non-reducing end terminus showed most potent and broad antiviral activity against a panel of mutant strains and variants, including the artificial mutants at N-/O-linked glycosylation site, natural existed amino acid mutants, as well as the epidemic variants B.1.1.7, B.1.351, and P.1. 31164864 3 71 part_of pyrin 457:461 arg1 pyrin domain containing 3 pyrin pyrin domain containing 3 OGER Site pyrin O15553 domain Recent studies reported that high glucose stimulates the interaction of TxNIP with the inflammasome protein NLRP3 (NLR family, pyrin domain containing 3) to increase interleukin-1 β (IL1β) secretion by pancreatic β cells. 29769320 4 56 part_of TPR 754:756 arg1 the TPR domain TPR the TPR domain PUBTATOR Site TPR 7175 domain Here, we report the discovery of two additional novel missense mutations (c.775 G>A, p.A259T, and c.1016 A>G, p.E339G) in the TPR domain of OGT that segregate with XLID in affected families. 29769320 4 60 part_of OGT 768:770 arg1 the TPR domain OGT the TPR domain PUBTATOR Site OGT 8473 domain Here, we report the discovery of two additional novel missense mutations (c.775 G>A, p.A259T, and c.1016 A>G, p.E339G) in the TPR domain of OGT that segregate with XLID in affected families. 32699088 8 129 gly glycosylation 1404:1416 arg2 N-linked glycosylation sites N-linked glycosylation sites sites Together, these results indicate that in addition to antigenicity, N-linked glycosylation sites can alter NA enzymatic stability and the NA amount in virions.IMPORTANCE N-linked glycans are transferred to secretory proteins upon entry into the endoplasmic reticulum lumen. 32692906 0 8 gly O-glycans 0:8 arg1 death receptors receptors O-glycans Fterm receptors O-glycans on death receptors in cells modulate their sensitivity to TRAIL-induced apoptosis through affecting on their stability and oligomerization. 30291258 0 28 part_of gut 37:39 arg1 gut microbiota composition gut gut microbiota composition PUBTATOR Site gut 110006 position Oleoylethanolamide treatment affects gut microbiota composition and the expression of intestinal cytokines in Peyer's patches of mice. 30712568 1 40 gly glycopeptides 321:333 arg2 glycopeptides glycopeptides glycopeptides Hydrophilic interaction chromatography (HILIC) utilizing zwitterion-modified material as solid phase has attracted extensive attention for selective enrichment of glycopeptides. 29321565 8 20 gly glycoproteins 1660:1672 arg1 natural glycoproteins natural glycoproteins Fterm glycoproteins Recombinant ORF1188, Beauveria and Cordyceps ENGases released the fucose-containing oligosaccharides residues from rituximab (immunoglobulin G) but not the high-mannose-containing oligosaccharides residues from RNase B, a result that not only confirmed the substrate specificity of these novel ENGases but also suggested that natural glycoproteins could be their substrates. 29933399 8 67 gly glycosylation 1642:1654 arg2 three conserved N-linked glycosylation sites three conserved N-linked glycosylation sites sites Here, in addition to serological analysis, we employed high-throughput BCR sequence analysis from the periphery, lymph nodes and bone marrow, as well as B cell- and antibody-isolation and characterization methods, to compare in great detail the B cell and antibody responses elicited in non-human primates by two forms of the clade C HIV Env 426c: one representing the full length extracellular portion of Env while the other lacking the variable domains 1, 2 and 3 and three conserved N-linked glycosylation sites. 29339411 3 21 gly glycoprotein 598:609 arg1 a Selenomonas glycoprotein a Selenomonas glycoprotein Fterm glycoprotein Here we provide the first report of a Selenomonas glycoprotein, showing that S. sputigena produces a diversely and heavily O-glycosylated flagellin C9LY14 as a major cellular protein, which carries various hitherto undescribed rhamnose- and N-acetylglucosamine linked O-glycans in the range from mono- to hexasaccharides. 29339411 3 66 gly O-glycosylated 671:684 arg1 a major cellular protein a major cellular protein Fterm protein Here we provide the first report of a Selenomonas glycoprotein, showing that S. sputigena produces a diversely and heavily O-glycosylated flagellin C9LY14 as a major cellular protein, which carries various hitherto undescribed rhamnose- and N-acetylglucosamine linked O-glycans in the range from mono- to hexasaccharides. 29339411 3 82 gly carries 738:744 arg1 a major cellular protein AND hitherto undescribed rhamnose- a major cellular protein hitherto undescribed rhamnose- Fterm protein Here we provide the first report of a Selenomonas glycoprotein, showing that S. sputigena produces a diversely and heavily O-glycosylated flagellin C9LY14 as a major cellular protein, which carries various hitherto undescribed rhamnose- and N-acetylglucosamine linked O-glycans in the range from mono- to hexasaccharides. 29339411 3 82 gly carries 738:744 arg1 a major cellular protein AND N-acetylglucosamine linked O-glycans a major cellular protein N-acetylglucosamine linked O-glycans Fterm protein Here we provide the first report of a Selenomonas glycoprotein, showing that S. sputigena produces a diversely and heavily O-glycosylated flagellin C9LY14 as a major cellular protein, which carries various hitherto undescribed rhamnose- and N-acetylglucosamine linked O-glycans in the range from mono- to hexasaccharides. 31336133 2 1 gly glycosylated 300:311 arg1 glycosylated peptides glycosylated peptides peptides The genetic fusion to natural or synthetic glycosylated peptides constitutes a promising strategy since it conserves the protein sequence and results in the improvement of the pharmacokinetic properties. 31336133 2 79 gly natural 279:285 arg1 glycosylated peptides glycosylated peptides peptides The genetic fusion to natural or synthetic glycosylated peptides constitutes a promising strategy since it conserves the protein sequence and results in the improvement of the pharmacokinetic properties. 31306420 0 50 gly glycosylation 9:21 arg1 the West Nile virus envelope protein the West Nile virus envelope protein Fterm protein N-linked glycosylation of the West Nile virus envelope protein is not a requisite for avian virulence or vector competence. 29902539 4 11 gly glycoprotein 701:712 arg1 a large dimeric glycoprotein a large dimeric glycoprotein Fterm glycoprotein This cardiotoxic hemolytic cytolysin is a large dimeric glycoprotein (subunits of ≈65 kDa) with pore-forming ability. 29902539 4 11 gly glycoprotein 701:712 arg1 This cardiotoxic hemolytic cytolysin This cardiotoxic hemolytic cytolysin Fterm cytolysin This cardiotoxic hemolytic cytolysin is a large dimeric glycoprotein (subunits of ≈65 kDa) with pore-forming ability. 30368301 3 96 gly glycosylation 438:450 arg2 8 potential glycosylation sites 8 potential glycosylation sites sites hCG has 8 potential glycosylation sites leading to a high number of isoforms (including glycoforms and other post-translational modifications) that we are interesting to characterize. 32326134 7 31 part_of sites 1642:1646 arg1 BSM BSM sites PUBTATOR Site BSM 100140959 sites This is the first study to characterize O-glycans and identify O-glycosylation sites in BSM. 30581149 0 47 gly glycoproteins 12:24 arg1 Recombinant glycoproteins Recombinant glycoproteins Fterm glycoproteins Recombinant glycoproteins resembling carbohydrate-specific IgE epitopes from plants, venoms and mites. 32699088 11 39 gly glycosylation 2126:2138 arg2 the N-linked glycosylation sites the N-linked glycosylation sites sites Experimental analyses verified that the N-linked glycosylation sites on the NA head domain contribute to virion incorporation and replication. 29491151 7 46 gly glycosylation 1448:1460 arg2 potential N-linked glycosylation sites potential N-linked glycosylation sites sites The TF viruses were characterized by shorter V1V2 regions, a reduced number of potential N-linked glycosylation sites, and a higher infectivity titer compared to the virus variants from the adults in the chronic stage of infection. 28844738 3 74 part_of contains 508:515 arg1 This domain AND the N-linked glycosylation site This domain the N-linked glycosylation site site This domain also contains the N-linked glycosylation site conserved in other isotypes. 30028870 8 45 gly glycosylation 1461:1473 arg2 N-linked glycosylation sites N-linked glycosylation sites sites Mutagenesis experiments suggest that the α and β subunits can tolerate large truncations in the non-conserved M3/M4 cytoplasmic loop without compromising oligomeric assembly or GABA-gated channel activity, although removal of N-linked glycosylation sites is negatively correlated with expression level. 34341581 0 16 gly glycoproteins 68:80 arg1 glycoproteins glycoproteins Fterm glycoproteins StrucGP: de novo structural sequencing of site-specific N-glycan on glycoproteins using a modularization strategy. 33300777 4 26 gly glycoprotein 779:790 arg1 a native glycoprotein a native glycoprotein Fterm glycoprotein In this method, using peptide-imprinted magnetic nanoparticles (MNPs) as a versatile platform, a glycopeptide tryptically digested from a native glycoprotein was selectively entrapped for positive selection, while a nonglycosylated analogue with an identical peptide sequence was synthesized for negative selection. 33300777 4 28 gly glycopeptide 731:742 arg2 a glycopeptide a glycopeptide glycopeptide In this method, using peptide-imprinted magnetic nanoparticles (MNPs) as a versatile platform, a glycopeptide tryptically digested from a native glycoprotein was selectively entrapped for positive selection, while a nonglycosylated analogue with an identical peptide sequence was synthesized for negative selection. 32220931 4 49 gly glycopeptide 916:927 arg2 glycopeptide glycopeptide glycopeptide Here we describe several structures of mouse and human FUT8 in the apo state and in complex with GDP, a mimic of the donor substrate, and with a glycopeptide acceptor substrate at 1.80-2.50 Å resolution. 26040437 2 91 gly six-histidine 448:460 arg1 six-histidine (6xHis) tag histidine six-histidine (6xHis) tag histidine Biosynthesis, glycosylation and secretion of the HA1 proteins, with natural or a melittin signal peptide at the N-terminus and a six-histidine (6xHis) tag at the C-terminus, were examined in insect cells. 32432921 7 17 gly N-glycosylation 1029:1043 arg2 the N-glycosylation site protein site Fterm protein site In this work, we have determined the quantitative distribution of AF-hSP-D oligomers, characterized the sugars attached through the N-glycosylation site of the protein, and compared the activity of hSP-D from AF and PAP with respect to their ability to bind and agglutinate bacteria. 33273015 6 76 gly glycopeptide 850:861 arg2 glycopeptide profiling glycopeptide profiling glycopeptide Native mass spectrometry, mass photometry and glycopeptide profiling revealed significant molecular complexity of diprotomeric nMPO arising from heterogeneous glycosylation, oxidation, chlorination and polypeptide truncation variants and a previously unreported low-abundance monoprotomer. 28939828 3 7 gly glycoprotein 372:383 arg1 glycoprotein glucosyltransferase glycoprotein glucosyltransferase The ER folding-sensor enzyme UDP-glucose:glycoprotein glucosyltransferase (UGGT) acts as a gatekeeper in the ER quality control system by specifically catalysing monoglucosylation onto incompletely folded glycoproteins, thereby enabling them to interact with lectin-chaperone complexes. 28939828 3 25 gly enzyme 353:358 arg1 The ER folding-sensor enzyme UDP-glucose enzyme The ER folding-sensor enzyme UDP-glucose Fterm enzyme The ER folding-sensor enzyme UDP-glucose:glycoprotein glucosyltransferase (UGGT) acts as a gatekeeper in the ER quality control system by specifically catalysing monoglucosylation onto incompletely folded glycoproteins, thereby enabling them to interact with lectin-chaperone complexes. 28939828 3 67 gly glycoproteins 536:548 arg1 incompletely folded glycoproteins incompletely folded glycoproteins Fterm glycoproteins The ER folding-sensor enzyme UDP-glucose:glycoprotein glucosyltransferase (UGGT) acts as a gatekeeper in the ER quality control system by specifically catalysing monoglucosylation onto incompletely folded glycoproteins, thereby enabling them to interact with lectin-chaperone complexes. 34495528 1 30 gly N-glycosylated 108:121 arg1 more than 7000 proteins more than 7000 proteins Fterm proteins N-glycosylation is a highly conserved glycan modification, and more than 7000 proteins are N-glycosylated in humans. 31972267 1 4 gly attached 318:325 arg1 the protein AND the glycan-moiety the protein the glycan-moiety Fterm protein Cell surface glycoproteins play critical roles in maintaining cardiac structure and function in health and disease and the glycan-moiety attached to the protein is critical for proper protein folding, stability and signaling [1]. 31972267 1 16 gly glycoproteins 194:206 arg1 Cell surface glycoproteins Cell surface glycoproteins Fterm glycoproteins Cell surface glycoproteins play critical roles in maintaining cardiac structure and function in health and disease and the glycan-moiety attached to the protein is critical for proper protein folding, stability and signaling [1]. 30852271 6 39 gly glycosylation 1019:1031 arg1 the IBV M protein ectodomain ectodomain ectodomain Taken together, this study demonstrates that although not essential for replication, glycosylation in the IBV M protein ectodomain plays important roles in activating ER stress, apoptosis and proinflammatory response, and may contribute to the pathogenesis of IBV. 33030205 5 1 gly O-glycopeptide 912:925 arg2 an O-glycopeptide an O-glycopeptide O-glycopeptide Here, through the determination of a crystal structure of IMPa in complex with an O-glycopeptide, we reveal that the N-terminal domain of IMPa, which is classified in Pfam as IMPa_N_2, is a proline recognition domain that also shows the properties of recognizing an O-linked glycan on the serine/threonine residue following the proline. 33030205 5 47 gly glycan 1105:1110 arg1 the serine/threonine residue the serine/threonine residue the serine/threonine residue Site residue Here, through the determination of a crystal structure of IMPa in complex with an O-glycopeptide, we reveal that the N-terminal domain of IMPa, which is classified in Pfam as IMPa_N_2, is a proline recognition domain that also shows the properties of recognizing an O-linked glycan on the serine/threonine residue following the proline. 32143591 5 14 gly -glycoprotein 837:849 arg1 mannosyl(α-1,3-)-glycoprotein β-1,2-N-acetylglucosaminyltransferase mannosyl(α-1,3-)-glycoprotein β-1,2-N-acetylglucosaminyltransferase Fterm -glycoprotein Moreover, we performed immunohistochemical staining of mannosyl(α-1,3-)-glycoprotein β-1,2-N-acetylglucosaminyltransferase (MGAT1), which is an essential glycosyltransferase that converts high-mannose glycans to complex- or hybrid-type N-glycans. 31702909 0 79 part_of CD19 28:31 arg1 the CD19 Extracellular Domain CD19 the CD19 Extracellular Domain OGER CD19 P15391 Fine Epitope Mapping of the CD19 Extracellular Domain Promotes Design. 33998969 3 52 gly hyper-glycosylated 597:614 arg1 hyper-glycosylated variants hyper-glycosylated variants Fterm variants Glycoengineering is a favorably used strategy to design and generate hyper-glycosylated variants. 33300777 7 76 gly glycoprotein 1268:1279 arg1 the glycoprotein transferrin the glycoprotein transferrin Fterm glycoprotein With the glycoprotein transferrin as a source of target glycan, two satisfied anti-A2G2S2 aptamers were selected within seven rounds. 29780502 2 85 part_of proteins 397:404 arg1 intrinsically disordered regions proteins intrinsically disordered regions Fterm Site proteins regions O-linked glycans in particular vary widely in extent and chemistry in eukaryotes, with secreted proteins from fungi and yeast commonly exhibiting O-mannosylation in intrinsically disordered regions of proteins, likely for proteolysis protection, among other functions. 32627435 2 25 gly afucosylated 402:413 arg1 afucosylated N-linked glycan structures afucosylated N-linked glycan structures It has been well established that higher levels of afucosylated N-linked glycan structures on the Fc region enhance the IgG binding affinity to the FcγIIIa receptor and lead to increased ADCC activity. 32627435 2 38 gly structures 431:440 arg1 the Fc region the Fc region the Fc region Site region It has been well established that higher levels of afucosylated N-linked glycan structures on the Fc region enhance the IgG binding affinity to the FcγIIIa receptor and lead to increased ADCC activity. 32326134 5 29 gly O-glycosylation 1153:1167 arg2 O-glycosylation sites O-glycosylation sites sites O-glycosylation sites were identified using O-glycopeptides (bold underlined; 56SGETRTSVI, 259SHSSSGRSRTI, 272GSPSSVSSAEQI, 307RPSYGAL, 625QTLGPL, 728TMTTRTSVVV, and 1080RPEDNTAVA) obtained from proteolytic BSM; these sites are in the four domains of BSM. 32326134 5 11 gly O-glycopeptides 1197:1211 arg1 O-glycopeptides O-glycopeptides O-glycopeptides O-glycosylation sites were identified using O-glycopeptides (bold underlined; 56SGETRTSVI, 259SHSSSGRSRTI, 272GSPSSVSSAEQI, 307RPSYGAL, 625QTLGPL, 728TMTTRTSVVV, and 1080RPEDNTAVA) obtained from proteolytic BSM; these sites are in the four domains of BSM. 30123425 3 20 part_of proteins 472:479 arg1 serine proteins serine Fterm AminoAcid proteins serine O-GlcNAcylation, the attachment of β-N-acetylglucosamine (O-GlcNAc) to serine or threonine residues of intracellular proteins, modulates protein functions and is implicated in cancer pathogenesis. 30123425 3 20 part_of proteins 472:479 arg1 threonine proteins threonine Fterm AminoAcid proteins threonine residues O-GlcNAcylation, the attachment of β-N-acetylglucosamine (O-GlcNAc) to serine or threonine residues of intracellular proteins, modulates protein functions and is implicated in cancer pathogenesis. 33116178 7 48 gly fucosylated 1146:1156 arg1 specific fucosylated glycan motifs specific fucosylated glycan motifs This knowledge provides a starting point for investigations into the role of specific fucosylated glycan motifs of schistosomes in parasite-host interactions. 31094416 4 14 gly glycosylation 949:961 arg2 N-linked glycosylation sites N-linked glycosylation sites sites Even though the canonical sugar-binding β-sheet S-face (β-strands 1, 10, 3, 4, 5, 6) of the Gal-3 β-sandwich is involved in interactions with CD146 (e.g. N-linked glycosylation sites), equivalent HSQC spectral perturbations at residues on the opposing Gal-3 F-face β-sheet (β-strands 11, 2, 7, 8, 9) indicate involvement of the Gal-3 F-face in binding CD146. 29513221 5 39 part_of vimentin 933:940 arg1 specific vimentin glycosylation sites vimentin specific vimentin glycosylation sites PUBTATOR Site vimentin 7431 sites In addition, we show that the intracellular pathogen Chlamydia trachomatis, which remodels the host IF cytoskeleton during infection, requires specific vimentin glycosylation sites and O-GlcNAc transferase activity to maintain its replicative niche. 28348171 7 46 gly glycopeptides 1216:1228 arg2 N-linked glycopeptides N-linked glycopeptides glycopeptides To identify enriched surface glycoproteins, we then performed solid-phase extraction of N-linked glycopeptides followed by liquid chromatography-tandem mass spectrometry (LC-MS/MS) on our homogeneous macrophage populations. 28348171 7 63 gly glycoproteins 1148:1160 arg1 enriched surface glycoproteins enriched surface glycoproteins Fterm glycoproteins To identify enriched surface glycoproteins, we then performed solid-phase extraction of N-linked glycopeptides followed by liquid chromatography-tandem mass spectrometry (LC-MS/MS) on our homogeneous macrophage populations. 30392906 8 9 gly glycosylation 960:972 arg1 Asn50 Asn50 Asn50 Our results demonstrate that glycosylation of Asn50 is essential for its function as a receptor of ConA. 33103998 1 6 gly glycosylated 194:205 arg1 its receptor-binding domain ACE2 domain OGER ACE2 Q9BYF1 domain The Spike protein of SARS-CoV-2, its receptor-binding domain (RBD), and its primary receptor ACE2 are extensively glycosylated. 33103998 1 6 gly glycosylated 194:205 arg1 its receptor-binding domain SARS domain OGER SARS P49591 domain The Spike protein of SARS-CoV-2, its receptor-binding domain (RBD), and its primary receptor ACE2 are extensively glycosylated. 33103998 1 6 gly glycosylated 194:205 arg1 its receptor-binding domain protein domain Fterm protein domain The Spike protein of SARS-CoV-2, its receptor-binding domain (RBD), and its primary receptor ACE2 are extensively glycosylated. 31671706 2 23 part_of VEGFR-2 461:467 arg1 the VEGFR-2 region VEGFR-2 the VEGFR-2 region PUBTATOR Site VEGFR-2 3791 region The prepared fusion protein was expected to possess a total of five N-linked glycosylation sites: two sites in the VEGFR-1 region, two sites in the VEGFR-2 region, and one site in the human IgG Fc region. 31671706 2 68 part_of IgG 503:505 arg1 the human IgG Fc region IgG the human IgG Fc region Cterm Site IgG region The prepared fusion protein was expected to possess a total of five N-linked glycosylation sites: two sites in the VEGFR-1 region, two sites in the VEGFR-2 region, and one site in the human IgG Fc region. 31671706 2 86 part_of VEGFR-1 428:434 arg1 the VEGFR-1 region VEGFR-1 the VEGFR-1 region PUBTATOR Site VEGFR-1 2321 region The prepared fusion protein was expected to possess a total of five N-linked glycosylation sites: two sites in the VEGFR-1 region, two sites in the VEGFR-2 region, and one site in the human IgG Fc region. 30144161 4 22 part_of tau 606:608 arg1 the tau protein-derived VQIVYK hexapeptide motif tau the tau protein-derived VQIVYK hexapeptide motif PUBTATOR Site tau 4137 motif O-linked glycans and phosphate variants of the tau protein-derived VQIVYK hexapeptide motif were generated as a simplified amyloid scaffold model and demonstrate that, while self-aggregation can be attenuated by either a single glycan or a phosphate unit, only co-incubation with the O-GlcNAc variant inhibits aggregation of the native peptide. 30305605 2 55 gly glycosylation 303:315 arg1 proteins proteins Fterm proteins 59048 Thus, it plays a crucial role in the biosynthesis of O-linked glycosylation of proteins. 29258330 2 25 gly glycosylation 494:506 arg2 N-linked glycosylation sites N-linked glycosylation sites sites, sequence From inspection of aligned HIV-2 sequences, we verified that V1/V2 region showed the highest degree of amino acid sequence heterogeneity, including polymorphisms in N-linked glycosylation sites, sequence, and length. 27666939 9 36 gly afucosylated 1731:1742 arg1 primarily fucosylated to afucosylated glycans primarily fucosylated to afucosylated glycans Finally, FXKO clones can express antibodies with the desired ratio of primarily fucosylated to afucosylated glycans when fucose is titrated into the production media, to allow achieving intended levels of FcγRIII-binding and ADCC for an antibody. 29969180 1 14 part_of β-1,2-xylose 380:391 arg1 β-1,2-xylose and core α-1,3-fucose residues -1,2 β-1,2-xylose and core α-1,3-fucose residues PUBTATOR AminoAcid -1,2 10242 residues in Plants offer fast, flexible and easily scalable alternative platforms for the production of pharmaceutical proteins, but differences between plant and mammalian N-linked glycans, including the presence of β-1,2-xylose and core α-1,3-fucose residues in plants, can affect the activity, potency and immunogenicity of plant-derived proteins. 29969180 1 26 part_of α-1,3-fucose 402:413 arg1 β-1,2-xylose and core α-1,3-fucose residues -1,3 β-1,2-xylose and core α-1,3-fucose residues PUBTATOR AminoAcid -1,3 146 residues in Plants offer fast, flexible and easily scalable alternative platforms for the production of pharmaceutical proteins, but differences between plant and mammalian N-linked glycans, including the presence of β-1,2-xylose and core α-1,3-fucose residues in plants, can affect the activity, potency and immunogenicity of plant-derived proteins. 29569918 7 77 gly unsialylated 1251:1262 arg1 unsialylated O-glycans unsialylated O-glycans Our double labeling technique identified significant differences in unsialylated O-glycans between B-cell and T-cell lymphomas and between B-cell lymphomas and normal adjacent lymph nodes. 34343291 0 67 gly glycoprotein 44:55 arg1 glycoprotein dynamics glycoprotein dynamics Fterm glycoprotein Effects of changes in glycan composition on glycoprotein dynamics: example of N-glycans on insulin receptor. 30889014 6 24 gly N-glycosite 949:959 arg2 the online N-glycosite software the online N-glycosite software N-glycosite Potential N-linked glycosylation site (PNGS) number was calculated using the online N-glycosite software. 30889014 6 77 gly glycosylation 884:896 arg2 Potential N-linked glycosylation site Potential N-linked glycosylation site site Potential N-linked glycosylation site (PNGS) number was calculated using the online N-glycosite software. 31308178 3 61 gly N-glycosylated 542:555 arg1 a highly N-glycosylated receptor tyrosine kinase a highly N-glycosylated receptor tyrosine kinase Fterm kinase VEGFR2 is a highly N-glycosylated receptor tyrosine kinase involved in pro-angiogenic signaling in physiological and pathological contexts, including cancer. 30032777 5 7 gly glycopeptides 789:801 arg2 glycopeptides glycopeptides glycopeptides The enrichment efficiency of MAR@MOP to glycopeptides was demonstrated by trapping N-linked glycopeptides from tryptic digests of human immunoglobulin G (IgG), horseradish peroxidase (HRP) and bovine fetuin. 30032777 5 34 gly glycopeptides 841:853 arg2 N-linked glycopeptides N-linked glycopeptides glycopeptides The enrichment efficiency of MAR@MOP to glycopeptides was demonstrated by trapping N-linked glycopeptides from tryptic digests of human immunoglobulin G (IgG), horseradish peroxidase (HRP) and bovine fetuin. 30032777 5 38 gly trapping 823:830 arg1 N-linked glycopeptides N-linked glycopeptides glycopeptides The enrichment efficiency of MAR@MOP to glycopeptides was demonstrated by trapping N-linked glycopeptides from tryptic digests of human immunoglobulin G (IgG), horseradish peroxidase (HRP) and bovine fetuin. 29030255 9 84 part_of present 1229:1235 arg1 pufferfish CA VI AND Three potential N-linked glycosylation sites pufferfish CA VI Three potential N-linked glycosylation sites PUBTATOR Site CA VI 765 sites Three potential N-linked glycosylation sites and two cysteine residues (Cys-28 and Cys-209) that are likely to form one disulfide bond were present in pufferfish CA VI. 29030255 9 84 part_of present 1229:1235 arg2 pufferfish CA VI AND two cysteine residues pufferfish CA VI two cysteine residues PUBTATOR AminoAcid CA VI 765 cysteine residues Three potential N-linked glycosylation sites and two cysteine residues (Cys-28 and Cys-209) that are likely to form one disulfide bond were present in pufferfish CA VI. 34379416 11 80 gly glycoproteins 1808:1820 arg1 glycoproteins glycoproteins Fterm glycoproteins We conclude that glycosylation is fundamental for protein dynamics, making it a necessity for a truthful representation of the flexibility and function in in silico studies of glycoproteins. 30392906 0 3 part_of protein 73:79 arg1 the extracellular domain Myelin protein zero-like protein 1 the extracellular domain PUBTATOR Site Myelin protein zero-like protein 1 9019 domain Structural and biochemical studies of the extracellular domain of Myelin protein zero-like protein 1. 34532545 2 56 gly protein 376:382 arg1 the O-GlcNAcylation level protein the O-GlcNAcylation level Fterm protein Evaluation of the O-GlcNAcylation level of a specific protein, however, needs multiple and time-consuming steps if using conventional methods (e.g., immune-purification, mass spectrometric analysis). 32039451 0 34 gly strain 53:58 arg1 The N-glycans strain The N-glycans Fterm strain The N-glycans of Chlorella sorokiniana and a related strain contain arabinose but have strikingly different structures. 28366604 4 55 gly glycosylation 690:702 arg2 N277 site N277 site N277 We identified a highly conserved N-linked glycosylation site N277 in the C2 region which strongly affected the immunogenicity of the CD4i Ab domain. 33577335 3 21 gly peptides 581:588 arg1 chemoenzymatic glycan modification peptides chemoenzymatic glycan modification peptides Here we report our synthesis and evaluation of homogeneously glycosylated interleukin-17A (IL-17A), based on a synthetic approach combining solid-phase synthesis of (glyco)peptides, chemoenzymatic glycan modification on segments, and chemical ligations. 33577335 3 43 gly modification 613:624 arg1 (glyco)peptides AND chemoenzymatic glycan modification (glyco)peptides chemoenzymatic glycan modification peptides Here we report our synthesis and evaluation of homogeneously glycosylated interleukin-17A (IL-17A), based on a synthetic approach combining solid-phase synthesis of (glyco)peptides, chemoenzymatic glycan modification on segments, and chemical ligations. 34278967 2 88 gly glycosylation 350:362 arg2 the glycosylation sites the glycosylation sites sites S protein is heavily glycosylated and the glycosylation sites are relatively conserved, thus glycans on S protein surface could be a target for the development of anti-SARS-CoV-2 strategies against variants. 29526322 7 14 gly Glycosylation 858:870 arg1 NCX3 NCX3 N45 site PUBTATOR NCX3 6547 N45 site Glycosylation of NCX3 at the N45 site was required for targeting the protein to the plasma membrane, and the N45 site functioned as an on-off switch for the translocation of NCX3 to either the plasma membrane or the membrane of the ER. 29246839 5 56 gly glycoprotein 1002:1013 arg1 a monomeric glycoprotein a monomeric glycoprotein Fterm glycoprotein Sa1-SSTrec purified from the culture supernatant was a monomeric glycoprotein optimally active at pH 5.0-6.0 and 45-50 °C. 34341581 6 44 gly glycoproteins 1088:1100 arg1 glycoproteins glycoproteins Fterm glycoproteins The approach will be greatly beneficial for in-depth structural and functional study of glycoproteins in the biomedical research. 30541852 13 14 part_of SLC19A1 1989:1995 arg1 SLC19A1 and also other residues SLC19A1 SLC19A1 and also other residues PUBTATOR Site SLC19A1 20509 residues We show that GLN infection is limited to mouse cells due to both a mutation in the mouse gene preventing the glycosylation of SLC19A1 and also other residues conserved within the rat but not in the hamster and human proteins. 32782472 3 50 gly N-glycosylated 502:515 arg1 an N-glycosylated catalytic domain an N-glycosylated catalytic domain domain The architecture of TrCel7A includes an N-glycosylated catalytic domain, which is connected to a carbohydrate-binding module through a flexible, O-glycosylated linker. 31341641 5 84 part_of gp120 744:748 arg1 26,000 published HIV-1 gp120 sequences HIV-1 gp120 26,000 published HIV-1 gp120 sequences PUBTATOR Site HIV-1 gp120 155971 sequences We processed over 26,000 published HIV-1 gp120 sequences, from which we extracted 6,605 sequences for phylogenetic analysis. 30021839 1 18 gly glycans 293:299 arg1 misfolded proteins proteins glycans Fterm proteins Endoplasmic reticulum (ER) degradation-enhancing α-mannosidase-like 1 protein (EDEM1) is a protein quality control factor that was initially proposed to recognize N-linked glycans on misfolded proteins through its mannosidase-like domain (MLD). 31270739 6 57 gly glycopeptide 946:957 arg2 glycopeptide enrichment glycopeptide enrichment glycopeptide By developing workflows for glycopeptide enrichment and identification we have demostrated that it is now possible to characterise the glycoproteomes of microbial species in a truely high-throughput manner. 31837192 1 82 gly glycoproteins 259:271 arg1 therapeutic glycoproteins therapeutic glycoproteins Fterm glycoproteins Glyco-design of proteins is a powerful tool in fundamental studies of structure-function relationship and in obtaining profiles optimized for efficacy of therapeutic glycoproteins. 31067000 11 68 part_of IgG 1643:1645 arg1 the IgG ACPA V domain IgG the IgG ACPA V domain Cterm Site IgG domain CONCLUSION Extensive glycosylation of the IgG ACPA V domain is present in a subset of predisposed FDRs of Indigenous North American RA patients. 28657654 7 12 gly proteins 1446:1453 arg1 O-GlcNAcylation proteins O-GlcNAcylation Fterm proteins These findings suggest that dysregulation of O-GlcNAcylation of multiple brain proteins may be involved in the development of sporadic AD. 29779369 6 39 gly profiles 1204:1211 arg1 human serum proteins proteins profiles Fterm proteins With optimized N-glycan release conditions, glycosylamine labeling conditions, and MS acquisition parameters, the N-glycan profiles and abundances in human serum proteins of cancer patients before and after chemotherapy were compared. 34888356 7 40 gly compositions 1548:1559 arg1 sialic acid epitopes sialic acid epitopes sialic acid epitopes Then, three sialylated biantennary N-glycans were further subjected to the separation of linkage isomers and quantification using porous graphitized carbon-liquid chromatography (PGC-LC)/multiple reaction monitoring (MRM)-MS. We were able to successfully identify 11 isomers with sialic acid epitopes from the three glycan compositions consisting of Hex5HexNAc4NeuAc1, Hex5HexNAc4Fuc1NeuAc1, and Hex5HexNAc4NeuAc2. 34888356 7 49 gly sialylated 1237:1246 arg1 three sialylated biantennary N-glycans three sialylated biantennary N-glycans Then, three sialylated biantennary N-glycans were further subjected to the separation of linkage isomers and quantification using porous graphitized carbon-liquid chromatography (PGC-LC)/multiple reaction monitoring (MRM)-MS. We were able to successfully identify 11 isomers with sialic acid epitopes from the three glycan compositions consisting of Hex5HexNAc4NeuAc1, Hex5HexNAc4Fuc1NeuAc1, and Hex5HexNAc4NeuAc2. 30535277 5 23 gly glycoproteins 894:906 arg1 the fucosylated glycoproteins the fucosylated glycoproteins Fterm glycoproteins Besides, the fucosylated glycoproteins were isolated from pooled saliva of HV, HB, HC, and HCC by LTL-magnetic particle conjugates. 30535277 5 66 gly fucosylated 882:892 arg1 the fucosylated glycoproteins the fucosylated glycoproteins Fterm glycoproteins Besides, the fucosylated glycoproteins were isolated from pooled saliva of HV, HB, HC, and HCC by LTL-magnetic particle conjugates. 31101650 3 13 gly glycosylation 548:560 arg1 cell surface glycoproteins cell surface glycoproteins Fterm glycoproteins We used selective exo-enzymatic labeling of cells deficient in the two catalytic subunits of oligosaccharyltransferase - STT3A and STT3B - to monitor the presence and glycosylation status of cell surface glycoproteins. 31101650 3 21 gly glycoproteins 585:597 arg1 cell surface glycoproteins cell surface glycoproteins Fterm glycoproteins We used selective exo-enzymatic labeling of cells deficient in the two catalytic subunits of oligosaccharyltransferase - STT3A and STT3B - to monitor the presence and glycosylation status of cell surface glycoproteins. 34200965 7 60 gly glycopeptide 976:987 arg2 a glycopeptide glycopeptide the glycan part glycopeptide Since alterations in the glycan part of a glycopeptide cause mass alterations, analytical size exclusion chromatography was applied to detect these mass shifts. 31852790 0 100 gly Glycans 9:15 arg1 Hemagglutinin Hemagglutinin Glycans Fterm Hemagglutinin N-Linked Glycans and K147 Residue on Hemagglutinin Synergize To Elicit Broadly Reactive H1N1 Influenza Virus Antibodies. 29339411 10 38 gly glycopeptides 1949:1961 arg2 glycopeptides glycopeptides glycopeptides CID oxonium ions and electron transfer dissociation, however, confirmed that just a single site was glycosylated, showing that glycan-to-peptide rearrangement can occur on glycopeptides and that this effect is influenced by the molecular nature of the glycan moiety. 29339411 10 85 gly glycosylated 1877:1888 arg1 just a single site just a single site site CID oxonium ions and electron transfer dissociation, however, confirmed that just a single site was glycosylated, showing that glycan-to-peptide rearrangement can occur on glycopeptides and that this effect is influenced by the molecular nature of the glycan moiety. 28534487 6 1 gly integrin 1004:1011 arg1 an N-linked sugar integrin an N-linked sugar Fterm integrin In addition, an N-linked sugar of the integrin attaches to the previously identified HS binding site, suggesting a functional role. 28534487 6 28 gly attaches 1013:1020 arg1 the previously identified HS binding site AND an N-linked sugar the previously identified HS binding site an N-linked sugar site In addition, an N-linked sugar of the integrin attaches to the previously identified HS binding site, suggesting a functional role. 32220931 1 0 gly Fucosylation 81:92 arg1 the innermost GlcNAc the innermost GlcNAc Fucosylation of the innermost GlcNAc of N-glycans by fucosyltransferase 8 (FUT8) is an important step in the maturation of complex and hybrid N-glycans. 34885895 5 16 gly glycosylation 732:744 arg2 N-linked glycosylation sites N-linked glycosylation sites sites In that regard, computational prediction of N-linked glycosylation sites confined to N-X-[S/T] sequons is an important problem. 32938717 3 61 gly epitope 588:594 arg1 a high-affinity epitope tag a high-affinity epitope tag Here, we established a purification method for mutated OSTs using a high-affinity epitope tag attached to the catalytic subunit Stt3, from yeast cells co-expressing the WT OST to support growth. 30158294 6 45 gly N-glycosylation 861:875 arg2 a conserved N-glycosylation site site, N294 site, N294 Sequence alignment of SERINC family proteins led us to identify a conserved N-glycosylation site, N294, in SERINC5. 31094416 1 80 gly glycoprotein 209:220 arg1 cell adhesion glycoprotein CD146 cell adhesion glycoprotein CD146 Fterm glycoprotein Galectin-3 (Gal-3) binds to cell adhesion glycoprotein CD146 to promote cytokine secretion and mediate endothelial cell migration. 34232571 4 54 gly glycosylation 586:598 arg2 glycosylation sites glycosylation sites sites In this protocol, we detail a workflow for comprehensive analyses of intact glycopeptides (IGPs), glycosylation sites, and glycans from N-linked glycoproteins. 34232571 4 19 gly glycopeptides 564:576 arg1 N-linked glycoproteins glycoproteins glycopeptides Fterm glycoproteins glycopeptides In this protocol, we detail a workflow for comprehensive analyses of intact glycopeptides (IGPs), glycosylation sites, and glycans from N-linked glycoproteins. 34232571 4 25 gly glycoproteins 633:645 arg1 N-linked glycoproteins glycoproteins glycans Fterm glycoproteins In this protocol, we detail a workflow for comprehensive analyses of intact glycopeptides (IGPs), glycosylation sites, and glycans from N-linked glycoproteins. 29531238 4 45 gly glycoproteins 820:832 arg1 4,412 glycoproteins 4,412 glycoproteins Fterm glycoproteins Only 27.4% of all NLGs are experimentally validated sites on 4,412 glycoproteins. 33263330 0 33 gly N-glycosylated 14:27 arg1 Homogeneously N-glycosylated proteins Homogeneously N-glycosylated proteins Fterm proteins Homogeneously N-glycosylated proteins derived from the GlycoDelete HEK293 cell line enable diffraction-quality crystallogenesis. 32663509 10 98 part_of B3GNT2 2215:2220 arg1 the B3GNT2 trans-Golgi lumen domain B3GNT2 the B3GNT2 trans-Golgi lumen domain PUBTATOR Site B3GNT2 Q9NY97 domain Expression of B3GNT2 following initial expression of B4GALT1 was also problematic in that transcriptional and translational analysis indicated the accumulation of truncated B3GNT2 missing a section of the B3GNT2 trans-Golgi lumen domain while transmembrane and cytoplasmic domains were present. 30996101 8 80 part_of env 1549:1551 arg1 the women's env sequences env the women's env sequences PUBTATOR Site env 100616444 sequences No distinct amino acid signatures in the men's viruses were found to link to the women's founders, nor did the women's env sequences have shorter variable loops or fewer N-linked glycosylation sites. 34192331 3 27 part_of IgG-Fc 449:454 arg1 the IgG-Fc region IgG the IgG-Fc region Cterm Site IgG region While the N-glycan structures attached to the IgG-Fc region are generally heterogenous, IgGs engineered to be homogenously glycosylated with functional N-glycans may improve the efficacy of antibodies. 33560857 6 26 gly N-glycopeptides 1078:1092 arg2 893 different N-glycopeptides 893 different N-glycopeptides N-glycopeptides In total, 893 different N-glycopeptides and 128 unique N-glycan compositions were identified. 30291258 5 41 part_of gut 1204:1206 arg1 gut microbiota composition gut gut microbiota composition PUBTATOR Site gut 110006 position Our results suggest that sub-chronic OEA treatment modulates gut microbiota composition towards a "lean-like phenotype", and polarises gut-specific immune responses mimicking the effect of a diet low in fat and high in polysaccharides content. 30606265 5 60 part_of containing 823:832 arg1 peptides AND the appropriate acceptor sequon peptides the appropriate acceptor sequon sequon Plasmid-borne recombinant expression of these genes in E. coli results in the production of a glucose polymer on peptides containing the appropriate acceptor sequon, NX(S/T). 33404348 0 48 gly Glycoproteins 41:53 arg1 Glycan Alterations Glycoproteins Glycan Alterations Fterm Glycoproteins The Repertoire of Glycan Alterations and Glycoproteins in Human Cancers. 31341641 1 4 part_of gp120 252:256 arg1 the five variable regions gp120 the five variable regions PUBTATOR Site gp120 155971 regions The transmission fitness and pathogenesis of HIV-1 is disproportionately influenced by evolution in the five variable regions (V1-V5) of the surface envelope glycoprotein (gp120). 30619255 2 107 gly asialylated 461:471 arg1 the asialylated disaccharide Gal-β1,3-GalNAc-Ser/Thr the asialylated disaccharide Gal-β1,3-GalNAc-Ser/Thr Gal-β1,3-GalNAc-Ser/Thr For decades, GC B cells have been defined by their reactivity to the plant lectin peanut agglutinin (PNA), which binds serine/threonine (O-linked) glycans containing the asialylated disaccharide Gal-β1,3-GalNAc-Ser/Thr (also called T-antigen). 31399531 0 22 part_of site 71:74 arg1 protein C protein C site PUBTATOR Site protein C 5624 site Ile73Asn mutation in protein C introduces a new N-linked glycosylation site on the first EGF-domain of protein C and causes thrombosis. 31399531 0 67 part_of C 111:111 arg1 the first EGF-domain protein C the first EGF-domain PUBTATOR Site protein C 5624 EGF-domain Ile73Asn mutation in protein C introduces a new N-linked glycosylation site on the first EGF-domain of protein C and causes thrombosis. 32441515 9 11 gly glycopeptide 1553:1564 arg2 glycopeptide glycopeptide glycopeptide This methodology of multiple CE fragmentation without merging spectral information can significantly improve confidence of glycopeptide identification and structural resolution by providing additional information to the established glycopeptide-search algorithms and tools. 30029404 4 70 gly glycopeptides 894:906 arg2 glycopeptides glycopeptides glycopeptides Thanks to outstanding hydrophilicity brought by the grafted zwitterionic IDA groups, the trap columns showed excellent on-column enrichment performance toward glycopeptides by hydrophilic interaction liquid chromatography (HILIC). 30016717 6 91 gly containing 1058:1067 arg1 620 peptides AND one or more O-GlcNAc sites 620 peptides one or more O-GlcNAc sites peptides This combination of fractionation and click chemistry is a powerful methodology to map O-GlcNAc sites; indeed, 342 proteins were identified through the identification of 620 peptides containing one or more O-GlcNAc sites. 34229070 2 30 gly O-glycosylated 322:335 arg1 an O-glycosylated protein an O-glycosylated protein Fterm protein As an O-glycosylated protein, O-glycosylation of APP is considered to be related to Aβ generation. 34341581 2 28 gly glycopeptides 356:368 arg2 intact glycopeptides intact glycopeptides glycopeptides Here, we describe a modularization strategy for de novo interpretation of N-glycan structures on intact glycopeptides using tandem mass spectrometry. 31336250 1 27 part_of Fc 113:114 arg1 The Fc region Fc The Fc region Cterm Site Fc region The Fc region of IgG antibodies is crucial for binding to Fc receptors expressed on the surfaces of various immune leukocytes and eliciting therapeutic effector functions such as clearance of antibody-opsonized tumor cells. 33664361 8 51 gly N-glycosylation 1238:1252 arg1 viral proteins viral proteins Fterm proteins Our study clearly demonstrates the progress made towards site-specific N-glycosylation analysis of viral proteins, i.e. for Brazilian ZIKV. 31561469 12 54 gly glycoprotein 1304:1315 arg1 glycoprotein VI (GPVI) glycoprotein VI (GPVI) Fterm glycoprotein In contrast, Atr-III cleaves glycoprotein VI (GPVI) into a soluble ~55-kDa fragment (sGPVI). 34857845 6 23 gly N-glycoforms 1234:1245 arg1 the core fucosylated N-glycoforms the core fucosylated N-glycoforms Our results show that a combination of soft fragmentation with exoglycosidases is efficient at the assignment and quantification of the core fucosylated N-glycoforms at specific sites of protein attachment. 34857845 6 87 gly fucosylated 1222:1232 arg1 the core fucosylated N-glycoforms the core fucosylated N-glycoforms Our results show that a combination of soft fragmentation with exoglycosidases is efficient at the assignment and quantification of the core fucosylated N-glycoforms at specific sites of protein attachment. 28487326 3 98 gly proteins 692:699 arg1 O-GlcNAcylation proteins O-GlcNAcylation Fterm proteins A key unfolded protein response prosurvival pathway is controlled by the endoplasmic reticulum stress sensor (inositol-requiring enzyme-1), XBP1 (downstream X-box-binding protein-1), and O-GlcNAc (O-linked β-N-acetylglucosamine) modification of proteins (O-GlcNAcylation). 29304374 1 25 gly glycoproteins 255:267 arg1 N-linked glycoproteins N-linked glycoproteins Fterm glycoproteins Fucosyltransferase 8 (FUT8) encodes a Golgi-localized α1,6 fucosyltransferase that is essential for transferring the monosaccharide fucose into N-linked glycoproteins, a process known as "core fucosylation." 30420690 3 12 gly modified 598:605 arg3 the Hedgehog pathway transcription factors AND O-GlcNAcylation the Hedgehog pathway transcription factors O-GlcNAcylation Fterm factors In elevated glucose conditions, we determined that the Hedgehog pathway transcription factors, GLI1 and GLI2, are modified by O-GlcNAcylation. 31511323 5 82 gly sialylated 917:926 arg2 Asn-42 Asn-42 Asn-42 Using heterologous expression in polarized Madin-Darby canine kidney cells, we show that β2 is N-glycosylated in vivo and in vitro at residues 42, 66, and 74, becoming sialylated only at Asn-42. 31511323 5 58 gly N-glycosylated 844:857 arg1 β2 2 residues 42, 66, and 74 PUBTATOR 2 170589 residues 42, 66, and 74 Using heterologous expression in polarized Madin-Darby canine kidney cells, we show that β2 is N-glycosylated in vivo and in vitro at residues 42, 66, and 74, becoming sialylated only at Asn-42. 28348171 6 72 gly glycoproteins 773:785 arg1 novel surface glycoproteins novel surface glycoproteins Fterm glycoproteins To identify novel surface glycoproteins expressed on M2 macrophages, we developed a novel method of creating homogeneous populations of human macrophages from human CD14+ monocytes in vitro These homogeneous M1 macrophages secrete pro-inflammatory cytokines, and our M2 macrophages secrete anti-inflammatory cytokines as well as vascular endothelial growth factor (VEGF). 32817316 6 87 part_of have 1205:1208 arg1 SLP-5818 AND two sites SLP-5818 two sites PUBTATOR Site SLP 100418288 sites No N-glycosylation signals were detected in SLP-8348 and SLP-8321, but SLP-5818 was observed to have two sites carrying complex N-glycans based on a site-specific analysis and a glycomic workflow of the permethylated glycans. 33581334 3 11 gly O-glycoprotein 407:420 arg1 an O-glycoprotein repository an O-glycoprotein repository Fterm O-glycoprotein To resolve this issue, an O-glycoprotein repository named OGP was established in this work. 29746846 0 25 gly deposition 30:39 arg1 placental proteins proteins deposition Fterm proteins O-linked N-acetyl-glucosamine deposition in placental proteins varies according to maternal glycemic levels. 32887075 5 20 gly N-glycosylation 786:800 arg2 four N-glycosylation sites four N-glycosylation sites sites The results revealed that there are four N-glycosylation sites in O.niloticus IgM heavy chain, namely, the Asn-315 site in the CH2 domain, the Asn-338 site in the CH3 domain, and the Asn-509 and Asn-551 sites in the CH4 domain, All of the four residues were efficiently N-glycosylated. 32887075 5 44 gly N-glycosylated 1015:1028 arg1 the four residues the four residues residues The results revealed that there are four N-glycosylation sites in O.niloticus IgM heavy chain, namely, the Asn-315 site in the CH2 domain, the Asn-338 site in the CH3 domain, and the Asn-509 and Asn-551 sites in the CH4 domain, All of the four residues were efficiently N-glycosylated. 29756380 1 28 gly serine 161:166 arg1 residues residues serine and threonine residues O-Linked glycosylation of serine and threonine residues of nucleocytoplasmic proteins with N-acetylglucosamine (O-GlcNAc) residues is catalyzed by O-GlcNAc transferase (OGT). 29756380 1 37 gly glycosylation 144:156 arg1 serine serine and threonine residues serine and threonine residues O-Linked glycosylation of serine and threonine residues of nucleocytoplasmic proteins with N-acetylglucosamine (O-GlcNAc) residues is catalyzed by O-GlcNAc transferase (OGT). 34089345 1 16 gly glycoprotein 295:306 arg1 the endogenous glycan and glycoprotein ligands the endogenous glycan and glycoprotein ligands The macrophage mannose receptor (CD206, MR) is an endocytic lectin receptor which plays an important role in homeostasis and innate immunity, however, the endogenous glycan and glycoprotein ligands recognized by its C-type lectin domains (CTLD) have not been well studied. 32699088 5 24 gly glycosylation 944:956 arg2 head glycosylation sites head glycosylation sites sites In contrast, variable sites exist in H3N2 IAVs of human and swine origin, where the number of head glycosylation sites has mainly increased over time. 28679762 3 94 part_of AAVR 597:600 arg1 the ectodomain AAVR the ectodomain PUBTATOR Site AAVR 79932 ectodomain Here, we further biochemically characterize the AAV-AAVR interaction and define the domains within the ectodomain of AAVR that facilitate this interaction. 28679762 16 18 part_of PKD 2868:2870 arg1 the Ig-like PKD domains Ig-like PKD the Ig-like PKD domains OGER Site Ig-like PKD Q15139 domains Here, we further define AAV-AAVR interactions, genetically and biochemically, and show that different AAV serotypes have discrete interactions with the Ig-like PKD domains of AAVR. 28679762 16 23 part_of AAVR 2883:2886 arg1 the Ig-like PKD domains AAVR the Ig-like PKD domains PUBTATOR Site AAVR 79932 domains Here, we further define AAV-AAVR interactions, genetically and biochemically, and show that different AAV serotypes have discrete interactions with the Ig-like PKD domains of AAVR. 28679762 16 43 part_of Ig-like 2860:2866 arg1 the Ig-like PKD domains Ig-like PKD the Ig-like PKD domains OGER Site Ig-like PKD Q15139 domains Here, we further define AAV-AAVR interactions, genetically and biochemically, and show that different AAV serotypes have discrete interactions with the Ig-like PKD domains of AAVR. 33664400 4 9 part_of has 488:490 arg1 CD44 AND multiple distinct binding sites CD44 multiple distinct binding sites OGER Site CD44 P16070 sites Based on atomistic simulations and NMR, we provide evidence that CD44 has multiple distinct binding sites for hyaluronan, and that N-glycosylation modulates their respective roles. 28100911 1 56 gly glycoprotein 261:272 arg1 small integrin-binding ligand N-linked glycoprotein small integrin-binding ligand N-linked glycoprotein Fterm glycoprotein A recent genome-wide association study (GWAS) for dental caries nominated the chromosomal region 4q21 near ABCG2, PKD2 and the SIBLING (small integrin-binding ligand N-linked glycoprotein) gene family. 29672582 10 71 gly glycosylation 1731:1743 arg1 IgG4 N-glycans IgG4 N-glycans Furthermore, there were no significant differences in the glycosylation of IgG4 N-glycans between patients with and without individual organ involvement of IgG4RD. 28637198 2 59 gly glycoproteins 509:521 arg1 N-linked glycoproteins N-linked glycoproteins Fterm glycoproteins Among them, there are the HIV-1 reverse transcriptase (RT)-associated ribonuclease H (RNase H) function and the cellular α-glucosidase, involved in the control mechanisms of N-linked glycoproteins formation in the endoplasmic reticulum. 30285435 1 1 gly glycosylation 87:99 arg1 nuclear and cytoplasmic proteins nuclear and cytoplasmic proteins Fterm proteins Reversible glycosylation of nuclear and cytoplasmic proteins is an important regulatory mechanism across metazoans. 30487799 4 24 gly occupied 690:697 arg2 Asn-565 Asn-565 Asn-565 Among the four glycosylation sites, the Asn-262, Asn-303, and Asn-426 residues were efficiently glycosylated, while Asn-565 at the C-terminal tailpiece was incompletely occupied. 30487799 4 51 gly glycosylated 617:628 arg1 the Asn-262, Asn-303, and Asn-426 residues the Asn-262, Asn-303, and Asn-426 residues Asn-262, Asn-303, and Asn-426 residues Among the four glycosylation sites, the Asn-262, Asn-303, and Asn-426 residues were efficiently glycosylated, while Asn-565 at the C-terminal tailpiece was incompletely occupied. 30487799 4 67 gly glycosylation 536:548 arg2 the four glycosylation sites the four glycosylation sites sites Among the four glycosylation sites, the Asn-262, Asn-303, and Asn-426 residues were efficiently glycosylated, while Asn-565 at the C-terminal tailpiece was incompletely occupied. 29755357 7 11 gly N-glycosylation 1343:1357 arg2 the N-glycosylation site the N-glycosylation site site Furthermore, a hydrophobic cluster analysis revealed that the N-glycosylation site is embedded in a highly hydrophobic evolutionarily conserved surrounding. 31336250 4 25 gly aglycosylated 918:930 arg1 aglycosylated Fc regions aglycosylated Fc regions regions In this work, we constructed a huge library of Fc variants with combinations of 25 beneficial mutations that were previously identified to improve binding of glycosylated or aglycosylated Fc regions to human FcγRs in previous studies. 29920571 0 23 gly glycopeptides 120:132 arg2 N-linked glycopeptides N-linked glycopeptides glycopeptides Hydrophilic tripeptide-functionalized magnetic metal-organic frameworks for the highly efficient enrichment of N-linked glycopeptides. 30991145 2 54 gly glycoprotein 422:433 arg1 an envelope glycoprotein an envelope glycoprotein Fterm glycoprotein The G protein, which harbors the major antigenic determinants of IHNV, is an envelope glycoprotein that plays an important role in both pathogenicity and immunogenicity of IHNV. 31812980 4 0 part_of factor 808:813 arg1 epidermal growth factor precursor homology domains factor epidermal growth factor precursor homology domains Fterm Site factor domains Sequence alignment analysis showed that CiVgR belonged to the superfamily of low-density lipoprotein receptor genes, which contained several conserved domains, including ligand-binding domains, epidermal growth factor precursor homology domains, transmembrane domains, and cytoplasmic domains. 30712568 2 56 gly glycopeptides 389:401 arg2 glycopeptides glycopeptides glycopeptides However, a tedious synthesis and low specificity for glycopeptides have restricted its application. 30327117 8 48 gly peptide 1491:1497 arg1 O-GlcNAc-CREB O-GlcNAc-CREB The accurate detection range of O-GlcNAc was 4.65 × 10-12 to 4.65 × 10-7 M which was obtained by quantifying the amount of a standard O-GlcNAcylated peptide (O-GlcNAc-CREB), and the detection limit is 4.65 × 10-13 M. 30327117 8 48 gly peptide 1491:1497 arg1 a standard O-GlcNAcylated peptide a standard O-GlcNAcylated peptide The accurate detection range of O-GlcNAc was 4.65 × 10-12 to 4.65 × 10-7 M which was obtained by quantifying the amount of a standard O-GlcNAcylated peptide (O-GlcNAc-CREB), and the detection limit is 4.65 × 10-13 M. 32326134 7 25 gly O-glycosylation 1626:1640 arg2 O-glycosylation sites O-glycosylation sites sites This is the first study to characterize O-glycans and identify O-glycosylation sites in BSM. 31563509 6 61 gly glycoprotein 1321:1332 arg1 N-linked glycoprotein biosynthesis N-linked glycoprotein biosynthesis Fterm glycoprotein Herein, we present a multipronged biochemical and biophysical study of PglC, a monotopic phosphoglycosyl transferase that catalyzes the first membrane-committed step in N-linked glycoprotein biosynthesis in Campylobacter jejuni. 30318473 7 26 part_of furin-recognition 985:1001 arg1 the furin-recognition site furin the furin-recognition site PUBTATOR Site furin 5045 site One of these mutations introduces a motif for addition of an N-linked glycan to the furin-recognition site. 29070692 1 63 gly glycoproteins 313:325 arg1 two viral surface glycoproteins two viral surface glycoproteins Fterm glycoproteins Heartland virus (HRTV) is an emerging human pathogen that belongs to the newly defined family Phenuiviridae, order Bunyavirales Gn and Gc are two viral surface glycoproteins encoded by the M segment and are required for early events during infection. 29782851 3 7 part_of C1q 501:503 arg1 a region C1q a region PUBTATOR Site C1q 12259 region Cbln1, 2 and 4 harbor two N-linked glycosylation sites, one at the N-terminus is in a region implicated in Nrxn binding and the second is in the C1q domain, a region involved in Grid2 binding. 29782851 3 7 part_of C1q 501:503 arg1 the C1q domain C1q the C1q domain PUBTATOR Site C1q 12259 domain Cbln1, 2 and 4 harbor two N-linked glycosylation sites, one at the N-terminus is in a region implicated in Nrxn binding and the second is in the C1q domain, a region involved in Grid2 binding. 31727010 1 71 gly glycoproteins 319:331 arg1 glycoproteins glycoproteins Fterm glycoproteins BACKGROUND PMM2-CDG, is the most common N-linked glycosylation disorder and subtype among all CDG syndromes, which are a series of genetic disorders involving the synthesis and attachment of glycoproteins and glycolipid glycans. 30622981 4 14 gly glycosylation 800:812 arg2 two glycosylation sequons two glycosylation sequons Previously, we demonstrated that an ExoA glycoconjugate with two glycosylation sequons was capable of providing significant protection to mice against a challenge with a low-virulence strain of F. tularensis. 27728760 4 0 gly glycoproteins 805:817 arg1 the glycoproteins the glycoproteins Fterm glycoproteins As with the lysate proteomes examined previously, the exosome surface N-glycoproteins are primarily a subset of the glycoproteins on the surface of the suppressor cells that released them, with related functions and related potential as therapeutic targets. 27728760 4 3 gly N-glycoproteins 759:773 arg1 the exosome surface N-glycoproteins the exosome surface N-glycoproteins Fterm N-glycoproteins As with the lysate proteomes examined previously, the exosome surface N-glycoproteins are primarily a subset of the glycoproteins on the surface of the suppressor cells that released them, with related functions and related potential as therapeutic targets. 28302723 11 30 part_of OGT 1993:1995 arg1 the regulatory domain OGT the regulatory domain PUBTATOR Site OGT 8473 domain Thus, a single amino acid substitution in the regulatory domain (the tetratricopeptide repeat domain) of OGT, which catalyzes the O-GlcNAc post-translational modification of nuclear and cytosolic proteins, appears causal for XLID. 35518855 0 56 gly core-fucosylated 24:39 arg1 core-fucosylated glycans core-fucosylated glycans Increased expression of core-fucosylated glycans in human lung squamous cell carcinoma. 31600726 2 31 gly attached 240:247 arg1 the Asn7 and Asn24 residues AND N-linked glycans the Asn7 and Asn24 residues N-linked glycans Asn7 and Asn24 residues N-linked glycans are co-translationally attached to the Asn7 and Asn24 residues on the FSHβ subunit. 30105014 1 57 gly domain 474:479 arg1 its carbohydrate recognition domain (CRD) binding its carbohydrate recognition domain (CRD) binding SP-D can inhibit hemagglutination and infectivity of IAV, in addition to reducing neuraminidase (NA) activity via its carbohydrate recognition domain (CRD) binding to carbohydrate patterns (N-linked mannosylated) on NA and hemagglutinin (HA) of IAV. 30105014 1 85 gly binding 487:493 arg1 hemagglutinin hemagglutinin binding Fterm hemagglutinin SP-D can inhibit hemagglutination and infectivity of IAV, in addition to reducing neuraminidase (NA) activity via its carbohydrate recognition domain (CRD) binding to carbohydrate patterns (N-linked mannosylated) on NA and hemagglutinin (HA) of IAV. 33026663 5 5 gly glycoforms 567:576 arg1 invertase glycoforms invertase glycoforms Fterm invertase A total natural crude mixture of invertase glycoforms (EINV) extracted from Saccharomyces cerevisiae was subfractionated by anion-exchange chromatography on industrial monolithic supports to obtain different glycoforms (EINV1-EINV3). 29030255 9 20 gly residues 1151:1158 arg1 two cysteine residues two cysteine residues cysteine residues Three potential N-linked glycosylation sites and two cysteine residues (Cys-28 and Cys-209) that are likely to form one disulfide bond were present in pufferfish CA VI. 29030255 9 20 gly residues 1151:1158 arg1 Cys-28 Cys-28 and Cys-209 Cys-28 and Cys-209 Three potential N-linked glycosylation sites and two cysteine residues (Cys-28 and Cys-209) that are likely to form one disulfide bond were present in pufferfish CA VI. 29030255 9 113 gly glycosylation 1114:1126 arg1 pufferfish CA VI CA VI sites PUBTATOR CA VI 765 sites Three potential N-linked glycosylation sites and two cysteine residues (Cys-28 and Cys-209) that are likely to form one disulfide bond were present in pufferfish CA VI. 31079966 3 46 gly glycopeptide 678:689 arg2 synthetic glycopeptide synthetic glycopeptide glycopeptide The comparative NMR analysis of synthetic glycopeptide having different length of the O-mannosylated glycans revealed a conformational change of the peptide backbone along with core M1 disaccharide formation. 31079966 3 72 gly O-mannosylated 722:735 arg1 the O-mannosylated glycans the O-mannosylated glycans The comparative NMR analysis of synthetic glycopeptide having different length of the O-mannosylated glycans revealed a conformational change of the peptide backbone along with core M1 disaccharide formation. 34869209 2 56 gly O-glycosites 294:305 arg2 O-glycosites O-glycosites O-glycosites It is also O-glycosylated, although the number of O-glycosites is less defined. 30735356 8 11 part_of mucin-like 1369:1378 arg1 the mucin-like region mucin the mucin-like region PUBTATOR Site mucin 100508689 region This study therefore presents new evidence for a role of the mucin-like region in balancing the interaction of HSV-1 with glycosaminoglycans and provides further insights into the molecular mechanisms used by the virus to ensure both successful cell entry and release from the infected cell. 31333671 9 68 part_of IgE 1022:1024 arg1 IgE sequences IgE IgE sequences PUBTATOR Site IgE P01854 sequences IgE sequences had no clonal relationship with the other isotypes. 33581334 5 34 gly O-glycoprotein 687:700 arg1 the largest O-glycoprotein the largest O-glycoprotein Fterm O-glycoprotein OGP contains 9354 O-glycosylation sites and 11,633 site-specific O-glycans mapping to 2133 O-glycoproteins, and it is the largest O-glycoprotein repository thus far. 33581334 5 44 gly O-glycosylation 575:589 arg2 9354 O-glycosylation sites 9354 O-glycosylation sites sites OGP contains 9354 O-glycosylation sites and 11,633 site-specific O-glycans mapping to 2133 O-glycoproteins, and it is the largest O-glycoprotein repository thus far. 33581334 5 75 gly O-glycoproteins 648:662 arg1 2133 O-glycoproteins 2133 O-glycoproteins Fterm O-glycoproteins OGP contains 9354 O-glycosylation sites and 11,633 site-specific O-glycans mapping to 2133 O-glycoproteins, and it is the largest O-glycoprotein repository thus far. 27388694 1 12 gly glycoproteins 219:231 arg1 N-linked glycoproteins N-linked glycoproteins Fterm glycoproteins PURPOSE The cytosolic enzyme N-glycanase 1, encoded by NGLY1, catalyzes cleavage of the β-aspartyl glycosylamine bond of N-linked glycoproteins, releasing intact N-glycans from proteins bound for degradation. 30036038 8 56 gly glycoproteins 1311:1323 arg1 O-linked glycoproteins O-linked glycoproteins Fterm glycoproteins The strategy is particularly significant for the recognition of O-glycans, because enzymes that can release O-glycans from O-linked glycoproteins are lacking. 31665542 0 33 gly glycosylation 9:21 arg1 an S-layer protein an S-layer protein Fterm protein Enhanced glycosylation of an S-layer protein enables a psychrophilic methanogenic archaeon to adapt to elevated temperatures in abundant substrates. 32965048 5 112 gly N-glycopeptide 1196:1209 arg2 the intact N-glycopeptide level the intact N-glycopeptide level N-glycopeptide METHODS We performed trypsin digestion, Zwitterionic Hydrophilic Interaction chromatography (ZIC-HILIC) enrichment, C18-RPLC/nano-ESI-MS/MS using HCD with stepped normalized collisional energies, and GPSeeker database search for a comprehensive site- and structure-specific N-glycoproteomics characterization of the human urinary N-glycoproteome at the intact N-glycopeptide level. 34106099 7 69 gly sialylated 1130:1139 arg1 intact sialylated N-linked glycopeptides intact sialylated N-linked glycopeptides glycopeptides Characterization of intact sialylated N-linked glycopeptides enriched by titanium dioxide chromatography revealed more than 85% selectivity of sialylated species and the presence of NeuGc on active zone proteins. 34106099 7 74 gly glycopeptides 1150:1162 arg2 intact sialylated N-linked glycopeptides intact sialylated N-linked glycopeptides glycopeptides Characterization of intact sialylated N-linked glycopeptides enriched by titanium dioxide chromatography revealed more than 85% selectivity of sialylated species and the presence of NeuGc on active zone proteins. 34106099 7 81 gly presence 1273:1280 arg1 active zone proteins AND NeuGc active zone proteins NeuGc Fterm proteins Characterization of intact sialylated N-linked glycopeptides enriched by titanium dioxide chromatography revealed more than 85% selectivity of sialylated species and the presence of NeuGc on active zone proteins. 29597345 7 20 gly Domain 1433:1438 arg1 the EGF Domain Specific O-Linked N-Acetylglucosamine the EGF Domain Specific O-Linked N-Acetylglucosamine We provided evidence that residential PM10 exposure in early life affects methylation of the CpG cg21785536 located on the EGF Domain Specific O-Linked N-Acetylglucosamine Transferase gene. 31129958 4 25 gly glycopeptide 674:685 arg2 an on-demand decoy glycopeptide generator an on-demand decoy glycopeptide generator glycopeptide To address this need, we have designed DecoyDeveloper, an on-demand decoy glycopeptide generator that can produce a high volume of decoys with low mass differences. 29936833 3 9 part_of sites 549:553 arg1 proteins proteins sites Fterm Site proteins sites Recent advances in mass spectrometry (MS) and bioconjugation methods are now enabling the mapping of O-GlcNAcylation events to individual sites in proteins. 34813786 6 35 part_of enzyme 1101:1106 arg1 the counterpart residues enzyme the counterpart residues Fterm Site enzyme residues The putative active sites of cST3Gal-I for putative acid/base catalysts and sialic acid acceptor/donor substrate bindings were also identical to the counterpart residues of a mammalian enzyme, porcine ST3Gal-I, as predicted through homologous structure modeling. 30962950 3 24 gly glycoproteins 542:554 arg1 candidate glycoproteins candidate glycoproteins Fterm glycoproteins The prognostic significance of candidate glycoproteins was then validated in 193 HCC tissues using immunohistochemical staining. 30262754 7 42 gly O-glycosylation 1511:1525 arg1 proteins proteins Fterm proteins Therefore, GalNAc-T3 expression seems related to the quality of the spermatozoa, and we propose that reduced expression of GalNAc-T3 may lead to impaired O-glycosylation of proteins and thereby abnormal maturation and reduced functionality of the spermatozoa. 30158294 8 95 gly N-glycosylation 1108:1122 arg1 SERINC5 SERINC5 site PUBTATOR SERINC5 256987 site Our results demonstrate that N294 is the major site of N-glycosylation in SERINC5. 30158294 8 95 gly N-glycosylation 1108:1122 arg1 SERINC5 SERINC5 N294 PUBTATOR SERINC5 256987 N294 Our results demonstrate that N294 is the major site of N-glycosylation in SERINC5. 33806155 5 75 gly O-glycosites 907:918 arg2 25 O-glycosites 25 O-glycosites O-glycosites In total 25 O-glycosites were identified, with similar patterns in the two ectodomains of different cell origin, and a distinct pattern of the monomeric RBD. 34523671 2 87 gly glycosylation 546:558 arg2 the site the site site Substrate preference across different isoforms of this enzyme is influenced by isoform-specific amino acid sequences at the site of glycosylation, which we have exploited to engineer production of Core 1 glycan structures in bacteria on human therapeutic proteins. 28067406 9 40 gly N-glycosylation 1562:1576 arg2 an N-glycosylation motif an N-glycosylation motif motif In silico analysis revealed that Ninj1 is highly conserved in vertebrates and that the conserved sequence contains an N-glycosylation motif and cis-interacting intracellular region, which participate in Ninj1 homomer assembly. 28302723 8 36 part_of OGA 1419:1421 arg1 the proximal promoter region OGA the proximal promoter region PUBTATOR Site OGA 10724 region We observed an enrichment of the OGT-containing transcriptional repressor complex mSin3A-HDAC1 at the proximal promoter region of OGA and correspondingly decreased OGA promoter activity in affected cells. 34864596 1 28 gly glycoprotein 122:133 arg1 a glycoprotein based biotherapeutics a glycoprotein based biotherapeutics Fterm glycoprotein Omalizumab, a glycoprotein based biotherapeutics, is one of the most frequently used targeted antibody biopharmaceutical to reduce asthma exacerbations, improve lung function and reduce oral corticosteroid use. 33045166 0 28 part_of E-Cadherin 40:49 arg1 Homogeneous Human E-Cadherin N-Linked Glycopeptides E-Cadherin Homogeneous Human E-Cadherin N-Linked Glycopeptides PUBTATOR Site E-Cadherin 999 Glycopeptides Chemical Synthesis of Homogeneous Human E-Cadherin N-Linked Glycopeptides: Stereoselective Convergent Glycosylation and Chemoselective Solid-Phase Aspartylation. 30029404 2 13 gly glycopeptides 479:491 arg2 glycopeptides glycopeptides glycopeptides Based on the trap columns, a novel on-column enrichment method toward glycopeptides was developed as a sample pretreatment step prior to matrix-assisted laser desorption/ionization time of flight mass spectrometry (MALDI-TOF MS) or nano-LC-MS/MS analysis. 31516090 7 41 gly positions 891:899 arg1 positions s116, s123, s130, and s131 + s133 positions s116, s123, s130, and s131 + s133 positions The first group included mutations creating new N-linked glycosylation sites at positions s116, s123, s130, and s131 + s133 or removing the existing one at s146. 31516090 7 56 gly glycosylation 868:880 arg2 new N-linked glycosylation sites new N-linked glycosylation sites sites The first group included mutations creating new N-linked glycosylation sites at positions s116, s123, s130, and s131 + s133 or removing the existing one at s146. 29093093 10 93 gly glycoproteins 2388:2400 arg1 most other characterized coronavirus S glycoproteins most other characterized coronavirus S glycoproteins Fterm glycoproteins PDCoV S is largely protease resistant, which distinguishes it from most other characterized coronavirus S glycoproteins and suggests that enteric coronaviruses have evolved to fine-tune fusion activation in the protease-rich environment of the small intestine of infected hosts. 32452486 2 44 gly glycans 245:251 arg1 proteins proteins glycans Fterm proteins Therefore rapid and sensitive differentiation of glycans on proteins is highly desirable. 27666939 4 16 gly afucosylated 622:633 arg1 fully afucosylated glycans fully afucosylated glycans A commonly used and efficient approach has been knocking out the FUT8 gene of the Chinese hamster ovary (CHO) host cells, which results in expression of antibody molecules with fully afucosylated glycans. 31879931 7 59 gly glycopeptide 1256:1267 arg2 two HIV-1 V3 glycopeptide antigens two HIV-1 V3 glycopeptide antigens glycopeptide In this chapter, we provide detailed procedures of this chemoenzymatic method by demonstrating the synthesis of two HIV-1 V3 glycopeptide antigens carrying a high-mannose-type and a complex-type N-glycan, respectively. 30514763 3 60 gly glycosylated 593:604 arg1 highly glycosylated thrombospondin repeat (TSR) domains highly glycosylated thrombospondin repeat (TSR) domains Here we demonstrate that micronemal protein 2 (MIC2), a motility-associated adhesin of T. gondii, has highly glycosylated thrombospondin repeat (TSR) domains. 30514763 3 23 gly has 582:584 arg1 micronemal protein 2 AND highly glycosylated thrombospondin repeat (TSR) domains micronemal protein 2 highly glycosylated thrombospondin repeat (TSR) domains Fterm protein 2 Here we demonstrate that micronemal protein 2 (MIC2), a motility-associated adhesin of T. gondii, has highly glycosylated thrombospondin repeat (TSR) domains. 30514763 3 23 gly has 582:584 arg1 a motility-associated adhesin AND highly glycosylated thrombospondin repeat (TSR) domains a motility-associated adhesin highly glycosylated thrombospondin repeat (TSR) domains Fterm adhesin Here we demonstrate that micronemal protein 2 (MIC2), a motility-associated adhesin of T. gondii, has highly glycosylated thrombospondin repeat (TSR) domains. 34551980 4 32 gly neoglycoproteins 913:928 arg1 The resulting neoglycoproteins The resulting neoglycoproteins Fterm neoglycoproteins The resulting neoglycoproteins can be readily subjected to available high-throughput assays, making it possible to systematically investigate the structural and functional consequences of glycan conjugation along a protein backbone. 29337188 6 15 gly glycoprotein 1163:1174 arg1 N-linked glycoprotein (SIBLING) family N-linked glycoprotein (SIBLING) family Fterm glycoprotein Fam20c deficiency also significantly reduced the expression of Osterix, Runx2, type I Collagen a 1 (Col1a1), Alkaline phosphatase (Alpl) and the members of the small integrin-binding ligand, N-linked glycoprotein (SIBLING) family, but increased Fgf23 expression. 27690717 6 9 gly heterogeneity 1305:1317 arg1 BK channels BK channels Fterm channels Our results suggest that N-glycosylation of β2 subunits plays crucial roles in imparting functional heterogeneity of BK channels, and is potentially involved in the pathological phenotypes of carbohydrate metabolic diseases. 34864596 2 39 gly glycoprotein 368:379 arg1 such glycoprotein drugs such glycoprotein drugs Fterm glycoprotein The effector function and clearance time of such glycoprotein drugs is affected by their N-glycosylation, that defines the required administration frequency to improve the quality of life in appropriately selected patients. 31059811 6 69 gly glycosylation 911:923 arg2 12 potential N-linked glycosylation sites 12 potential N-linked glycosylation sites sites In addition, 12 potential N-linked glycosylation sites were present in the ectodomain to influence protein trafficking, surface presentation and ligand recognition. 31059811 6 69 gly glycosylation 911:923 arg1 the ectodomain to influence protein trafficking, surface presentation and ligand recognition the ectodomain to influence protein trafficking, surface presentation and ligand recognition ectodomain In addition, 12 potential N-linked glycosylation sites were present in the ectodomain to influence protein trafficking, surface presentation and ligand recognition. 34229070 6 9 part_of APP 965:967 arg1 three glycopeptides APP three glycopeptides OGER Site APP P05067 glycopeptides RESULTS A total of 14 O-glycosites were identified on three glycopeptides of APP, and at least four O-glycans including GalNAc (Tn antigen), core 1, and mono-/di-sialylated core 1 glycans were determinant at the residues of Thr576 and Thr577. 32269229 4 7 gly N-glycosites 931:942 arg2 N-glycosites N-glycosites N-glycosites We then investigated the basis of mutual exclusivity between disorder and N-glycosites on the basis of amino acid distribution: when compared with control ordered residue stretches without any N-glycosites, residue neighborhoods surrounding N-glycosites showed a depletion of bulky, hydrophobic and disorder-promoting amino acids and an enrichment for flexible and accessible residues that are frequently found in coiled structures. 32269229 4 48 gly N-glycosites 883:894 arg2 any N-glycosites any N-glycosites N-glycosites We then investigated the basis of mutual exclusivity between disorder and N-glycosites on the basis of amino acid distribution: when compared with control ordered residue stretches without any N-glycosites, residue neighborhoods surrounding N-glycosites showed a depletion of bulky, hydrophobic and disorder-promoting amino acids and an enrichment for flexible and accessible residues that are frequently found in coiled structures. 32269229 4 59 gly N-glycosites 764:775 arg2 N-glycosites N-glycosites N-glycosites We then investigated the basis of mutual exclusivity between disorder and N-glycosites on the basis of amino acid distribution: when compared with control ordered residue stretches without any N-glycosites, residue neighborhoods surrounding N-glycosites showed a depletion of bulky, hydrophobic and disorder-promoting amino acids and an enrichment for flexible and accessible residues that are frequently found in coiled structures. 31067000 4 54 gly presence 630:637 arg2 IgG ACPA V domains AND glycans IgG ACPA V domains glycans domains As ample evidence indicates that T cells drive the maturation of the ACPA response prior to arthritis onset, we undertook this study to investigate whether the presence of glycans in IgG ACPA V domains predicts the transition from predisease autoimmunity to overt RA. 29609090 0 61 gly glycopeptides 67:79 arg1 relaxed nucleotide-activated sugar donor selectivity glycopeptides relaxed nucleotide-activated sugar donor selectivity glycopeptides N-Glycosyltransferase from Aggregatibacter aphrophilus synthesizes glycopeptides with relaxed nucleotide-activated sugar donor selectivity. 30130254 8 38 gly modification 1129:1140 arg1 intracellular proteins proteins modification Fterm proteins To explore the mechanism, we investigated protein glycosylation downstream of HBP and found elevated levels of O-linked β-N-acetylglucosamine (O-GlcNAcylation) posttranslational modification on intracellular proteins. 31275257 9 26 gly sialylated 1400:1409 arg1 several mucin motifs several mucin motifs motifs In total, the structural modification of several mucin motifs, sialylated mucin ones in particular, was evidenced for nine clones. 33525794 0 52 gly glycoprotein 25:36 arg1 glycoprotein biosynthesis glycoprotein biosynthesis Fterm glycoprotein Metabolic engineering of glycoprotein biosynthesis in bacteria. 30991145 8 11 gly glycosylation 2145:2157 arg1 asparagine 438 asparagine 438 asparagine 438 This mutant also elicited specific anti-IHNV IgM production earlier than other mutants, suggesting that glycosylation of asparagine 438 may be important for viral immune escape. 28368034 3 15 part_of mAb 451:453 arg1 variable regions mAb variable regions Cterm Site mAb regions We previously established a recombinant monoclonal antibody (mAb) consisting of variable regions from a mouse IgG mAb specific for the binding subunit of Shiga toxin 1 (Stx1) and the Fc region of mouse IgA. 28368034 3 52 part_of IgA 539:541 arg1 the Fc region IgA the Fc region PUBTATOR Site IgA P11912 region We previously established a recombinant monoclonal antibody (mAb) consisting of variable regions from a mouse IgG mAb specific for the binding subunit of Shiga toxin 1 (Stx1) and the Fc region of mouse IgA. 30178920 2 26 gly glycopeptides 640:652 arg2 glycopeptides glycopeptides glycopeptides The polymer monolithic material is used for glycopeptides enrichment coupled with MALDI-TOF MS. By taking advantage of cobalt phthalocyanine including hydrogen bonds between isoindole subunits of phthalocyanine and glycans, coordination interaction between cobalt and glycopeptides, the monolithic material is successfully applied to the enrichment of glycopeptides efficiently and selectively. 30178920 2 36 gly glycopeptides 556:568 arg2 glycopeptides glycopeptides glycopeptides The polymer monolithic material is used for glycopeptides enrichment coupled with MALDI-TOF MS. By taking advantage of cobalt phthalocyanine including hydrogen bonds between isoindole subunits of phthalocyanine and glycans, coordination interaction between cobalt and glycopeptides, the monolithic material is successfully applied to the enrichment of glycopeptides efficiently and selectively. 30178920 2 42 gly glycopeptides 332:344 arg2 glycopeptides enrichment glycopeptides enrichment glycopeptides The polymer monolithic material is used for glycopeptides enrichment coupled with MALDI-TOF MS. By taking advantage of cobalt phthalocyanine including hydrogen bonds between isoindole subunits of phthalocyanine and glycans, coordination interaction between cobalt and glycopeptides, the monolithic material is successfully applied to the enrichment of glycopeptides efficiently and selectively. 29717387 4 6 gly glycosylation 466:478 arg2 two N-linked glycosylation sites two N-linked glycosylation sites sites In this study, the N-glycosylation of PPARγ, as well as two N-linked glycosylation sites in its DNA binding domain (DBD), was identified. 29717387 4 7 gly N-glycosylation 416:430 arg1 two N-linked glycosylation sites PPAR sites PUBTATOR PPAR 5468 sites In this study, the N-glycosylation of PPARγ, as well as two N-linked glycosylation sites in its DNA binding domain (DBD), was identified. 29717387 4 16 gly N-glycosylation 416:430 arg1 its DNA binding domain PPAR domain PUBTATOR PPAR 5468 domain In this study, the N-glycosylation of PPARγ, as well as two N-linked glycosylation sites in its DNA binding domain (DBD), was identified. 30069741 3 1 gly proteins 531:538 arg1 authentic or at least compatible glycan structures proteins authentic or at least compatible glycan structures Fterm proteins The glyco-engineering of plant-based expression systems began as a strategy to eliminate plant-like glycans and produce human proteins with authentic or at least compatible glycan structures. 31336133 6 36 part_of contains 930:937 arg1 IFNwt AND a single O-glycosylation site IFNwt a single O-glycosylation site Cterm Site IFNwt 3440 site The aim of the present study was to compare the influence of ANITVNITV peptide fusion on the physicochemical, biological and pharmacokinetic properties of native hIFN-α2b (IFNwt), which contains a single O-glycosylation site, and a hyperglycosylated variant (IFN4N), that bears, in addition, 4 N-linked glycans. 31336133 6 36 part_of contains 930:937 arg1 native hIFN-α2b AND a single O-glycosylation site native hIFN-α2b a single O-glycosylation site PUBTATOR Site hIFN-α2b 3440 site The aim of the present study was to compare the influence of ANITVNITV peptide fusion on the physicochemical, biological and pharmacokinetic properties of native hIFN-α2b (IFNwt), which contains a single O-glycosylation site, and a hyperglycosylated variant (IFN4N), that bears, in addition, 4 N-linked glycans. 31266804 9 84 part_of TRPC6 1744:1748 arg1 the two TRPC6 N-glycosylation sites TRPC6 the two TRPC6 N-glycosylation sites PUBTATOR Site TRPC6 7225 sites However, mutating the two TRPC6 N-glycosylation sites abrogated the cytotoxicity of mutant TRPC6 and reduced its surface expression. 31256377 8 45 gly semiquantitative 1293:1308 arg1 site-specific site-specific site-specific In this chapter, we describe quantitative analysis of collagen glycosylation by high-performance liquid chromatography (HPLC) and semiquantitative, site-specific analysis by HPLC-tandem mass spectrometry. 30735356 1 38 part_of Mucin-like 99:108 arg1 Mucin-like regions Mucin Mucin-like regions PUBTATOR Site Mucin 100508689 regions Mucin-like regions, characterized by a local high density of O-linked glycosylation, are found on the viral envelope glycoproteins of many viruses. 30735356 1 62 part_of found 188:192 arg1 the viral envelope glycoproteins AND Mucin-like regions the viral envelope glycoproteins Mucin-like regions Fterm Site glycoproteins regions Mucin-like regions, characterized by a local high density of O-linked glycosylation, are found on the viral envelope glycoproteins of many viruses. 30850477 6 47 gly N-glycosylation 675:689 arg2 N-glycosylation sites N-glycosylation sites sites We analyzed the distribution and acquisition of N-glycosylation sites within Ab V regions of peripheral blood and bone marrow B cells of 12 healthy individuals, eight myasthenia gravis patients, and six systemic lupus erythematosus patients, obtained by next-generation sequencing. 30814666 5 53 gly glycosylated 701:712 arg1 glycosylated proteins glycosylated proteins Fterm proteins This data set represents the highest number of glycosylated proteins identified in Mtb to date. 31696430 5 67 part_of possesses 895:903 arg1 The cloned sequence AND two cysteine residues The cloned sequence two cysteine residues cysteine residues The cloned sequence possesses two cysteine residues (Cys-115 and Cys-193), which are likely to form a disulfide bond. 31696430 5 67 part_of possesses 895:903 arg1 The cloned sequence AND Cys-115 Cys-115 and Cys-193 Cys-115 and Cys-193 The cloned sequence possesses two cysteine residues (Cys-115 and Cys-193), which are likely to form a disulfide bond. 30697857 0 29 gly N-glycoproteins 0:14 arg1 N-glycoproteins N-glycoproteins Fterm N-glycoproteins N-glycoproteins exhibit a positive expression level-evolutionary rate correlation. 29513221 5 32 gly glycosylation 942:954 arg2 specific vimentin glycosylation sites specific vimentin glycosylation sites sites In addition, we show that the intracellular pathogen Chlamydia trachomatis, which remodels the host IF cytoskeleton during infection, requires specific vimentin glycosylation sites and O-GlcNAc transferase activity to maintain its replicative niche. 29983388 2 5 gly proteins 513:520 arg1 N-linked glycans proteins N-linked glycans Fterm proteins We have found an unexplored mechanism, by which basic fibroblast growth factor (FGF2) induces expression of fucosyltransferase 8 (FUT8) to increase core fucosylations of N-linked glycans of membrane-associated proteins, including several integrin subunits. 29983388 2 15 gly fucosylations 456:468 arg1 N-linked glycans N-linked glycans We have found an unexplored mechanism, by which basic fibroblast growth factor (FGF2) induces expression of fucosyltransferase 8 (FUT8) to increase core fucosylations of N-linked glycans of membrane-associated proteins, including several integrin subunits. 34855283 4 49 gly glycoproteins 728:740 arg1 894 glycoproteins 894 glycoproteins Fterm glycoproteins By using our newly developed glycoproteomic methods and novel algorithm, termed 'StrucGP', a total of 486 N-glycan structures attached on 1235 glycosites were identified from 894 glycoproteins in ICC and HCC tumors. 34855283 4 54 gly attached 675:682 arg2 486 N-glycan structures AND 1235 glycosites 1235 glycosites 486 N-glycan structures glycosites By using our newly developed glycoproteomic methods and novel algorithm, termed 'StrucGP', a total of 486 N-glycan structures attached on 1235 glycosites were identified from 894 glycoproteins in ICC and HCC tumors. 34855283 4 59 gly glycosites 692:701 arg2 1235 glycosites 1235 glycosites glycosites By using our newly developed glycoproteomic methods and novel algorithm, termed 'StrucGP', a total of 486 N-glycan structures attached on 1235 glycosites were identified from 894 glycoproteins in ICC and HCC tumors. 31604106 2 124 part_of contains 320:327 arg1 The β subunit AND four O-glycosylation sites The β subunit four O-glycosylation sites Fterm Site subunit sites The β subunit contains four O-glycosylation sites. 34885895 3 17 gly glycosylation 443:455 arg2 the glycosylation site the glycosylation site site Most of the existing predictors for N-linked glycosylation utilize the information that the glycosylation site occurs at the N-X-[S/T] sequon, where X is any amino acid except proline. 29577901 7 4 gly peptide 1195:1201 arg1 the intervening region the intervening region the intervening region Site region Moreover, we map two new O-GlcNAc sites in the longest OGT isoform (ncOGT): S437 in the tetratricopeptide repeat (TPR) 13 domain and T1043 in the far C-terminus, and a new O-GlcNAc modified peptide (amino acids 826-832) in the intervening region (Int-D) within the catalytic domain. 29577901 7 70 gly sites 1039:1043 arg1 the intervening region the intervening region the intervening region Site region Moreover, we map two new O-GlcNAc sites in the longest OGT isoform (ncOGT): S437 in the tetratricopeptide repeat (TPR) 13 domain and T1043 in the far C-terminus, and a new O-GlcNAc modified peptide (amino acids 826-832) in the intervening region (Int-D) within the catalytic domain. 33404348 3 43 gly glycoprotein 552:563 arg1 glycoprotein biomarkers glycoprotein biomarkers Fterm glycoprotein In the past, cancer studies heavily relied on genomics and transcriptomics with relatively little exploration of the glycan alterations and glycoprotein biomarkers among individuals and populations. 32535395 12 51 gly glycoprotein 1799:1810 arg1 glycoprotein production glycoprotein production Fterm glycoprotein The data strongly suggests that glycoprotein production by luminal epithelial cells is influenced by the presence of a conceptus. 32890705 2 74 gly branch 303:308 arg1 specific proteins proteins branch Fterm proteins N-Glycans have a different number of N-acetylglucosamine (GlcNAc) branches in a protein-selective manner, and the β1,6-linked GlcNAc branch on specific proteins produced by N-acetylglucosaminyltransferase-V (GnT-V or MGAT5) promotes cancer malignancy. 34857845 4 67 gly fucosylated 581:591 arg1 core fucosylated N-glycopeptides core fucosylated N-glycopeptides N-glycopeptides Mass spectrometry efficiently identifies structures of fucosylated glycans or sites of core fucosylated N-glycopeptides but quantification of the glycopeptides remains less explored. 34857845 4 69 gly fucosylated 544:554 arg1 fucosylated glycans fucosylated glycans Mass spectrometry efficiently identifies structures of fucosylated glycans or sites of core fucosylated N-glycopeptides but quantification of the glycopeptides remains less explored. 34857845 4 74 gly glycopeptides 635:647 arg2 the glycopeptides the glycopeptides glycopeptides Mass spectrometry efficiently identifies structures of fucosylated glycans or sites of core fucosylated N-glycopeptides but quantification of the glycopeptides remains less explored. 34857845 4 44 gly N-glycopeptides 593:607 arg1 fucosylated glycans N-glycopeptides fucosylated glycans N-glycopeptides Mass spectrometry efficiently identifies structures of fucosylated glycans or sites of core fucosylated N-glycopeptides but quantification of the glycopeptides remains less explored. 30834446 6 40 gly glycoprotein 1059:1070 arg1 a glycoprotein a glycoprotein Fterm glycoprotein Like other rhabdoviruses, IHNV is characterized by an envelope consisting of trimers of a glycoprotein that display multiple N-linked oligosaccharides and play an integral role in viral infection by mediating the virus attachment and fusion. 36303733 6 26 gly enzymes 1129:1135 arg1 involved-Man-Ia enzymes involved-Man-Ia Fterm enzymes Of the 26 enzymes, the following were involved-Man-Ia, MGAT1, MGAT2, MGAT4, MGAT5, B3GalT, B4GalT, Man-II, SiaT, ST3GalI, ST3GalVI, and FucT8. 36303733 6 26 gly enzymes 1129:1135 arg1 FucT8 enzymes FucT8 Fterm enzymes Of the 26 enzymes, the following were involved-Man-Ia, MGAT1, MGAT2, MGAT4, MGAT5, B3GalT, B4GalT, Man-II, SiaT, ST3GalI, ST3GalVI, and FucT8. 28348171 11 41 gly glycoproteins 1919:1931 arg1 surface glycoproteins surface glycoproteins Fterm glycoproteins These findings highlight the presence of macrophage infiltration in human mCRPC but also surface glycoproteins that could be used for prognosis of localized disease and for targeting strategies. 31406333 3 0 gly glycosylation 688:700 arg2 an N-linked glycosylation site an N-linked glycosylation site site This antigenic drift was mainly caused by amino acid mutations at NA residues 245, 247 (S245N/S247T; introducing an N-linked glycosylation site at residue 245) and 468. 34551980 8 61 gly glycoprotein 1901:1912 arg1 glycoprotein structural space glycoprotein structural space Fterm glycoprotein Importantly, we anticipate that our glycomutagenesis workflow should provide access to unexplored regions of glycoprotein structural space and to custom-made neoglycoproteins with desirable properties. 34551980 8 81 gly neoglycoproteins 1950:1965 arg1 custom-made neoglycoproteins custom-made neoglycoproteins Fterm neoglycoproteins Importantly, we anticipate that our glycomutagenesis workflow should provide access to unexplored regions of glycoprotein structural space and to custom-made neoglycoproteins with desirable properties. 30718403 10 21 part_of CD4 1541:1543 arg1 the D1 domain CD4 the D1 domain OGER Site CD4 P01730 domain These results indicate that substitutions in the D1 domain of the chimpanzee CD4 can prevent SIV cell entry. 30250045 8 20 part_of contained 1149:1157 arg1 the SKM9-2 epitope AND Ser893 serine residues, Ser893 and Ser900 two disialylated core 1 O-linked glycan-modified serine residues serine residues, Ser893 and Ser900 Mass spectrometry analysis and lectin binding analysis of soluble epitope peptides indicated that the SKM9-2 epitope, in which Ser897 was not glycosylated, contained two disialylated core 1 O-linked glycan-modified serine residues, Ser893 and Ser900. 30889014 0 115 gly glycosylation 52:64 arg2 potential N-linked glycosylation sites potential N-linked glycosylation sites sites Critical amino acid residues and potential N-linked glycosylation sites contribute to circulating recombinant form 01_AE pathogenesis in Northeast China. 33577335 2 58 gly glycoforms 369:378 arg1 the protein glycoforms the protein glycoforms Fterm protein However, deciphering the functions of N-glycosylation remains a challenge due to the lack of analytical and biochemical methods to accurately differentiate the protein glycoforms with various intact glycans. 34857845 5 3 gly derived 1008:1014 arg1 18 serum proteins AND their nonfucosylated glycoforms 18 serum proteins their nonfucosylated glycoforms Fterm proteins We performed experiments that facilitate quantitative analysis of the core fucosylation of proteins with partial structural resolution of the glycans and we present results of the mass spectrometric SWATH-type DIA analysis of relative abundances of the core fucosylated glycoforms of 45 glycopeptides to their nonfucosylated glycoforms derived from 18 serum proteins in liver disease of different etiologies. 34857845 5 60 gly proteins 763:770 arg1 the core fucosylation proteins the core fucosylation Fterm proteins We performed experiments that facilitate quantitative analysis of the core fucosylation of proteins with partial structural resolution of the glycans and we present results of the mass spectrometric SWATH-type DIA analysis of relative abundances of the core fucosylated glycoforms of 45 glycopeptides to their nonfucosylated glycoforms derived from 18 serum proteins in liver disease of different etiologies. 34857845 5 62 gly nonfucosylated 982:995 arg1 their nonfucosylated glycoforms their nonfucosylated glycoforms We performed experiments that facilitate quantitative analysis of the core fucosylation of proteins with partial structural resolution of the glycans and we present results of the mass spectrometric SWATH-type DIA analysis of relative abundances of the core fucosylated glycoforms of 45 glycopeptides to their nonfucosylated glycoforms derived from 18 serum proteins in liver disease of different etiologies. 34857845 5 66 gly fucosylation 747:758 arg1 proteins proteins Fterm proteins We performed experiments that facilitate quantitative analysis of the core fucosylation of proteins with partial structural resolution of the glycans and we present results of the mass spectrometric SWATH-type DIA analysis of relative abundances of the core fucosylated glycoforms of 45 glycopeptides to their nonfucosylated glycoforms derived from 18 serum proteins in liver disease of different etiologies. 34857845 5 12 gly glycopeptides 959:971 arg1 the core fucosylated glycoforms glycopeptides the core fucosylated glycoforms glycopeptides We performed experiments that facilitate quantitative analysis of the core fucosylation of proteins with partial structural resolution of the glycans and we present results of the mass spectrometric SWATH-type DIA analysis of relative abundances of the core fucosylated glycoforms of 45 glycopeptides to their nonfucosylated glycoforms derived from 18 serum proteins in liver disease of different etiologies. 34857845 5 45 gly fucosylated 930:940 arg1 45 glycopeptides glycopeptides the core fucosylated glycoforms glycopeptides We performed experiments that facilitate quantitative analysis of the core fucosylation of proteins with partial structural resolution of the glycans and we present results of the mass spectrometric SWATH-type DIA analysis of relative abundances of the core fucosylated glycoforms of 45 glycopeptides to their nonfucosylated glycoforms derived from 18 serum proteins in liver disease of different etiologies. 34857845 5 65 gly glycoforms 942:951 arg1 the core fucosylated glycoforms glycopeptides the core fucosylated glycoforms glycopeptides We performed experiments that facilitate quantitative analysis of the core fucosylation of proteins with partial structural resolution of the glycans and we present results of the mass spectrometric SWATH-type DIA analysis of relative abundances of the core fucosylated glycoforms of 45 glycopeptides to their nonfucosylated glycoforms derived from 18 serum proteins in liver disease of different etiologies. 28747680 2 28 part_of EphA4 416:420 arg1 the EphA4 ectodomain EphA4 the EphA4 ectodomain PUBTATOR Site EphA4 13838 ectodomain We have shown previously that a soluble fusion protein, where the EphA4 ectodomain was fused to IgG Fc (EphA4 Fc), was an effective therapy in acute injuries and demonstrated that EphA4 Fc was a broad spectrum Eph/ephrin antagonist. 29753740 6 16 gly N-glycoproteins 966:980 arg1 total N-glycoproteins total N-glycoproteins Fterm N-glycoproteins Unexpectedly, we found a reduction of total N-glycoproteins and phosphorylation of GFAT1 by AMP-activated protein kinase (AMPK). 28679762 5 24 gly glycoprotein 1003:1014 arg1 this glycoprotein this glycoprotein Fterm glycoprotein By establishing a purification procedure, performing further protein separation by two-dimensional electrophoresis, and utilizing mass spectrometry, we now show that this glycoprotein is identical to AAVR. 33560857 1 12 gly N-glycosylation 164:178 arg2 28 potential N-glycosylation sites 28 potential N-glycosylation sites sites With 28 potential N-glycosylation sites, human carcinoembryonic antigen (CEA) bears an extreme amount of N-linked glycosylation, and approximately 60% of its molecular mass can be attributed to its carbohydrates. 29875238 5 18 gly glycoprotein 712:723 arg1 LASV glycoprotein LASV glycoprotein Fterm glycoprotein Here, we demonstrate that another PtdSer receptor, TIM-1, mediates LASV glycoprotein (GP)-pseudotyped virion entry into αDG-knocked-out HEK 293T and wild-type (WT) Vero cells, which express αDG lacking appropriate glycosylation. 30069741 2 34 gly carry 279:283 arg1 human therapeutic proteins AND plant-like rather than human-like glycans human therapeutic proteins plant-like rather than human-like glycans Fterm proteins Therefore, human therapeutic proteins produced in plants often carry plant-like rather than human-like glycans, which can affect protein stability, biological function, and immunogenicity. 31604106 2 144 gly O-glycosylation 334:348 arg2 four O-glycosylation sites four O-glycosylation sites sites The β subunit contains four O-glycosylation sites. 30552185 1 58 gly glycoproteins 259:271 arg1 host-derived glycoproteins host-derived glycoproteins Fterm glycoproteins The asaccharolytic anaerobe Porphyromonas gingivalis metabolizes proteins it encounters in the periodontal pocket, including host-derived glycoproteins such as mucins and immunoglobulins. 31164895 0 27 gly Fucosylation 86:97 arg1 Glycoproteins Glycoproteins Fterm Glycoproteins Characterization of a GDP-Fucose Transporter and a Fucosyltransferase Involved in the Fucosylation of Glycoproteins in the Diatom Phaeodactylum tricornutum. 31164895 0 75 gly Glycoproteins 102:114 arg1 the Fucosylation Glycoproteins the Fucosylation Fterm Glycoproteins Characterization of a GDP-Fucose Transporter and a Fucosyltransferase Involved in the Fucosylation of Glycoproteins in the Diatom Phaeodactylum tricornutum. 30318473 6 37 part_of LPL 831:833 arg1 the LPL sequence LPL the LPL sequence PUBTATOR Site LPL 4023 sequence We demonstrate that the yield of purified LPL can be dramatically enhanced by coexpressing its maturation factor, LMF1, and by introducing novel mutations into the LPL sequence to render it resistant to proteolytic cleavage by furin. 31186110 6 86 gly Heterogeneity 941:953 arg1 hypermannosylation hypermannosylation Heterogeneity of glycosylation and hypermannosylation in the wild-type strains of Pichia pastoris was circumvented by employing glycoengineered strain (SuperMan5) to produce glycosylated IFN α2b with human type N-glycans. 32719555 5 36 gly glycoprotein 1023:1034 arg1 the orthogonal glycoprotein biosynthesis pathways the orthogonal glycoprotein biosynthesis pathways Fterm glycoprotein We anticipate that the orthogonal glycoprotein biosynthesis pathways developed here will provide facile access to structurally diverse O-glycoforms for a range of important scientific and therapeutic applications. 30309696 1 5 gly phosphoglycoproteins 197:216 arg1 phosphoglycoproteins phosphoglycoproteins Fterm phosphoglycoproteins Dentin sialophosphoprotein (DSPP) is a member of the SIBLING (Small integrin-binding ligand N-linked glycoproteins) family of phosphoglycoproteins and has been proved to contribute to the migration of a variety of solid tumor cells. 30309696 1 15 gly glycoproteins 172:184 arg1 Small integrin-binding ligand N-linked glycoproteins Small integrin-binding ligand N-linked glycoproteins Fterm glycoproteins Dentin sialophosphoprotein (DSPP) is a member of the SIBLING (Small integrin-binding ligand N-linked glycoproteins) family of phosphoglycoproteins and has been proved to contribute to the migration of a variety of solid tumor cells. 34532545 5 10 gly proteins 1012:1019 arg1 the O-GlcNAcylation level proteins the O-GlcNAcylation level Fterm proteins This WGA-layer thereby separates O-GlcNAcylated and non-modified forms of proteins, allowing the detection and quantification of the O-GlcNAcylation level of these proteins. 34532545 5 38 gly proteins 922:929 arg1 O-GlcNAcylated and non-modified forms proteins O-GlcNAcylated and non-modified forms Fterm proteins This WGA-layer thereby separates O-GlcNAcylated and non-modified forms of proteins, allowing the detection and quantification of the O-GlcNAcylation level of these proteins. 34210959 1 49 gly O-glycosylated 116:129 arg1 heavily O-glycosylated proteins heavily O-glycosylated proteins Fterm proteins 2149 Mucins are a large family of heavily O-glycosylated proteins that cover all mucosal surfaces and constitute the major macromolecules in most body fluids. 31196789 3 25 gly glycoproteins 466:478 arg1 glycoproteins glycoproteins Fterm glycoproteins To elucidate this hypothesis, in this study, firstly we demonstrated that rLcc9 and nLcc9 were glycoproteins, and then enzymatically deglycosylated them. 30552185 11 72 gly glycoproteins 2773:2785 arg1 glycoproteins glycoproteins Fterm glycoproteins We hypothesized that given the dramatic shift in community structure during disease, it is possible that free carbohydrates, which would typically be readily metabolized by Gram-positive cocci after cleavage from glycoproteins, may increase in concentration locally and thereby affect the physiological state of the subgingival microbiota. 29339807 2 46 gly glycoproteins 367:379 arg1 core-GlcNAc glycoproteins core-GlcNAc Fterm glycoproteins Recent studies have shown that aberrant expression of α (1,6) fucosyltransferase (FUT8), which catalyzes the transfer of fucose from GDP-fucose to core-GlcNAc of the N-linked glycoproteins, modulates cellular behavior that could lead to the development of aggressive prostate cancer. 31176190 2 5 gly glycoproteins 431:443 arg1 glycoproteins glycoproteins Fterm glycoproteins However, such compounds only resemble part of the more complex substrate molecule for enzymes acting on glycoconjugates of glycopeptides or glycoproteins. 31176190 2 15 gly glycopeptides 414:426 arg2 glycopeptides glycopeptides glycopeptides However, such compounds only resemble part of the more complex substrate molecule for enzymes acting on glycoconjugates of glycopeptides or glycoproteins. 28614667 4 22 gly glycoforms 693:702 arg1 purified calcitonin and amylin receptor extracellular domain ECD domain OGER ECD O95905 domain Here, we define the role of CTR N-glycosylation in hormone binding using purified calcitonin and amylin receptor extracellular domain (ECD) glycoforms and fluorescence polarization/anisotropy and isothermal titration calorimetry peptide-binding assays. 30422384 1 2 part_of MMP-9 278:282 arg1 The MMP-9 propeptide MMP-9 The MMP-9 propeptide OGER Site MMP-9 P14780 propeptide The MMP-9 propeptide is unique in the MMP family because of its post-translational modification with an N-linked oligosaccharide. 34341581 4 42 gly glycosites 742:751 arg2 glycosites glycosites glycosites By dividing an N-glycan into three modules and identifying each module using distinct patterns of Y ions or a combination of distinguishable B/Y ions, the method enables determination of detailed glycan structures on thousands of glycosites in mouse brain, which comprise four types of core structure and 17 branch structures with three glycan subtypes. 32553552 0 26 gly glycoproteins 88:100 arg1 Spodoptera frugiperda (Lepidoptera: Noctuidae) midgut membrane-bound glycoproteins Spodoptera frugiperda (Lepidoptera: Noctuidae) midgut membrane-bound glycoproteins Fterm glycoproteins N-glycosylation in Spodoptera frugiperda (Lepidoptera: Noctuidae) midgut membrane-bound glycoproteins. 32553552 0 77 gly N-glycosylation 0:14 arg1 Spodoptera frugiperda (Lepidoptera: Noctuidae) midgut membrane-bound glycoproteins Spodoptera frugiperda (Lepidoptera: Noctuidae) midgut membrane-bound glycoproteins Fterm glycoproteins N-glycosylation in Spodoptera frugiperda (Lepidoptera: Noctuidae) midgut membrane-bound glycoproteins. 31164895 5 7 gly fucosylation 864:875 arg1 the glycoproteins the glycoproteins Fterm glycoproteins In this paper, we have studied molecular actors potentially involved in the fucosylation of the glycoproteins in P. tricornutum. 31164895 5 54 gly glycoproteins 884:896 arg1 the fucosylation glycoproteins the fucosylation Fterm glycoproteins In this paper, we have studied molecular actors potentially involved in the fucosylation of the glycoproteins in P. tricornutum. 29304374 7 26 gly fucosylated 1236:1246 arg1 total core fucosylated N-glycans total core fucosylated N-glycans Functional studies using primary fibroblasts from two affected individuals revealed a complete lack of FUT8 protein expression that ultimately resulted in substantial deficiencies in total core fucosylated N-glycans. 31302509 7 0 gly glycosylation 990:1002 arg2 an N-linked glycosylation site an N-linked glycosylation site site While this substitution introduces an N-linked glycosylation site, XPR1 receptors are not glycosylated indicating that this replacement alters the virus-receptor interface independently of glycosylation. 32030495 1 51 gly N-glycopeptide 329:342 arg2 the intact N-glycopeptide level the intact N-glycopeptide level N-glycopeptide Isotopic-labeling quantitative N-glycoproteomics characterization of cell-surface differentially expressed N-glycosylation in MCF-7/ADR cancer stem cells (CSCs) relative to MCF-7/ADR cells was carried out at the intact N-glycopeptide level with trypsin digestion, ZIC-HILIC enrichment, isotopic diethyl labeling, RPLC-MS/MS analysis of the 1:1 mixture, and GPSeeker DB search. 34212152 4 35 gly glycoprotein 872:883 arg1 the glycoprotein PDI the glycoprotein PDI Fterm structure of the glycoprotein In addition, altering the tertiary structure of the glycoprotein PDI affected its N-glycan remodeling in a site-specific way. 32298669 1 12 gly glycoproteins 163:175 arg1 therapeutic glycoproteins therapeutic glycoproteins Fterm glycoproteins Glycosylation of therapeutic glycoproteins significantly affects their physico-chemical properties, bioactivity and immunogenicity. 32298669 1 65 gly Glycosylation 134:146 arg1 therapeutic glycoproteins therapeutic glycoproteins Fterm glycoproteins Glycosylation of therapeutic glycoproteins significantly affects their physico-chemical properties, bioactivity and immunogenicity. 31029427 1 64 part_of sites 186:190 arg1 the chromatin chromatin sites Fterm Site chromatin sites FOXA1 functions as a pioneer factor of transcriptional regulation that binds to specific sites in the chromatin and recruits other transcription factors, promoting the initiation of gene transcription and mediating the regulation of downstream target gene expression. 29936833 7 10 gly sites 1117:1121 arg1 individual proteins proteins sites Fterm proteins Here, we describe advanced methods for identifying O-GlcNAc sites on individual proteins and across the proteome and for determining their stoichiometry in vivo. 29718541 3 12 gly glycoproteins 665:677 arg1 glycoproteins glycoproteins Fterm glycoproteins In contrast, Sar1 (H79G) effectively inhibits ER-to-Golgi transport of glycoproteins including the Nox5-related oxidase Nox2. 34631661 8 110 gly N-glycosite 1493:1503 arg2 N1158 N1158 N1158 It was found that the N-glycosite at 1,158 position (N1158) and at 122, 282 and 1,158 positions (N122, N282 and N1158) were absent on S from CHO and HEK cells, respectively. 34631661 8 110 gly N-glycosite 1493:1503 arg2 the N-glycosite the N-glycosite N-glycosite It was found that the N-glycosite at 1,158 position (N1158) and at 122, 282 and 1,158 positions (N122, N282 and N1158) were absent on S from CHO and HEK cells, respectively. 34631661 8 110 gly N-glycosite 1493:1503 arg2 1,158 position 1,158 position position It was found that the N-glycosite at 1,158 position (N1158) and at 122, 282 and 1,158 positions (N122, N282 and N1158) were absent on S from CHO and HEK cells, respectively. 34631661 8 110 gly N-glycosite 1493:1503 arg2 122, 282 and 1,158 positions 122, 282 and 1,158 positions positions It was found that the N-glycosite at 1,158 position (N1158) and at 122, 282 and 1,158 positions (N122, N282 and N1158) were absent on S from CHO and HEK cells, respectively. 34631661 8 120 gly positions 1557:1565 arg1 122, 282 and 1,158 positions 122, 282 and 1,158 positions positions It was found that the N-glycosite at 1,158 position (N1158) and at 122, 282 and 1,158 positions (N122, N282 and N1158) were absent on S from CHO and HEK cells, respectively. 34631661 8 110 gly N-glycosite 1493:1503 arg2 N1158 N122, N282 and N1158 N122, N282 and N1158 It was found that the N-glycosite at 1,158 position (N1158) and at 122, 282 and 1,158 positions (N122, N282 and N1158) were absent on S from CHO and HEK cells, respectively. 34631661 8 110 gly N-glycosite 1493:1503 arg2 N122 N122, N282 and N1158 N122, N282 and N1158 It was found that the N-glycosite at 1,158 position (N1158) and at 122, 282 and 1,158 positions (N122, N282 and N1158) were absent on S from CHO and HEK cells, respectively. 34631661 8 110 gly N-glycosite 1493:1503 arg2 N122 N122, N282 and N1158 N122, N282 and N1158 It was found that the N-glycosite at 1,158 position (N1158) and at 122, 282 and 1,158 positions (N122, N282 and N1158) were absent on S from CHO and HEK cells, respectively. 34631661 8 120 gly positions 1557:1565 arg1 N282 N122, N282 and N1158 N122, N282 and N1158 It was found that the N-glycosite at 1,158 position (N1158) and at 122, 282 and 1,158 positions (N122, N282 and N1158) were absent on S from CHO and HEK cells, respectively. 34631661 8 120 gly positions 1557:1565 arg1 N122 N122, N282 and N1158 N122, N282 and N1158 It was found that the N-glycosite at 1,158 position (N1158) and at 122, 282 and 1,158 positions (N122, N282 and N1158) were absent on S from CHO and HEK cells, respectively. 34631661 8 120 gly positions 1557:1565 arg1 N122 N122, N282 and N1158 N122, N282 and N1158 It was found that the N-glycosite at 1,158 position (N1158) and at 122, 282 and 1,158 positions (N122, N282 and N1158) were absent on S from CHO and HEK cells, respectively. 32441515 6 56 gly glycopeptides 1014:1026 arg2 intact glycopeptides intact glycopeptides glycopeptides Using CE modulation, we were able to break selectively specific glycan linkages on intact glycopeptides and get, to some degree, structure-specific mass spectrometric signals. 32441515 6 83 gly linkages 995:1002 arg1 intact glycopeptides intact glycopeptides intact glycopeptides Site glycopeptides Using CE modulation, we were able to break selectively specific glycan linkages on intact glycopeptides and get, to some degree, structure-specific mass spectrometric signals. 30884134 5 73 gly glycosylated 1073:1084 arg1 glycosylated proteins glycosylated proteins Fterm proteins The results revealed that N-glycosylation inhibition not only directly affects the expression of glycosylated proteins but also alters an extended scale of proteins. 34192331 9 59 gly N-glycans 1515:1523 arg1 their Fc region their Fc region their Fc region Site region Concerning the Fc-mediated effector functions, the majority of IgGs with tri- and tetra-antennary N-glycans on their Fc region showed properties similar to IgGs with ordinary bi-antennary N-glycans. 29980609 7 0 part_of AICL 1289:1292 arg1 the AICL C-type lectin-like domain AICL the AICL C-type lectin-like domain PUBTATOR Site AICL 9976 domain One atypical and three conventional N-linked glycosylation sites in the AICL C-type lectin-like domain critically impact maturation and surfacing of AICL, which is strictly dependent on glycosylation of at least one conventional glycosylation site. 30201803 1 57 gly glycoproteins 294:306 arg1 glycoproteins glycoproteins N-linked oligosaccharide side chains Fterm glycoproteins BACKGROUND The glycoproteinoses are a subgroup of lysosomal storage diseases (LSDs) resulting from impaired degradation of N-linked oligosaccharide side chains of glycoproteins, which are commonly screened by detecting the accumulated free oligosaccharides (FOSs) in urine via thin layer chromatography (TLC). 31879931 2 22 gly glycopeptides 282:294 arg2 Structurally well-defined homogeneous glycopeptides Structurally well-defined homogeneous glycopeptides glycopeptides Structurally well-defined homogeneous glycopeptides are highly demanded for functional studies and biomedical applications. 34551980 2 84 gly glycoproteins 474:486 arg1 glycoproteins glycoproteins However, the routine use of glycosylation as a strategy for engineering proteins with advantageous properties is limited by our inability to construct and screen large collections of glycoproteins for cataloguing the consequences of glycan installation. 28410396 5 99 part_of protein 1122:1128 arg1 the active site protein the active site Fterm Site protein site To further evaluate the evolution of the NA gene, we also randomly selected 98 A(H1N1)pdm09, 158 A(H3N2), and 69 influenza B virus strains for NA gene amplification and sequencing, which revealed various amino acid mutations in the active site of the NA protein previously shown to be associated with reduced susceptibility to NAIs. 30946947 13 87 part_of EGF-like 1841:1848 arg1 an EGF-like domain EGF an EGF-like domain OGER Site EGF P01133 domain Spatial modeling of Hyal-Ba displayed a TIM-Barrel (α/β) fold and an EGF-like domain in the C-terminal portion. 32946227 1 46 gly glycopeptides 213:225 arg2 self-assembling glycopeptides self-assembling glycopeptides glycopeptides Carbohydrates are often utilized to provide hydrophilicity and hydroxyl-based hydrogen bonds in self-assembling glycopeptides, affording versatile scaffolds with wide applicability in biomedical research. 30384195 5 67 gly glycosylation 938:950 arg2 two N-linked glycosylation motifs two N-linked glycosylation motifs motifs Sequence alignments with human serine proteases revealed that CT448 has a putative N-terminal pro-peptide which is extended compared to the mammalian homologs and within this pro-peptide two N-linked glycosylation motifs were found. 33222001 10 34 gly core-fucosylated 1703:1718 arg1 a complex core-fucosylated N-glycan (Hex)2(HexNAc)2(Deoxyhexose)1+(Man)3 a complex core-fucosylated N-glycan (Hex)2(HexNAc)2(Deoxyhexose)1+(Man)3 A comparison of N-linked glycans between primary tumours with and without LNM indicated a reduced abundance of a complex core-fucosylated N-glycan (Hex)2(HexNAc)2(Deoxyhexose)1+(Man)3(GlcNAc)2, in primary tumour with associated lymph node metastasis. 33606939 5 30 gly glycosylation 826:838 arg1 protein dynamics protein dynamics Fterm protein The results show that glycosylation nonuniformly shields the surface of the complex and only marginally affects protein dynamics. 30659065 9 80 part_of variants 1579:1586 arg1 proline IgA2 variants proline OGER AminoAcid IgA2 variants P01877 proline IgA2 variants with the either serine (S93) or proline (P93) were detected. 30659065 9 80 part_of variants 1579:1586 arg1 serine IgA2 variants serine OGER AminoAcid IgA2 variants P01877 serine IgA2 variants with the either serine (S93) or proline (P93) were detected. 31067280 0 33 part_of α-mannosidase 55:67 arg1 a potential allosteric site Golgi α-mannosidase II a potential allosteric site PUBTATOR Site Golgi α-mannosidase II 4124 site Identification of a potential allosteric site of Golgi α-mannosidase II using computer-aided drug design. 34212152 2 65 part_of protein 400:406 arg1 five glycosylation sites protein five glycosylation sites Fterm Site protein sites To understand site-specific processing, we used protein disulfide isomerase (PDI), a model protein with five glycosylation sites, for molecular dynamics (MD) simulations and compared the result to a biochemical in vitro analysis with four different glycan processing enzymes. 30059200 5 32 gly sites 880:884 arg1 the O-GlcNAcylation stoichiometry levels sites the O-GlcNAcylation stoichiometry levels sites In addition, we applied isoTCL to compare the O-GlcNAcylation stoichiometry levels of more than 100 modification sites between placenta samples from male and female mice and confirmed site-specifically that female placenta has a higher O-GlcNAcylation than its male counterpart. 26040437 5 69 part_of melittin 1044:1051 arg1 the signal sequence melittin the signal sequence PUBTATOR Site melittin 406130 sequence Time-course experiments showed that substitution of the HA natural sequence with the signal sequence from honeybee melittin promoted a high level of expression and efficient secretion of the HA1. 30250045 7 37 part_of epitope 893:899 arg1 HEG1 HEG1 epitope PUBTATOR Site HEG1 Q9ULI3 epitope An alanine scanning assay of the epitope showed that SKM9-2 bound to a simple epitope in HEG1, and the SKxPSxVS sequence within the epitope was essential for SKM9-2 recognition. 32890705 10 21 gly glycoproteins 1796:1808 arg1 glycoproteins glycoproteins Fterm glycoproteins GENERAL SIGNIFICANCE Our data provide new insights into how GnT-V recognizes glycoproteins. 30069741 5 32 gly glycans 1000:1006 arg1 proteins proteins glycans Fterm proteins Although the research community has focused on the removal of plant glycans and their replacement with human counterparts, the presence of plant glycans on proteins can also provide benefits, such as boosting the immunogenicity of some vaccines, facilitating the interaction between therapeutic proteins and their receptors, and increasing the efficacy of antibody effector functions. 29681862 5 62 gly modification 1090:1101 arg3 proteins AND increased O-GlcNAc modification proteins increased O-GlcNAc modification Fterm proteins We hypothesized that chronic consumption of glucose, a condition that progresses to metabolic syndrome, leads to increased O-GlcNAc modification of proteins in the PVAT, decreasing its anti-contractile effects. 29681862 5 116 gly proteins 1106:1113 arg1 increased O-GlcNAc modification proteins increased O-GlcNAc modification Fterm proteins We hypothesized that chronic consumption of glucose, a condition that progresses to metabolic syndrome, leads to increased O-GlcNAc modification of proteins in the PVAT, decreasing its anti-contractile effects. 29969454 3 28 part_of protein 685:691 arg1 the receptor binding site protein the receptor binding site Fterm Site protein site Our findings showed that 16 residues that changed antigenicity, two potential N-linked glycosylation sites, and one amino acid in the receptor binding site of the HA protein changed significantly from 2011-2014. 31399531 7 43 part_of EGF-like 1327:1334 arg1 first EGF-like domain EGF first EGF-like domain OGER Site EGF P01133 domain Further analysis revealed Ile to Asn substitution introduces a new glycosylation site on first EGF-like domain of protein C, thereby adversely affecting interaction of activated protein C with protein S. Activated protein C-R352Q only exhibited reduced activity in sub-physiological concentrations of Na+ and Ca2+, suggesting that this residue contributes to metal ion-binding affinity of the protease, with no apparent adverse effect on its function in the presence of physiological levels of metal ions. 31399531 7 52 part_of site 1313:1316 arg1 protein C protein C site PUBTATOR Site protein C 5624 site Further analysis revealed Ile to Asn substitution introduces a new glycosylation site on first EGF-like domain of protein C, thereby adversely affecting interaction of activated protein C with protein S. Activated protein C-R352Q only exhibited reduced activity in sub-physiological concentrations of Na+ and Ca2+, suggesting that this residue contributes to metal ion-binding affinity of the protease, with no apparent adverse effect on its function in the presence of physiological levels of metal ions. 31399531 7 84 part_of C 1354:1354 arg1 first EGF-like domain protein C first EGF-like domain PUBTATOR Site protein C 5624 domain Further analysis revealed Ile to Asn substitution introduces a new glycosylation site on first EGF-like domain of protein C, thereby adversely affecting interaction of activated protein C with protein S. Activated protein C-R352Q only exhibited reduced activity in sub-physiological concentrations of Na+ and Ca2+, suggesting that this residue contributes to metal ion-binding affinity of the protease, with no apparent adverse effect on its function in the presence of physiological levels of metal ions. 30933973 9 8 part_of gp120 1762:1766 arg1 26 surface-accessible residues gp120 26 surface-accessible residues OGER Site gp120 Q14624 residues Features predicting neutralization sensitivity or resistance included 26 surface-accessible residues in the VRC01 and CD4 binding footprints, the length of gp120, the length of Env, the number of cysteines in gp120, the number of cysteines in Env, and 4 potential N-linked glycosylation sites; the top features will be advanced to the primary sieve analysis. 30933973 9 8 part_of gp120 1762:1766 arg1 4 potential N-linked glycosylation sites gp120 4 potential N-linked glycosylation sites OGER Site gp120 Q14624 sites Features predicting neutralization sensitivity or resistance included 26 surface-accessible residues in the VRC01 and CD4 binding footprints, the length of gp120, the length of Env, the number of cysteines in gp120, the number of cysteines in Env, and 4 potential N-linked glycosylation sites; the top features will be advanced to the primary sieve analysis. 30933973 9 17 part_of gp120 1709:1713 arg1 26 surface-accessible residues gp120 26 surface-accessible residues OGER Site gp120 Q14624 residues Features predicting neutralization sensitivity or resistance included 26 surface-accessible residues in the VRC01 and CD4 binding footprints, the length of gp120, the length of Env, the number of cysteines in gp120, the number of cysteines in Env, and 4 potential N-linked glycosylation sites; the top features will be advanced to the primary sieve analysis. 30933973 9 17 part_of gp120 1709:1713 arg1 4 potential N-linked glycosylation sites gp120 4 potential N-linked glycosylation sites OGER Site gp120 Q14624 sites Features predicting neutralization sensitivity or resistance included 26 surface-accessible residues in the VRC01 and CD4 binding footprints, the length of gp120, the length of Env, the number of cysteines in gp120, the number of cysteines in Env, and 4 potential N-linked glycosylation sites; the top features will be advanced to the primary sieve analysis. 30933973 9 103 part_of sites 1840:1844 arg1 gp120 gp120 sites OGER Site gp120 Q14624 sites Features predicting neutralization sensitivity or resistance included 26 surface-accessible residues in the VRC01 and CD4 binding footprints, the length of gp120, the length of Env, the number of cysteines in gp120, the number of cysteines in Env, and 4 potential N-linked glycosylation sites; the top features will be advanced to the primary sieve analysis. 34869209 1 9 gly N-glycosylation 209:223 arg2 22 predicted N-glycosylation sites 22 predicted N-glycosylation sites sites The SARS-CoV-2 spike protein is heavily glycosylated, having 22 predicted N-glycosylation sites per monomer. 31826991 4 2 gly region 527:532 arg1 head region high-mannose glycosites head region high-mannose glycosites Since the presence of head region high-mannose glycosites dictates SP-D activity, the ability to predict these glycosite glycan subtypes may be of value. 31826991 4 78 gly head 522:525 arg1 head region high-mannose glycosites head region high-mannose glycosites Since the presence of head region high-mannose glycosites dictates SP-D activity, the ability to predict these glycosite glycan subtypes may be of value. 31380292 9 7 part_of residues 1346:1353 arg1 Aspergillus proteins proteins residues Fterm Site proteins residues Several lines of evidence strongly indicated that AP3 recognizes the Galf residues of O-linked glycans on Aspergillus proteins. 30275702 1 15 gly glycoprotein 258:269 arg1 the small integrin binding ligand N-linked glycoprotein family the small integrin binding ligand N-linked glycoprotein family Fterm glycoprotein BACKGROUND Osteopontin (OPN), a member of the small integrin binding ligand N-linked glycoprotein family, has been analyzed in numerous types of human malignancy. 33516683 3 118 part_of contain 607:613 arg1 almost all glycoproteins AND multiple sites almost all glycoproteins multiple sites Fterm Site glycoproteins sites While almost all glycoproteins clinically linked to stenotic valvular modeling contain multiple sites for N-glycosylation, there are very few reports aimed at understanding how N-glycosylation contributes to the valve structure in disease. 29784879 8 27 gly glycoproteins 1535:1547 arg1 misfolded glycoproteins misfolded glycoproteins Fterm glycoproteins On the basis of these findings, we propose that disposal of misfolded glycoproteins through mannose trimming is tightly connected to redox-mediated regulation in the ER. 28883554 3 61 gly glycosite 520:528 arg2 one potential N-linked glycosite one potential N-linked glycosite glycosite The mouse-adapted pH1N1 lost its eight consecutive amino acids including one potential N-linked glycosite from the NA stalk region. 32960038 7 6 gly fucosylated 1836:1846 arg1 afucosylated and fucosylated sulfoglycans afucosylated and fucosylated sulfoglycans To promote the PGC-LC-MS/MS-based method for glycome-wide applications, we extended analyses to native sulfoglycans from the egg-propagated and cell culture-derived influenza vaccines and demonstrate the high-resolution separation and structural characterization of underivatized neutral and anionic glycoforms including oligomannosidic glycan anomers, sialoglycan linkage isomers, and regioisomers of afucosylated and fucosylated sulfoglycans containing sulfated-6-GlcNAc and sulfated-4-GalNAc residues. 32960038 7 10 gly afucosylated 1819:1830 arg1 afucosylated and fucosylated sulfoglycans afucosylated and fucosylated sulfoglycans To promote the PGC-LC-MS/MS-based method for glycome-wide applications, we extended analyses to native sulfoglycans from the egg-propagated and cell culture-derived influenza vaccines and demonstrate the high-resolution separation and structural characterization of underivatized neutral and anionic glycoforms including oligomannosidic glycan anomers, sialoglycan linkage isomers, and regioisomers of afucosylated and fucosylated sulfoglycans containing sulfated-6-GlcNAc and sulfated-4-GalNAc residues. 31164895 3 19 gly glycoproteins 613:625 arg1 N-glycans glycoproteins N-glycans Fterm glycoproteins Indeed, such epitope has previously been found on N-glycans of endogenous glycoproteins in P. tricornutum. 30996101 8 104 gly glycosylation 1609:1621 arg2 fewer N-linked glycosylation sites fewer N-linked glycosylation sites sites No distinct amino acid signatures in the men's viruses were found to link to the women's founders, nor did the women's env sequences have shorter variable loops or fewer N-linked glycosylation sites. 33263330 6 27 part_of molecule 1119:1126 arg1 Protein fragments Down syndrome cell-adhesion molecule Protein fragments PUBTATOR Site Down syndrome cell-adhesion molecule 1826 fragments Protein fragments of human Down syndrome cell-adhesion molecule and colony-stimulating factor 1 receptor were obtained from the GlycoDelete cell line for crystallization. 33263330 6 62 part_of Protein 1064:1070 arg1 Protein fragments Protein Protein fragments Cterm Site Protein fragments Protein fragments of human Down syndrome cell-adhesion molecule and colony-stimulating factor 1 receptor were obtained from the GlycoDelete cell line for crystallization. 33263330 6 66 part_of receptor 1160:1167 arg1 Protein fragments colony-stimulating factor 1 receptor Protein fragments PUBTATOR Site colony-stimulating factor 1 receptor 1436 fragments Protein fragments of human Down syndrome cell-adhesion molecule and colony-stimulating factor 1 receptor were obtained from the GlycoDelete cell line for crystallization. 30127001 2 40 part_of NOTCH1 317:322 arg1 the mammalian NOTCH1 core ligand-binding domain NOTCH1 the mammalian NOTCH1 core ligand-binding domain PUBTATOR Site NOTCH1 4851 domain A recent structural analysis suggested that a novel O-linked hexose modification on serine 435 of the mammalian NOTCH1 core ligand-binding domain lies at the interface with its ligands. 31875397 6 16 gly N-linked 1103:1110 arg1 glycosylated neuropeptides glycosylated neuropeptides neuropeptides Overall, 4 N-linked and 14 O-linked glycosylated neuropeptides have been identified for the first time in the crustacean nervous system. 31875397 6 48 gly glycosylated 1128:1139 arg1 glycosylated neuropeptides glycosylated neuropeptides neuropeptides Overall, 4 N-linked and 14 O-linked glycosylated neuropeptides have been identified for the first time in the crustacean nervous system. 32269229 2 70 gly N-glycosites 409:420 arg2 N-glycosites N-glycosites N-glycosites However, investigating a representative dataset of 500 human N-glycoproteins, we observed the sites of N-linked glycosylations or N-glycosites, to be predominantly present in the regions of predicted order. 32269229 2 84 gly N-glycoproteins 340:354 arg1 500 human N-glycoproteins 500 human N-glycoproteins Fterm N-glycoproteins However, investigating a representative dataset of 500 human N-glycoproteins, we observed the sites of N-linked glycosylations or N-glycosites, to be predominantly present in the regions of predicted order. 33167210 9 59 part_of PSA 1485:1487 arg1 PSA glycopeptides PSA PSA glycopeptides PUBTATOR Site PSA 354 glycopeptides Next to seminal plasma, the method is also expected to be of use for studying PSA glycopeptides derived from other biofluids and/or in other disease contexts. 31710461 6 16 gly glycosylation 1052:1064 arg2 N-linked glycosylation sites N-linked glycosylation sites sites ChymotrypsiN is a valuable addition to the toolkit of proteases to aid the mapping of N-linked glycosylation sites within proteins and proteomes. 31640124 2 3 gly glycosylation 261:273 arg1 its envelope (E) protein its envelope (E) protein Fterm protein ZIKV uses glycosylation of its envelope (E) protein to interact with host cell receptors to facilitate entry; these interactions could also be important for designing therapeutics and vaccines. 31133022 7 92 gly glycans 1408:1414 arg1 GPI-anchored proteins proteins glycans Fterm proteins Notably, by coupling biochemical and computational studies, we propose a hypothetical mechanism that involves dual selective recognition and efficient binding dependent on both N-linked glycans on GPI-anchored proteins (GPI-APs) and sphingomyelin (SM) in lipid rafts. 31133022 7 92 gly glycans 1408:1414 arg1 sphingomyelin sphingomyelin glycans Fterm sphingomyelin Notably, by coupling biochemical and computational studies, we propose a hypothetical mechanism that involves dual selective recognition and efficient binding dependent on both N-linked glycans on GPI-anchored proteins (GPI-APs) and sphingomyelin (SM) in lipid rafts. 27690717 4 70 gly Glycosylation 724:736 arg1 these sites these sites sites Glycosylation of these sites strongly and differentially regulate gating kinetics, outward rectification, toxin sensitivity and physical association between the α and β2 subunits. 33606939 6 29 part_of protein 999:1005 arg1 protein residues protein protein residues Fterm Site protein residues The glycans gather in distinct clusters through interaction with protein residues, and only a few regions are left accessible by an antibody. 34110173 3 7 gly glycopeptides 603:615 arg2 enriched glycopeptides erythropoietin glycopeptides PUBTATOR erythropoietin 2056 glycopeptides Permethylated N-glycans, peptides, and enriched glycopeptides of erythropoietin were analyzed by nanoLC-MS/MS, and de-N-glycosylated erythropoietin was measured by LC-MS, enabling the qualitative and quantitative analysis of glycosylation and different glycan modifications (e.g., phosphorylation and O-acetylation). 30657688 7 62 gly proteins 1438:1445 arg1 O-GlcNAcylation proteins O-GlcNAcylation Fterm proteins Our method provides a promising tool for the site-specific characterization of O-GlcNAcylation of important proteins. 28924042 3 39 part_of sites 446:450 arg1 Gbb Gbb sites PUBTATOR Site Gbb 37778 sites Multiple proteolytic processing sites in Glass bottom boat (Gbb), the Drosophila BMP7 ortholog, can produce distinct ligand forms. 28924042 3 39 part_of sites 446:450 arg1 Glass bottom boat Glass bottom boat sites PUBTATOR Site Glass bottom boat 37778 sites Multiple proteolytic processing sites in Glass bottom boat (Gbb), the Drosophila BMP7 ortholog, can produce distinct ligand forms. 32692906 2 46 gly glycoproteins 556:568 arg1 their surface glycoproteins their surface glycoproteins Fterm glycoproteins Human carcinoma cells often express truncated O-glycans, Tn (GalNAcα1-Ser/Thr), and Sialyl-Tn (Siaα2-6GalNAcα1-Ser/Thr, STn) on their surface glycoproteins, yet molecular mechanisms in terms of advantages for tumor cells to have these truncated O-glycans remain elusive. 30504766 3 5 gly proteins 373:380 arg1 O-GlcNAcylation proteins O-GlcNAcylation Fterm proteins 108155 O-linked beta-D-N-acetylglucosamine (O-GlcNAc) transferase (OGT) couples nutrient cues to O-GlcNAcylation of intracellular proteins at serine/threonine residues. 30504766 3 11 gly residues 402:409 arg1 O-GlcNAcylation residues O-GlcNAcylation residues O-linked beta-D-N-acetylglucosamine (O-GlcNAc) transferase (OGT) couples nutrient cues to O-GlcNAcylation of intracellular proteins at serine/threonine residues. 27927990 5 46 part_of chains 965:970 arg1 TbRFT1 null parasites chains TbRFT1 null parasites OGER Site chains P06744 parasites Analysis by immunoblotting, metabolic labeling, and mass spectrometry demonstrated that the major GPI-anchored proteins of T. brucei procyclic forms have truncated GPI anchor side chains in TbRFT1 null parasites when compared with wild-type cells, a defect that is corrected by expressing a tagged copy of TbRFT1 in the null background. 27927990 5 70 part_of TbRFT1 975:980 arg1 TbRFT1 null parasites TbRFT1 TbRFT1 null parasites Cterm Site TbRFT1 852261 parasites Analysis by immunoblotting, metabolic labeling, and mass spectrometry demonstrated that the major GPI-anchored proteins of T. brucei procyclic forms have truncated GPI anchor side chains in TbRFT1 null parasites when compared with wild-type cells, a defect that is corrected by expressing a tagged copy of TbRFT1 in the null background. 31285765 11 37 gly glycosylation 1429:1441 arg2 Asn29 Asn29 Asn29 The overexpression of wild-type PCOLCE, but not its N29Q mutant, promoted migration, invasion and metastasis, indicating that the glycosylation of PCOLCE at Asn29 is necessary for its functions in osteosarcoma. 31285765 11 37 gly glycosylation 1429:1441 arg1 PCOLCE PCOLCE Asn29 PUBTATOR PCOLCE 5118 Asn29 The overexpression of wild-type PCOLCE, but not its N29Q mutant, promoted migration, invasion and metastasis, indicating that the glycosylation of PCOLCE at Asn29 is necessary for its functions in osteosarcoma. 31285765 11 37 gly glycosylation 1429:1441 arg1 PCOLCE PCOLCE Asn29 PUBTATOR PCOLCE 5118 Asn29 The overexpression of wild-type PCOLCE, but not its N29Q mutant, promoted migration, invasion and metastasis, indicating that the glycosylation of PCOLCE at Asn29 is necessary for its functions in osteosarcoma. 30042931 7 84 gly glycosylation 1311:1323 arg1 JEV E proteins JEV E proteins Fterm proteins Overall, the patterns of N-linked glycosylation on JEV E proteins may affect viral interaction with cellular lectins and contribute to viral replication and pathogenesis. 31094416 2 30 part_of CD146 504:508 arg1 the extracellular domain CD146 the extracellular domain PUBTATOR Site CD146 4162 domain Here, we used Nuclear Magnetic Resonance (NMR) 15N-Heteronuclear Single Quantum Coherence (HSQC) spectroscopy to investigate binding between 15N-labeled Gal-3 and the extracellular domain (eFL) of purified CD146 (five Ig-like ectodomains D1-D5) and a shorter, D5-deleted version of CD146 (D1-D4). 31010828 6 35 gly proteins 1499:1506 arg1 increased O-GlcNAcylation proteins increased O-GlcNAcylation Fterm proteins Our results suggest that increased O-GlcNAcylation of cellular proteins may be a potential link between excess nutrient levels and pathological inflammation. 32269229 5 4 gly N-glycosites 1191:1202 arg2 any N-glycosites any N-glycosites N-glycosites, N-glycosite When compared with control disordered residue stretches without any N-glycosites, N-glycosite neighborhoods were depleted of charged, polar, hydrophobic and flexible residues and enriched for aromatic, accessible and order-promoting residues with a tendency to be part of coiled and β structures. 32269229 5 5 gly N-glycosite 1205:1215 arg2 N-glycosite N-glycosite N-glycosites, N-glycosite When compared with control disordered residue stretches without any N-glycosites, N-glycosite neighborhoods were depleted of charged, polar, hydrophobic and flexible residues and enriched for aromatic, accessible and order-promoting residues with a tendency to be part of coiled and β structures. 29718541 6 0 gly N-glycosylated 1081:1094 arg1 one high mannose one high mannose Both participate in Nox1 trafficking, as Nox1 advances to the cell surface in two differentially N-glycosylated forms, one complex and one high mannose, in a Sar1/Stx5-dependent and -independent manner, respectively. 32544330 6 8 gly N-glycosylation 855:869 arg1 Asn76 Asn76 Asn76 The N-glycosylation of Asn76 has less pronounced consequences. 32553552 6 12 gly N-glycosylation 982:996 arg2 the potential N-glycosylation sites the potential N-glycosylation sites sites We also performed endoglycosidase release of N-glycans in the presence of H218O determining the compositions of released N-glycans by MALDI-TOF MS analysis and established the occupancy of the potential N-glycosylation sites. 32553552 6 29 gly occupancy 955:963 arg2 the potential N-glycosylation sites the potential N-glycosylation sites sites We also performed endoglycosidase release of N-glycans in the presence of H218O determining the compositions of released N-glycans by MALDI-TOF MS analysis and established the occupancy of the potential N-glycosylation sites. 31516400 0 71 gly glycoprotein 81:92 arg1 mass spectrometry-based human N-linked glycoprotein mass spectrometry-based human N-linked glycoprotein Fterm glycoprotein N-GlycositeAtlas: a database resource for mass spectrometry-based human N-linked glycoprotein and glycosylation site mapping. 31516400 0 73 gly glycosylation 98:110 arg2 glycosylation site mapping glycosylation site mapping site N-GlycositeAtlas: a database resource for mass spectrometry-based human N-linked glycoprotein and glycosylation site mapping. 30865517 1 35 part_of proteins 254:261 arg1 serine proteins serine and threonine residues Fterm AminoAcid proteins serine and threonine residues The attachment of O-linked β-N-acetylglucosamine (O-GlcNAc) to the serine and threonine residues of proteins in distinct cellular compartments is increasingly recognized as an important mechanism regulating cellular function. 34687015 4 27 gly Asn297-linked 614:626 arg1 the IgG Asn297-linked glycan Asn297 the IgG Asn297-linked glycan Asn297 In many inflammatory and autoimmune conditions, as well as in metabolic, cardiovascular, infectious, and neoplastic diseases, the IgG Asn297-linked glycan becomes less sialylated and less galactosylated, leading to increased expression of glycans terminating with GlcNAc. 34780171 7 29 gly glycoproteins 1605:1617 arg1 1118 glycoproteins 1118 glycoproteins Fterm glycoproteins To the best of our knowledge, the result with 2742 sialoglycopeptides among 7367 unique glycopeptides and 166 glycans from 2434 N-glycosites of 1118 glycoproteins (Byonic score > 100) provides one of the deepest glycoproteomic profiles in single-cell type. 34780171 7 53 gly glycopeptides 1544:1556 arg1 2434 N-glycosites 2434 N-glycosites N-glycosites To the best of our knowledge, the result with 2742 sialoglycopeptides among 7367 unique glycopeptides and 166 glycans from 2434 N-glycosites of 1118 glycoproteins (Byonic score > 100) provides one of the deepest glycoproteomic profiles in single-cell type. 34780171 7 53 gly glycopeptides 1544:1556 arg2 7367 unique glycopeptides 7367 unique glycopeptides glycopeptides To the best of our knowledge, the result with 2742 sialoglycopeptides among 7367 unique glycopeptides and 166 glycans from 2434 N-glycosites of 1118 glycoproteins (Byonic score > 100) provides one of the deepest glycoproteomic profiles in single-cell type. 34780171 7 70 gly sialoglycopeptides 1507:1524 arg2 2742 sialoglycopeptides 2742 sialoglycopeptides sialoglycopeptides To the best of our knowledge, the result with 2742 sialoglycopeptides among 7367 unique glycopeptides and 166 glycans from 2434 N-glycosites of 1118 glycoproteins (Byonic score > 100) provides one of the deepest glycoproteomic profiles in single-cell type. 34780171 7 81 gly N-glycosites 1584:1595 arg2 2434 N-glycosites N-glycosites 166 glycans N-glycosites To the best of our knowledge, the result with 2742 sialoglycopeptides among 7367 unique glycopeptides and 166 glycans from 2434 N-glycosites of 1118 glycoproteins (Byonic score > 100) provides one of the deepest glycoproteomic profiles in single-cell type. 34780171 7 81 gly N-glycosites 1584:1595 arg1 1118 glycoproteins glycoproteins N-glycosites 166 glycans Fterm glycoproteins N-glycosites To the best of our knowledge, the result with 2742 sialoglycopeptides among 7367 unique glycopeptides and 166 glycans from 2434 N-glycosites of 1118 glycoproteins (Byonic score > 100) provides one of the deepest glycoproteomic profiles in single-cell type. 34780171 7 81 gly N-glycosites 1584:1595 arg1 1118 glycoproteins glycoproteins N-glycosites Fterm glycoproteins N-glycosites To the best of our knowledge, the result with 2742 sialoglycopeptides among 7367 unique glycopeptides and 166 glycans from 2434 N-glycosites of 1118 glycoproteins (Byonic score > 100) provides one of the deepest glycoproteomic profiles in single-cell type. 33305950 1 68 gly N-glycosylation 99:113 arg1 Asn-297 Asn-297 Asn-297 The N-glycosylation pattern of Asn-297 may have impacts on monoclonal antibody (mAb) drug plasma clearance, antibody-dependent cell mediated cytotoxicity (ADCC), and complement-dependent cytotoxicity (CDC). 32384234 6 16 gly N-glycopeptides 1555:1569 arg2 all related N-glycopeptides all related N-glycopeptides N-glycopeptides Moreover, the characteristic peptide core ion carrying a ring cleavage remnant of the innermost amino sugar residue of an N-glycan can be relied upon to filter out all related N-glycopeptides carrying additional O-glycans defined by specific mass increments. 32384234 6 56 gly carrying 1571:1578 arg1 all related N-glycopeptides AND additional O-glycans all related N-glycopeptides additional O-glycans N-glycopeptides Moreover, the characteristic peptide core ion carrying a ring cleavage remnant of the innermost amino sugar residue of an N-glycan can be relied upon to filter out all related N-glycopeptides carrying additional O-glycans defined by specific mass increments. 30535277 4 34 gly fucosylated 753:763 arg1 fucosylated glycans fucosylated glycans The results showed that the expression level of fucosylated glycans recognized by LTL was significantly increased in HCC compared with other subjects (P < 0.0001). 34780171 2 1 gly glycopeptides 374:386 arg2 enrich glycopeptides enrich glycopeptides glycopeptides Due to the structural macro- and microheterogeneity, low stoichiometry, and low ionization efficiency of glycopeptides, high-performance tools to enrich glycopeptides, especially the negatively charged and labile sialoglycopeptides, are essential to enhance the identification of the underexplored glycoproteome. 34780171 2 14 gly glycopeptides 326:338 arg2 glycopeptides glycopeptides glycopeptides Due to the structural macro- and microheterogeneity, low stoichiometry, and low ionization efficiency of glycopeptides, high-performance tools to enrich glycopeptides, especially the negatively charged and labile sialoglycopeptides, are essential to enhance the identification of the underexplored glycoproteome. 34780171 2 25 gly microheterogeneity 254:271 arg1 glycopeptides glycopeptides glycopeptides Due to the structural macro- and microheterogeneity, low stoichiometry, and low ionization efficiency of glycopeptides, high-performance tools to enrich glycopeptides, especially the negatively charged and labile sialoglycopeptides, are essential to enhance the identification of the underexplored glycoproteome. 34780171 2 91 gly sialoglycopeptides 434:451 arg2 the negatively charged and labile sialoglycopeptides the negatively charged and labile sialoglycopeptides sialoglycopeptides Due to the structural macro- and microheterogeneity, low stoichiometry, and low ionization efficiency of glycopeptides, high-performance tools to enrich glycopeptides, especially the negatively charged and labile sialoglycopeptides, are essential to enhance the identification of the underexplored glycoproteome. 32776107 5 5 gly position 749:756 arg1 di-N-acetyl glucuronic acid position di-N-acetyl glucuronic acid position glycolytica is responsible for the addition of di-N-acetyl glucuronic acid at the third position of a tetrasaccharide. 33581334 4 20 gly O-glycoprotein 513:526 arg1 O-glycoprotein data O-glycoprotein data Fterm O-glycoprotein It was constructed with a collection of O-glycoprotein data from different sources. 30770376 4 61 gly glycoproteins 801:813 arg1 plasma glycoproteins plasma glycoproteins Fterm glycoproteins METHODS After PNGase F digestion of plasma glycoproteins, N-glycans were linked to a quinolone using a transient amine group at the reducing end, isolated by a hydrophilic interaction chromatography column, and then identified by accurate mass and quantified using a stable isotope-labeled glycopeptide as the internal standard. 30770376 4 76 gly glycopeptide 1048:1059 arg2 a stable isotope-labeled glycopeptide a stable isotope-labeled glycopeptide glycopeptide METHODS After PNGase F digestion of plasma glycoproteins, N-glycans were linked to a quinolone using a transient amine group at the reducing end, isolated by a hydrophilic interaction chromatography column, and then identified by accurate mass and quantified using a stable isotope-labeled glycopeptide as the internal standard. 34687015 9 17 gly glycosylated 1218:1229 arg1 The aberrantly glycosylated IgG glycans The aberrantly glycosylated IgG glycans The aberrantly glycosylated IgG glycans associated with inflammation and aging can sustain inflammation through different mechanisms, fueling a vicious loop. 32281997 11 96 gly glycoproteins 1815:1827 arg1 purified glycoproteins purified glycoproteins Fterm glycoproteins The method is applicable to purified glycoproteins as well as to biofluids and cell- or tissue-based samples. 29753740 4 60 gly glycoprotein 791:802 arg1 glycoprotein glycoprotein Fterm glycoprotein Up-regulation of glutamine: fructose 6-phosphate aminotransferase 1 (GFAT1), which belongs to the hexosamine biosynthesis pathway (HBP) that produces uridine diphosphate N-acetylglucosamine (UDP-GlcNAc) to maintain glycoprotein, was validated by evaluation of mRNA and protein levels. 29339411 4 24 gly glycopeptide 1007:1018 arg2 22 unique glycopeptide species 22 unique glycopeptide species glycopeptide A comprehensive glycomic and glycoproteomic assessment revealed extensive glycan macro- and microheterogeneity identified from 22 unique glycopeptide species. 30224358 2 75 gly glycosylates 247:258 arg1 serines serines and threonines serines and threonines OGT thereby stably glycosylates serines and threonines of numerous proteins and, via a transient glutamate glycosylation, cleaves a single known substrate-the so-called HCF-1PRO repeat of the transcriptional co-regulator host-cell factor 1 (HCF-1). 35026558 1 7 gly serine 145:150 arg1 residue residue threonine residue Mucin-type O-glycosylation of serine or threonine residue in proteins is known to be one of the major post-translational modifications. 35026558 1 33 gly O-glycosylation 126:140 arg1 proteins proteins serine Fterm proteins serine Mucin-type O-glycosylation of serine or threonine residue in proteins is known to be one of the major post-translational modifications. 35026558 1 33 gly O-glycosylation 126:140 arg1 proteins proteins threonine residue Fterm proteins threonine residue Mucin-type O-glycosylation of serine or threonine residue in proteins is known to be one of the major post-translational modifications. 30210230 9 33 part_of rh1-1 1469:1473 arg1 the 5'-coding sequence rh1-1 the 5'-coding sequence PUBTATOR Site rh1-1 30295 sequence Targeting the 5'-coding sequence of rh1-1 led to the recovery of several indels similar to disease-associated alleles. 28469279 3 14 gly glycosylated 398:409 arg1 glycosylated proteins glycosylated proteins Fterm proteins As lectins bind glycosylated proteins, we asked if specific lectins interact with mitotic O-GlcNAcylated proteins during metaphase to ensure correct cell division. 31918287 9 75 gly sialoglycoproteins 1251:1268 arg1 O-linked sialoglycoproteins O-linked sialoglycoproteins Fterm sialoglycoproteins RESULTS Siglec-E ligands are O-linked sialoglycoproteins with molecular weights of 70-300 kDa and are distributed broadly on mouse aorta as well as on MAECs in vitro. 33197804 1 32 gly glycoproteins 110:122 arg1 large glycosylated glycoproteins large glycosylated glycoproteins Fterm glycoproteins OBJECTIVE Mucins are large glycosylated glycoproteins that are produced in the salivary glands, and their changes may contribute to the development of xerostomia due to aging and the accompanying deterioration of oral hygiene. 33197804 1 36 gly glycosylated 97:108 arg1 large glycosylated glycoproteins large glycosylated glycoproteins Fterm glycoproteins OBJECTIVE Mucins are large glycosylated glycoproteins that are produced in the salivary glands, and their changes may contribute to the development of xerostomia due to aging and the accompanying deterioration of oral hygiene. 30127001 2 27 gly domain 344:349 arg1 a novel O-linked hexose modification domain a novel O-linked hexose modification domain A recent structural analysis suggested that a novel O-linked hexose modification on serine 435 of the mammalian NOTCH1 core ligand-binding domain lies at the interface with its ligands. 30127001 2 74 gly modification 273:284 arg1 the mammalian NOTCH1 core ligand-binding domain AND a novel O-linked hexose modification the mammalian NOTCH1 core ligand-binding domain a novel O-linked hexose modification domain A recent structural analysis suggested that a novel O-linked hexose modification on serine 435 of the mammalian NOTCH1 core ligand-binding domain lies at the interface with its ligands. 29491160 5 80 gly α2-6-sialylated 747:761 arg1 α2-6-sialylated branched N-linked glycans α2-6-sialylated branched N-linked glycans We have recently shown that human influenza viruses preferentially bind to α2-6-sialylated branched N-linked glycans, where the sialic acids on each branch can bind to receptor sites on two protomers of the same hemagglutinin (HA) trimer. 30814666 9 17 part_of sites 1239:1243 arg1 67 proteins proteins sites Fterm Site proteins sites Quantitative glycoproteomic analysis revealed that 101 sites on 67 proteins involved in Mtb fitness and survival were differentially glycosylated between the four lineages, among which 64% were cell envelope and membrane proteins. 32827291 3 3 gly presence 571:578 arg1 both sites AND N-glycans both sites N-glycans sites We found that mutation of one site (Asn220) had greater impact on enzymatic activity while another (Asn335) on Golgi localization and presence of N-glycans at both sites is required for production of stable and enzymatically active protein and its secretion. 30659065 5 29 gly occupancy 1225:1233 arg2 site occupancy site occupancy site Here we employ a nLC-MS/MS method using stepped-energy higher energy collisional dissociation to characterize the N-glycan repertoire and site occupancy of circulating serum antibodies. 31892091 7 22 gly glycoproteins 1432:1444 arg1 other glycoproteins other glycoproteins Fterm glycoproteins Tryptic digests of other glycoproteins (i.e. human apolipoprotein CIII (APO-C3) and bovine alpha-1-acid glycoprotein (bAGP)) were also analyzed, demonstrating the applicability to glycopeptides with different glycan composition and nature. 31892091 7 43 gly glycopeptides 1587:1599 arg1 different glycan composition glycopeptides different glycan composition glycopeptides Tryptic digests of other glycoproteins (i.e. human apolipoprotein CIII (APO-C3) and bovine alpha-1-acid glycoprotein (bAGP)) were also analyzed, demonstrating the applicability to glycopeptides with different glycan composition and nature. 34962767 1 3 gly glycoproteins 210:222 arg1 glycoproteins glycoproteins Fterm glycoproteins Characterization of mucin-type O-glycans linked to serine/threonine of glycoproteins is technically challenging, in part, due to a lack of effective enzymatic tools that enable their analysis. 30659065 10 52 gly N-glycosylation 1818:1832 arg1 N92 N92 N92 In digests of the sera from a subset of donors, we detected an unmodified peptide containing a proline residue at position 93; this substitution would strongly disfavor N-glycosylation at N92. 30735356 5 68 part_of mucin-like 917:926 arg1 the mucin-like region mucin the mucin-like region PUBTATOR Site mucin 100508689 region Using single virus particle tracking, we show that the mobility of chondroitin sulfate-bound HSV-1 virions is decreased in absence of the mucin-like region. 31852790 8 83 gly glycosylation 1437:1449 arg2 glycosylation sites glycosylation sites sites and residues in Primarily, the pattern of glycosylation sites and residues in the Sa antigenic region, around the receptor binding site (RBS), served as signatures for the elicitation of broadly reactive antibodies by these HA immunogens. 31018136 2 8 gly enzymes 398:404 arg1 key determinants enzymes key determinants Fterm enzymes This complex carbohydrate mixture-the glycan profile-is generated in the compartmentalized Golgi, in which level and localization of glycosylation enzymes are key determinants. 30190529 5 78 part_of sequences 973:981 arg1 five known B-cell epitopes sequences five known B-cell epitopes epitopes There were eight variable amino acid positions specific to genotype A or genotype G sequences in five known B-cell epitopes of the HN protein. 30190529 5 84 part_of protein 1023:1029 arg1 five known B-cell epitopes HN protein five known B-cell epitopes Cterm Site HN protein 1489765 epitopes There were eight variable amino acid positions specific to genotype A or genotype G sequences in five known B-cell epitopes of the HN protein. 28364041 5 60 gly glycoproteins 990:1002 arg1 four cell membrane glycoproteins four cell membrane glycoproteins Fterm glycoproteins Using two different galectin-3 affinity purification processes, we extracted four cell membrane glycoproteins, CD146/melanoma cell adhesion molecule (MCAM)/MUC18, CD31/platelet endothelial cell adhesion molecule-1 (PECAM-1), CD144/VE-cadherin, and CD106/Endoglin, from vascular endothelial cells. 31726007 6 39 gly glycosylation 958:970 arg2 seven glycosylation sites seven glycosylation sites sites As determined by mass spectrometric analysis, seven glycosylation sites were identified in type I collagen and the most predominant site was at the helical cross-linking site, α1-87. 31399531 0 37 gly glycosylation 57:69 arg2 a new N-linked glycosylation site a new N-linked glycosylation site site Ile73Asn mutation in protein C introduces a new N-linked glycosylation site on the first EGF-domain of protein C and causes thrombosis. 33908016 3 12 gly fucosylated 891:901 arg1 α1,6-linked core fucosylated glycans α1,6-linked core fucosylated glycans Sialic acid chemical derivatization can be used to determine the isomeric linkage (α2,3 or α2,6) of sialic acids attached to N-glycans, while endoglycosidase F3 (Endo F3) can be enzymatically applied to preferentially release α1,6-linked core fucosylated glycans, further describing the linkage of fucose on N-glycans. 34192331 4 38 gly region 657:662 arg1 bi-antennary complex-type N-glycans region bi-antennary complex-type N-glycans region The major glycoforms of the N-glycans on the IgG-Fc region are bi-antennary complex-type N-glycans, while multibranched complex-type N-glycans are not typically found. 34192331 4 61 gly glycoforms 615:624 arg1 the N-glycans the N-glycans The major glycoforms of the N-glycans on the IgG-Fc region are bi-antennary complex-type N-glycans, while multibranched complex-type N-glycans are not typically found. 34192331 4 74 gly N-glycans 633:641 arg1 the IgG-Fc region the IgG-Fc region the IgG-Fc region Site region The major glycoforms of the N-glycans on the IgG-Fc region are bi-antennary complex-type N-glycans, while multibranched complex-type N-glycans are not typically found. 31837192 3 44 gly glycoproteins 620:632 arg1 recombinant glycoproteins recombinant glycoproteins Fterm glycoproteins However, with exception of monoclonal antibodies, homogenous human-like β1,4-galactosylation is very hard to achieve in recombinant glycoproteins. 32985651 10 65 part_of heparin 1519:1525 arg1 the predicted heparin binding site 568RFKRKLPK575 heparin the predicted heparin binding site 568RFKRKLPK575 Fterm Site heparin site A docked heparin hexasaccharide interacted well with the predicted heparin binding site 568RFKRKLPK575. 34232571 6 59 gly glycosites 936:945 arg2 glycosites glycosites glycosites Together, our workflow enables a high-throughput enrichment of glycans, glycosites, and intact glycopeptides from complex biological or clinical samples. 34232571 6 64 gly glycopeptides 959:971 arg2 intact glycopeptides intact glycopeptides glycopeptides Together, our workflow enables a high-throughput enrichment of glycans, glycosites, and intact glycopeptides from complex biological or clinical samples. 34645615 8 85 gly 2,6-sialylation 1543:1557 arg1 triantennary glycans triantennary glycans The strongest association for prevalent cardiovascular disease was a high level of bisection on a group of diantennary glycans (A2FS0B; OR=1.38, p=1.34×10-11), while for prevalent nephropathy the increase in 2,6-sialylation on triantennary glycans was most pronounced (A3E; OR=1.28, p=9.70×10-6). 29577901 4 21 gly peptide 688:694 arg1 a novel O-GlcNAc modified peptide 20LWKPGAQDASSQAQGGSSCILRE42 a novel O-GlcNAc modified peptide 20LWKPGAQDASSQAQGGSSCILRE42 In this study, we report that human LXRα is O-GlcNAc modified in its N-terminal domain (NTD) by identifying a specific O-GlcNAc site S49 and a novel O-GlcNAc modified peptide 20LWKPGAQDASSQAQGGSSCILRE42. 30471266 10 62 gly glycoproteins 1482:1494 arg1 glycoproteins glycoproteins Fterm glycoproteins CCs encircle the ACCs and contain microvilli, small endocytic vesicles and notably a large numbers of adhesive granules that, according to element analysis and histochemistry, contain glycoproteins. 34341430 1 51 gly fucosylation 161:172 arg1 selected fucosyltransferases selected fucosyltransferases In the seminal plasma (n = 118) and serum (n = 90) clusterin (CLU) the fucosylation and the expression of selected fucosyltransferases (FUTs) were analyzed. 31628985 4 12 part_of TPR 694:696 arg1 the TPR domain TPR the TPR domain OGER Site TPR P12270 domain A number of single-point mutations in the TPR domain of human OGT have been associated with the disease Intellectual Disability (ID). 31628985 4 63 part_of OGT 714:716 arg1 the TPR domain OGT the TPR domain PUBTATOR Site OGT 8473 domain A number of single-point mutations in the TPR domain of human OGT have been associated with the disease Intellectual Disability (ID). 34813786 3 27 gly asialoglycoproteins 525:543 arg1 asialoglycoproteins asialoglycoproteins O-glycans Fterm asialoglycoproteins Enzymatic characterization for substrate specificity and kinetic property indicate that cST3Gal-I prefers O-glycans, rather than N-glycan, of asialoglycoproteins as substrates. 30036038 10 11 gly glycoproteins 1428:1440 arg1 glycoproteins glycoproteins Fterm glycoproteins Specific extraction of glycopeptides and glycoproteins containing certain glycans from complex samples was demonstrated. 30036038 10 49 gly glycopeptides 1410:1422 arg2 glycopeptides glycopeptides glycopeptides Specific extraction of glycopeptides and glycoproteins containing certain glycans from complex samples was demonstrated. 30036038 10 38 gly containing 1442:1451 arg1 glycopeptides AND certain glycans glycopeptides certain glycans glycopeptides Specific extraction of glycopeptides and glycoproteins containing certain glycans from complex samples was demonstrated. 28652091 8 59 part_of ASA 1237:1239 arg1 prior decomposition ASA prior decomposition OGER Site ASA P15289 position The decomposition mechanism in the liquid phase involves prior decomposition of ASA, whose residues react with well-identified TIC interaction sites. 30224358 7 13 gly serine-acceptor 1267:1281 arg1 proposed OGT-based or UDP-GlcNAc-based serine-acceptor residue activation mechanisms serine proposed OGT-based or UDP-GlcNAc-based serine-acceptor residue activation mechanisms serine Using serine- or glutamate-containing HCF-1PRO-repeat sequences, we show that proposed OGT-based or UDP-GlcNAc-based serine-acceptor residue activation mechanisms can be circumvented independently, but not when disrupted together. 30224358 7 65 gly serine- 1156:1162 arg1 serine- or glutamate-containing HCF-1PRO-repeat sequences serine serine- or glutamate-containing HCF-1PRO-repeat sequences serine Using serine- or glutamate-containing HCF-1PRO-repeat sequences, we show that proposed OGT-based or UDP-GlcNAc-based serine-acceptor residue activation mechanisms can be circumvented independently, but not when disrupted together. 33340519 6 30 gly hypersialylated 932:946 arg1 hypersialylated or oligomannose-type glycans hypersialylated or oligomannose-type glycans We then probed the impact of ACE2 glycosylation on S binding and revealed a subtle sensitivity with hypersialylated or oligomannose-type glycans slightly impeding the interaction. 29779369 2 15 gly glycoproteins 540:552 arg1 glycoproteins glycoproteins Fterm glycoproteins In this work, we further extend the application of the DiPyrO tag, which provides amine group reactivity, optical detection capability, and improved electrospray sensitivity, to quantify N-linked glycans enzymatically released from glycoproteins in the glycosylamine form. 29779369 2 62 gly released 526:533 arg1 glycoproteins AND N-linked glycans glycoproteins N-linked glycans Fterm glycoproteins In this work, we further extend the application of the DiPyrO tag, which provides amine group reactivity, optical detection capability, and improved electrospray sensitivity, to quantify N-linked glycans enzymatically released from glycoproteins in the glycosylamine form. 34927585 2 18 gly Glycosylation 263:275 arg1 both proteins both proteins Fterm proteins Glycosylation of both proteins is critical for this interaction. 26040437 3 13 gly unglycosylated 533:546 arg1 A 40-kDa unglycosylated precursor A 40-kDa unglycosylated precursor Fterm precursor A 40-kDa unglycosylated precursor and a fully processed, mature form of the HA1 protein migrated around 52 kDa were detected by SDS-PAGE and confirmed by Western blot using H5N1-specific antibody. 31516400 8 35 gly CONCLUSIONS 1438:1448 arg1 //nglycositeatlas.biomarkercenter.org //nglycositeatlas.biomarkercenter.org //nglycositeatlas.biomarkercenter.org CONCLUSIONS The entire human N-glycoproteome database as well as 22 sub-databases associated with individual tissues or body fluids can be downloaded from the N-GlycositeAtlas website at http://nglycositeatlas.biomarkercenter.org. 32269229 6 9 gly N-glycosite 1420:1430 arg2 N-glycosite N-glycosite N-glycosite N-glycosite neighborhoods also showed greater phylogenetic conservation among amniotes, compared with control ordered regions, which in turn were more conserved than disordered control regions. 34341430 6 88 gly glycoproteins 1232:1244 arg1 glycoproteins glycosylation glycoproteins glycosylation Fterm glycoproteins Lack of similarities between levels of examined parameters in blood serum and seminal plasma may suggest the differences in mechanisms leading to glycoproteins glycosylation. 29263309 1 11 gly glycosylated 154:165 arg1 an N-linked glycosylated protein an N-linked glycosylated protein Fterm protein 728 C5a receptor 1 (C5aR1) is a G protein-coupled receptor for C5a and also an N-linked glycosylated protein. 34670086 1 21 gly glycosylation 117:129 arg1 the envelope spike (S) protein the envelope spike (S) protein Fterm protein Understanding the glycosylation of the envelope spike (S) protein of SARS-CoV-2 is important in defining the antigenic surface of this key viral target. 32220931 2 46 gly glycoproteins 316:328 arg1 glycoproteins glycoproteins Fterm glycoproteins This simple modification can dramatically affect the activities and half-lives of glycoproteins, effects that are relevant to understanding the invasiveness of some cancers, development of mAb therapeutics, and the etiology of a congenital glycosylation disorder. 30134155 3 9 gly threonines 378:387 arg1 O-linked β-N-acetylglucosamine serines and threonines O-linked β-N-acetylglucosamine serines and threonines O-linked β-N-acetylglucosamine (O-GlcNAc) is a post-translational modification of serines and threonines that functions as a sensor of cellular nutrients. 30134155 3 29 gly serines 366:372 arg1 O-linked β-N-acetylglucosamine serines and threonines O-linked β-N-acetylglucosamine serines and threonines O-linked β-N-acetylglucosamine (O-GlcNAc) is a post-translational modification of serines and threonines that functions as a sensor of cellular nutrients. 32462590 4 19 gly N-glycopeptides 723:737 arg2 N-glycopeptides N-glycopeptides N-glycopeptides Current proteomic workflows are not optimized for the enrichment, identification and characterization of N-glycopeptides. 34631661 7 0 gly N-glycosites 1390:1401 arg2 the 22 predicted N-glycosites S proteins N-glycosites PUBTATOR S proteins 43740568 N-glycosites We identified 21 and 19 out of the 22 predicted N-glycosites of the SARS-CoV-2 S proteins produced in CHO and HEK, respectively. 30581149 4 43 part_of containing 668:677 arg1 HHM 1 AND one or two N-glycosylation sites HHM 1 one or two N-glycosylation sites OGER Site HHM 1 Q16560 sites HHM 1 and HHM 2 containing one or two N-glycosylation sites were expressed in baculovirus-infected High-Five™ insect cells and a non-glycosylated version (HHM 0) was obtained by mutating the glycosylation motif. 30793403 2 35 gly addition 286:293 arg1 proteins-is proteins-is a addition Fterm proteins-is a O-GlcNAcylation-the addition of a single sugar residue (O-linked β-N-acetylglucosamine) on proteins-is a posttranslational modification that acts as a cellular nutrient sensor and likely modulates the function of oocyte proteins. 30158774 1 59 gly glycoproteins 152:164 arg1 high-molecular-weight glycoproteins glycoproteins a high O-linked carbohydrate content Fterm glycoproteins BACKGROUND Mucins are high-molecular-weight glycoproteins with a high O-linked carbohydrate content, which are synthesized by many secretory epithelial cells as membrane-bound and/or secreted products. 31336133 6 23 gly O-glycosylation 948:962 arg2 a single O-glycosylation site a single O-glycosylation site site The aim of the present study was to compare the influence of ANITVNITV peptide fusion on the physicochemical, biological and pharmacokinetic properties of native hIFN-α2b (IFNwt), which contains a single O-glycosylation site, and a hyperglycosylated variant (IFN4N), that bears, in addition, 4 N-linked glycans. 31336133 6 29 gly hyperglycosylated 976:992 arg1 a hyperglycosylated variant a hyperglycosylated variant Fterm variant The aim of the present study was to compare the influence of ANITVNITV peptide fusion on the physicochemical, biological and pharmacokinetic properties of native hIFN-α2b (IFNwt), which contains a single O-glycosylation site, and a hyperglycosylated variant (IFN4N), that bears, in addition, 4 N-linked glycans. 32544330 2 2 gly glycosylation 283:295 arg1 Ribonuclease 1 Ribonuclease 1 asparagine residues 34, 76, and 88 PUBTATOR Ribonuclease 1 P07998 asparagine residues 34, 76, and 88 Ribonuclease 1 (RNase 1), which is the human homologue of the archetypal enzyme RNase A, undergoes N-linked glycosylation at asparagine residues 34, 76, and 88. 32544330 2 2 gly glycosylation 283:295 arg1 RNase 1 RNase 1 asparagine residues 34, 76, and 88 PUBTATOR RNase 1 6035 asparagine residues 34, 76, and 88 Ribonuclease 1 (RNase 1), which is the human homologue of the archetypal enzyme RNase A, undergoes N-linked glycosylation at asparagine residues 34, 76, and 88. 31002132 10 18 part_of miR-485-5p 1404:1413 arg1 one miR-485-5p target sequences miR-485 one miR-485-5p target sequences PUBTATOR Site miR-485 Q8WY64 sequences The bioinformatic analysis predicted that the 3' untranslated region (UTR) of OGT contains one miR-485-5p target sequences. 31002132 10 37 part_of OGT 1387:1389 arg1 the 3' untranslated region OGT the 3' untranslated region PUBTATOR Site OGT 8473 region The bioinformatic analysis predicted that the 3' untranslated region (UTR) of OGT contains one miR-485-5p target sequences. 31002132 10 15 part_of contains 1391:1398 arg1 the 3' untranslated region AND one miR-485-5p target sequences the 3' untranslated region one miR-485-5p target sequences sequences The bioinformatic analysis predicted that the 3' untranslated region (UTR) of OGT contains one miR-485-5p target sequences. 31129958 5 41 gly peptide 911:917 arg1 complete, biologically relevant glycan and peptide sequences complete, biologically relevant glycan and peptide sequences DecoyDeveloper has a simple user interface and is capable of producing large sets of decoys containing complete, biologically relevant glycan and peptide sequences. 31561469 10 43 gly glycoprotein 1146:1157 arg1 glycoprotein VI (GPVI) glycoprotein VI (GPVI) Fterm glycoprotein Platelets interact with collagen via receptors for collagen, glycoprotein VI (GPVI), and α2β1 integrin. 29030255 6 0 part_of CA 737:738 arg1 other fish CA VI-like sequences CA VI other fish CA VI-like sequences PUBTATOR Site CA VI 765 sequences It also shows 63%-77% identity with other fish CA VI-like sequences (zebrafish, Asian arowana, salmon, and large yellow croaker). 29030255 6 59 part_of VI-like 740:746 arg1 other fish CA VI-like sequences CA VI other fish CA VI-like sequences PUBTATOR Site CA VI 765 sequences It also shows 63%-77% identity with other fish CA VI-like sequences (zebrafish, Asian arowana, salmon, and large yellow croaker). 31516090 0 38 part_of S 112:112 arg1 S protein transmembrane domains S protein S protein transmembrane domains OGER Site S protein P04004 domains Occult HBV infection in Chinese blood donors: role of N-glycosylation mutations and amino acid substitutions in S protein transmembrane domains. 31516090 0 51 part_of protein 114:120 arg1 S protein transmembrane domains S protein S protein transmembrane domains OGER Site S protein P04004 domains Occult HBV infection in Chinese blood donors: role of N-glycosylation mutations and amino acid substitutions in S protein transmembrane domains. 30032777 0 36 gly glycopeptides 124:136 arg2 glycopeptides glycopeptides glycopeptides Facile preparation of microporous organic polymers functionalized macroporous hydrophilic resin for selective enrichment of glycopeptides. 32710848 3 45 gly glycoproteins 720:732 arg1 glycoproteins glycoproteins We used CRISPR-Cas9 gene targeting to generate a library of 3D organotypic skin tissues that selectively differ in their capacity to produce glycan structures on the main types of N- and O-linked glycoproteins and glycolipids. 31913636 1 46 gly glycoproteins 154:166 arg1 glycoproteins glycoproteins Fterm glycoproteins In cells, asparagine/N-linked glycans are added to glycoproteins cotranslationally, in an attachment process that supports proper folding of the nascent polypeptide. 32039582 5 69 gly glycoproteins 687:699 arg1 isolated cell membrane glycoproteins isolated cell membrane glycoproteins Fterm glycoproteins O-Glycans were chemically released from isolated cell membrane glycoproteins following N-glycan and lipid/glycolipid removal by PNGase F digestion and Folch extraction, respectively. 32039582 5 72 gly released 650:657 arg1 isolated cell membrane glycoproteins AND O-Glycans isolated cell membrane glycoproteins O-Glycans Fterm glycoproteins O-Glycans were chemically released from isolated cell membrane glycoproteins following N-glycan and lipid/glycolipid removal by PNGase F digestion and Folch extraction, respectively. 31931833 7 55 gly glycosite 1434:1442 arg2 the glycosite Asn297 the glycosite Asn297 glycosite Asn297 When the Endo-T was expressed in Golgi, the secreted IgG1-Fc region was efficiently produced with almost completely truncated N-glycans and the N-GlcNAc modification on the glycosite Asn297 was confirmed via Mass Spectrometry. 29621585 5 35 gly glycosylation 689:701 arg2 two putative N-linked glycosylation sites two putative N-linked glycosylation sites sites The extracellular domain of cnBST-2 has two putative N-linked glycosylation sites and three potential dimerization sites. 30962950 2 20 gly glycoproteins 422:434 arg1 recurrence-related N-linked glycoproteins recurrence-related N-linked glycoproteins Fterm glycoproteins A method for quantitating N-glycoproteome was used to screen for, and identify, recurrence-related N-linked glycoproteins from 100 serum samples taken from patients with early-stage HCC. 34687015 2 12 gly galactose 323:331 arg1 residues residues residues The asparagine 297 (Asn297) of IgG heavy chains is decorated by a diantennary glycan bearing a number of galactose and sialic acid residues on the branches ranging from 0 to 2. 29491151 2 83 gly glycoproteins 612:624 arg1 250 patient-derived gp120 envelope glycoproteins 250 patient-derived gp120 envelope glycoproteins Fterm glycoproteins In an attempt to identify the transmitted founder (TF) virus and differentiate the biological properties and infectious potential of the TF virus from those of the population of the early transmitted viruses, 250 patient-derived gp120 envelope glycoproteins were cloned in pMN-K7-Luc-IRESs-NefΔgp120 to obtain chimeric viruses. 30946947 5 62 gly glycoprotein 663:674 arg1 a 69-kDa (SDS-PAGE) monomeric glycoprotein a 69-kDa (SDS-PAGE) monomeric glycoprotein Fterm glycoprotein Purified Hyal-Ba is a 69-kDa (SDS-PAGE) monomeric glycoprotein with an N-terminal amino acid sequence sharing high identity with homologous snake venom hyaluronidases. 31826991 13 31 gly head 2239:2242 arg1 influenza type A virus (IAV) through interaction with hemagglutinin (HA) head region high-mannose glycan(s) influenza type A virus (IAV) through interaction with hemagglutinin (HA) head region high-mannose glycan(s) Lung surfactant protein D (SP-D), a key factor in first-line innate immunity defense, removes influenza type A virus (IAV) through interaction with hemagglutinin (HA) head region high-mannose glycan(s). 31826991 13 53 gly region 2244:2249 arg1 influenza type A virus (IAV) through interaction with hemagglutinin (HA) head region high-mannose glycan(s) influenza type A virus (IAV) through interaction with hemagglutinin (HA) head region high-mannose glycan(s) Lung surfactant protein D (SP-D), a key factor in first-line innate immunity defense, removes influenza type A virus (IAV) through interaction with hemagglutinin (HA) head region high-mannose glycan(s). 32030495 3 16 gly N-glycopeptide 940:953 arg2 546 intact N-glycopeptide IDs 546 intact N-glycopeptide IDs N-glycopeptide The N-glycan moieties in 546 intact N-glycopeptide IDs were identified with more than one structure-diagnostic fragment ions where multiple linkage structures exist for each of the monosaccharide compositions. 30713024 1 3 gly found 178:182 arg2 Ser AND O-Linked N-acetylglucosamine Ser O-Linked N-acetylglucosamine Ser O-Linked N-acetylglucosamine (O-GlcNAc) is an abundant posttranslationalmonosaccaride-modification found on Ser or Thr residues of intracellular proteins in most eukaryotes. 30713024 1 3 gly found 178:182 arg2 Thr AND O-Linked N-acetylglucosamine Thr O-Linked N-acetylglucosamine Thr residues O-Linked N-acetylglucosamine (O-GlcNAc) is an abundant posttranslationalmonosaccaride-modification found on Ser or Thr residues of intracellular proteins in most eukaryotes. 30375453 0 45 part_of Willebrand 54:63 arg1 von Willebrand Factor A2 Domain Stabilize von Willebrand Factor von Willebrand Factor A2 Domain PUBTATOR Stabilize von Willebrand Factor 7450 Long-ranged Protein-glycan Interactions Stabilize von Willebrand Factor A2 Domain from Mechanical Unfolding. 30375453 0 50 part_of von 50:52 arg1 von Willebrand Factor A2 Domain Stabilize von Willebrand Factor von Willebrand Factor A2 Domain PUBTATOR Stabilize von Willebrand Factor 7450 Long-ranged Protein-glycan Interactions Stabilize von Willebrand Factor A2 Domain from Mechanical Unfolding. 30375453 0 61 part_of Factor 65:70 arg1 von Willebrand Factor A2 Domain Stabilize von Willebrand Factor von Willebrand Factor A2 Domain PUBTATOR Stabilize von Willebrand Factor 7450 Long-ranged Protein-glycan Interactions Stabilize von Willebrand Factor A2 Domain from Mechanical Unfolding. 34885895 2 1 gly glycosylation 330:342 arg2 glycosylation sites glycosylation sites sites Computational prediction approaches serve as complementary methods for the characterization of glycosylation sites. 30683699 2 62 gly sialylated 432:441 arg1 sialylated glycans sialylated glycans A population of Fcs bearing sialylated glycans has been identified as contributing to this functionality, and high levels of sialylation also lead to longer serum retention times advantageous for therapy. 31254563 4 56 gly N1125 683:687 arg1 a single N-linked, biantennary, complex glycan N1125 a single N-linked, biantennary, complex glycan N1125 Mass spectrometric analysis show a single N-linked, biantennary, complex glycan at N1125. 31231989 2 22 gly variants 292:299 arg1 a UDP-galactose transporter variants a UDP-galactose transporter Fterm variants De novo variants in the SLC35A2 gene, which encodes a UDP-galactose transporter, are responsible for CDGs with an X-linked dominant manner. 33664400 6 42 part_of protein 904:910 arg1 specific regions protein specific regions Fterm Site protein regions Our findings show (for the first time) how glycosylation can alter receptor affinity by shielding specific regions of the host protein, thereby promoting weaker binding modes. 34192331 2 30 gly N-glycosylation 263:277 arg1 this site this site site Previous studies have shown that N-glycosylation of this site is a critical mediator of the antibody's effector functions, such as antibody-dependent cellular cytotoxicity. 33581334 2 55 gly O-glycoprotein 360:373 arg1 emerging O-glycoprotein data emerging O-glycoprotein data Fterm O-glycoprotein However, the lack of updated and convenient databases deters the storage of and reference to emerging O-glycoprotein data. 30905461 1 12 gly glycoproteins 134:146 arg1 proteins proteins Fterm proteins Most of proteins in human blood circulation are glycoproteins with one or more covalently linked N- or O-linked glycans. 30905461 1 59 gly glycoproteins 134:146 arg1 O-linked glycans glycoproteins O-linked glycans Fterm glycoproteins Most of proteins in human blood circulation are glycoproteins with one or more covalently linked N- or O-linked glycans. 34687007 7 13 gly glycoprotein 1300:1311 arg1 glycoprotein purification glycoprotein purification Fterm glycoprotein Lectin chromatography is a historical approach for the analysis of lectin-carbohydrate interactions and glycoprotein purification but is still being used as a valuable tool in Igs purification and glycan analysis. 27690717 2 32 gly glycosylation 332:344 arg2 multiple N-linked glycosylation sites multiple N-linked glycosylation sites sites Although multiple N-linked glycosylation sites in the extracellular loop of β subunits have been identified, very little is known about how glycosylation influences the structure and function of BK channels. 33045166 1 9 gly glycopeptides 252:264 arg2 homogeneous human E-cadherin N-linked glycopeptides homogeneous human E-cadherin N-linked glycopeptides glycopeptides We report herein an efficient chemical synthesis of homogeneous human E-cadherin N-linked glycopeptides consisting of a heptapeptide sequence adjacent to the Asn-633 N-glycosylation site with representative N-glycan structures, including a conserved trisaccharide, a core-fucosylated tetrasaccharide, and a complex-type biantennary octasaccharide. 33045166 1 19 gly N-glycosylation 328:342 arg2 the Asn-633 N-glycosylation site the Asn-633 N-glycosylation site site We report herein an efficient chemical synthesis of homogeneous human E-cadherin N-linked glycopeptides consisting of a heptapeptide sequence adjacent to the Asn-633 N-glycosylation site with representative N-glycan structures, including a conserved trisaccharide, a core-fucosylated tetrasaccharide, and a complex-type biantennary octasaccharide. 33045166 1 22 gly site 344:347 arg1 a core-fucosylated tetrasaccharide site a core-fucosylated tetrasaccharide site We report herein an efficient chemical synthesis of homogeneous human E-cadherin N-linked glycopeptides consisting of a heptapeptide sequence adjacent to the Asn-633 N-glycosylation site with representative N-glycan structures, including a conserved trisaccharide, a core-fucosylated tetrasaccharide, and a complex-type biantennary octasaccharide. 33045166 1 22 gly site 344:347 arg1 a complex-type biantennary octasaccharide site a complex-type biantennary octasaccharide site We report herein an efficient chemical synthesis of homogeneous human E-cadherin N-linked glycopeptides consisting of a heptapeptide sequence adjacent to the Asn-633 N-glycosylation site with representative N-glycan structures, including a conserved trisaccharide, a core-fucosylated tetrasaccharide, and a complex-type biantennary octasaccharide. 33045166 1 22 gly site 344:347 arg1 a conserved trisaccharide site a conserved trisaccharide site We report herein an efficient chemical synthesis of homogeneous human E-cadherin N-linked glycopeptides consisting of a heptapeptide sequence adjacent to the Asn-633 N-glycosylation site with representative N-glycan structures, including a conserved trisaccharide, a core-fucosylated tetrasaccharide, and a complex-type biantennary octasaccharide. 33045166 1 22 gly site 344:347 arg1 representative N-glycan structures site representative N-glycan structures site We report herein an efficient chemical synthesis of homogeneous human E-cadherin N-linked glycopeptides consisting of a heptapeptide sequence adjacent to the Asn-633 N-glycosylation site with representative N-glycan structures, including a conserved trisaccharide, a core-fucosylated tetrasaccharide, and a complex-type biantennary octasaccharide. 33045166 1 24 gly core-fucosylated 429:444 arg1 a core-fucosylated tetrasaccharide a core-fucosylated tetrasaccharide We report herein an efficient chemical synthesis of homogeneous human E-cadherin N-linked glycopeptides consisting of a heptapeptide sequence adjacent to the Asn-633 N-glycosylation site with representative N-glycan structures, including a conserved trisaccharide, a core-fucosylated tetrasaccharide, and a complex-type biantennary octasaccharide. 29339411 9 28 gly Y1-glycopeptide 1659:1673 arg2 pseudo Y1-glycopeptide fragment ions pseudo Y1-glycopeptide fragment ions Y1-glycopeptide This effect resulted in pseudo Y1-glycopeptide fragment ions that indicated the presence of additional glycosylation sites on a single glycopeptide. 29339411 9 54 gly glycopeptide 1763:1774 arg2 a single glycopeptide a single glycopeptide glycopeptide This effect resulted in pseudo Y1-glycopeptide fragment ions that indicated the presence of additional glycosylation sites on a single glycopeptide. 29339411 9 95 gly glycosylation 1731:1743 arg2 additional glycosylation sites additional glycosylation sites sites This effect resulted in pseudo Y1-glycopeptide fragment ions that indicated the presence of additional glycosylation sites on a single glycopeptide. 32699088 2 63 part_of epitopes 350:357 arg1 hemagglutinin hemagglutinin epitopes Fterm hemagglutinin For enveloped viruses, such as the influenza A virus (IAV), large N-linked glycans can also be added to prevent access to epitopes on the surface antigens hemagglutinin (HA or H) and neuraminidase (NA or N). 32699088 2 63 part_of epitopes 350:357 arg1 neuraminidase neuraminidase epitopes PUBTATOR neuraminidase 4758 For enveloped viruses, such as the influenza A virus (IAV), large N-linked glycans can also be added to prevent access to epitopes on the surface antigens hemagglutinin (HA or H) and neuraminidase (NA or N). 31133022 8 47 gly bisialylated 1558:1569 arg1 biantennary bisialylated nonfucosylated N-glycan or sialyl Lewis X-containing glycan structures biantennary bisialylated nonfucosylated N-glycan or sialyl Lewis X-containing glycan structures Furthermore, specific binding of the lectin module with biantennary bisialylated nonfucosylated N-glycan or sialyl Lewis X-containing glycan structures on GPI-APs triggers substantial conformational changes in the aerolysin module, which interacts with SM, ultimately resulting in the formation of a membrane-bound oligomer in lipid rafts. 31133022 8 109 gly nonfucosylated 1571:1584 arg1 biantennary bisialylated nonfucosylated N-glycan or sialyl Lewis X-containing glycan structures biantennary bisialylated nonfucosylated N-glycan or sialyl Lewis X-containing glycan structures Furthermore, specific binding of the lectin module with biantennary bisialylated nonfucosylated N-glycan or sialyl Lewis X-containing glycan structures on GPI-APs triggers substantial conformational changes in the aerolysin module, which interacts with SM, ultimately resulting in the formation of a membrane-bound oligomer in lipid rafts. 31281932 3 5 gly proteins 433:440 arg1 appropriate terminal sialic acids proteins appropriate terminal sialic acids Fterm proteins Expression systems to produce authentically fully glycosylated therapeutic proteins with appropriate terminal sialic acids are not yet perfected. 31281932 3 14 gly glycosylated 408:419 arg1 fully glycosylated therapeutic proteins fully glycosylated therapeutic proteins Fterm proteins Expression systems to produce authentically fully glycosylated therapeutic proteins with appropriate terminal sialic acids are not yet perfected. 29267884 5 4 gly glycosylation 946:958 arg2 known glycosylation sites known glycosylation sites sites The data made available via this tool will be regularly updated to improve the coverage of known glycosylation sites and datasets, reflecting the advances currently being made in characterization of glycoproteomes. 34450331 2 65 gly deglycosylation 289:303 arg1 N-glycans N-glycans The method measures the differential rate of deglycosylation of N-glycans on natively folded proteins by the common peptide:N-glycosidase F (PNGase F) enzyme which in turn informs on their spatial presentation and solvent exposure on the protein surface hence ultimately the glycoprotein conformation. 34450331 2 84 gly glycoprotein 519:530 arg1 the glycoprotein conformation the glycoprotein conformation Fterm glycoprotein The method measures the differential rate of deglycosylation of N-glycans on natively folded proteins by the common peptide:N-glycosidase F (PNGase F) enzyme which in turn informs on their spatial presentation and solvent exposure on the protein surface hence ultimately the glycoprotein conformation. 33666655 3 42 gly glycoproteins 691:703 arg1 red blood cell glycoproteins red blood cell glycoproteins Fterm glycoproteins Here, we compiled results obtained through lectin arrays, glycan arrays, and mass spectrometry to interrogate red blood cell glycoproteins and glycan-binding proteins found in the plasma of healthy individuals and patients with sickle cell disease and sickle cell trait. 27643667 3 33 part_of has 199:201 arg1 MPO AND five N-linked glycosylation sites MPO five N-linked glycosylation sites PUBTATOR Site MPO 4353 sites MPO has five N-linked glycosylation sites on its heavy chains. 34279906 0 63 gly Glycans 87:93 arg1 Intact Glycoproteins Glycoproteins Glycans Fterm Glycoproteins Native Mass Spectrometry Meets Glycomics: Resolving Structural Detail and Occupancy of Glycans on Intact Glycoproteins. 30032777 4 26 part_of MOP 657:659 arg1 The chemical composition MAR@MOP The chemical composition OGER Site MAR@MOP P35372 position The chemical composition of MAR@MOP was confirmed by Fourier-transform infrared spectroscopy, 13C NMR and element analysis. 30850477 5 92 gly N-glycosylation 553:567 arg2 N-glycosylation sites N-glycosylation sites sites The aim of the current study is to establish patterns of N-glycosylation sites in Ab V regions of naive and memory B cell subsets. 34717971 1 8 gly glycosylation 109:121 arg1 viral glycoproteins viral glycoproteins Fterm glycoproteins Extensive glycosylation of viral glycoproteins is a key feature of the antigenic surface of viruses and yet glycan processing can also be influenced by the manner of their recombinant production. 34717971 1 42 gly glycoproteins 132:144 arg1 viral glycoproteins viral glycoproteins Fterm glycoproteins Extensive glycosylation of viral glycoproteins is a key feature of the antigenic surface of viruses and yet glycan processing can also be influenced by the manner of their recombinant production. 33154157 5 5 part_of MANEA 928:932 arg1 the catalytic domain MANEA the catalytic domain OGER Site MANEA Q5SRI9 domain Here we report the structure of the catalytic domain of human MANEA and complexes with substrate-derived inhibitors, which provide insight into dynamic loop movements that occur on substrate binding. 32022078 6 24 gly glycopeptides 821:833 arg2 glycopeptides glycopeptides glycopeptides First, glycopeptides bearing the most common glycans can be identified from EThcD and/or HCD data. 28679762 8 5 part_of AAVR 1580:1583 arg1 PKD domain AAVR PKD domain PUBTATOR Site AAVR 79932 domain In contrast, AAV5 interacts primarily through the first, most membrane-distal, PKD domain (PKD1) of AAVR to promote transduction. 28679762 8 128 part_of PKD 1559:1561 arg1 PKD domain PKD PKD domain OGER Site PKD Q15139 domain In contrast, AAV5 interacts primarily through the first, most membrane-distal, PKD domain (PKD1) of AAVR to promote transduction. 30633504 7 47 gly N-glycosylation 1192:1206 arg1 a human secretory enzyme a human secretory enzyme Fterm enzyme These data provide new insight on the biological role of the N-glycosylation of a human secretory enzyme. 31561469 9 40 part_of factor 1001:1006 arg1 The von Willebrand factor (vWF) A1-domain von Willebrand factor The von Willebrand factor (vWF) A1-domain OGER Site von Willebrand factor P04275 A1-domain The von Willebrand factor (vWF) A1-domain, which harbors the binding site for GPIb, is not hydrolyzed. 31892091 2 56 part_of rhEPO 418:422 arg1 The O126-glycopeptide rhEPO The O126-glycopeptide OGER Site rhEPO P29676 O126-glycopeptide The O126-glycopeptide of rhEPO was used to optimize the methodology given its importance in quality control of biopharmaceuticals and doping analysis. 30487799 10 20 gly glycosites 1697:1706 arg2 individual glycosites individual glycosites glycosites These results indicate that grass carp serum IgM exhibits unique N-glycan features and highly processed oligosaccharides attached to individual glycosites. 30487799 10 31 gly attached 1674:1681 arg2 individual glycosites AND highly processed oligosaccharides individual glycosites highly processed oligosaccharides glycosites These results indicate that grass carp serum IgM exhibits unique N-glycan features and highly processed oligosaccharides attached to individual glycosites. 32699088 12 60 gly head 2246:2249 arg1 the head domain glycans the head domain glycans It also revealed that the head domain glycans affect N1 stability more than N2, suggesting N2 is more accommodating to glycan additions. 32699088 12 98 gly domain 2251:2256 arg1 the head domain glycans the head domain glycans It also revealed that the head domain glycans affect N1 stability more than N2, suggesting N2 is more accommodating to glycan additions. 31665542 4 9 gly glycoprotein 664:675 arg1 a glycoprotein a glycoprotein Fterm glycoprotein Lectin affinity enriched a glycoprotein in cells grown at 30 °C under ample substrate availability, which was identified as the S-layer protein Mpsy_1486. 31661879 2 65 gly N-glycosylation 392:406 arg1 protein biogenesis protein biogenesis Fterm protein Consistent with the important role of N-glycosylation in protein biogenesis, DHDDS mutations result in human diseases. 29967251 2 25 part_of EGFR 598:601 arg1 MET EGFR MET PUBTATOR AminoAcid EGFR 1956 MET We hypothesized that inhibition of protein N-linked glycosylation, an endoplasmic reticulum co- and posttranslational modification crucial for RTK maturation and activation, could provide a new therapeutic approach for glioma radiosensitization.Experimental Design: We investigated the effects of a small-molecule inhibitor of the oligosaccharyltransferase (NGI-1) on EGFR family receptors, MET, PDGFR, and FGFR1. 30032777 6 4 gly glycopeptides 1017:1029 arg2 811 unique glycopeptides sequence 811 unique glycopeptides sequence glycopeptides sequence Furthermore, 879 unique N-glycosylation sites in 811 unique glycopeptides sequence mapped to 516 N-glycosylated proteins were identified in three replicate analyses of proteins extracted from mouse liver. 30032777 6 51 gly N-glycosylation 981:995 arg2 879 unique N-glycosylation sites 879 unique N-glycosylation sites sites Furthermore, 879 unique N-glycosylation sites in 811 unique glycopeptides sequence mapped to 516 N-glycosylated proteins were identified in three replicate analyses of proteins extracted from mouse liver. 30032777 6 74 gly 516 N-glycosylated 1050:1067 arg1 516 N-glycosylated proteins 516 N-glycosylated proteins Fterm proteins Furthermore, 879 unique N-glycosylation sites in 811 unique glycopeptides sequence mapped to 516 N-glycosylated proteins were identified in three replicate analyses of proteins extracted from mouse liver. 28939828 5 27 part_of thioredoxin-like 758:773 arg1 four thioredoxin-like domains thioredoxin four thioredoxin-like domains PUBTATOR Site thioredoxin 7295 domains Our crystallographic data demonstrate that the sensor region is composed of four thioredoxin-like domains followed by a β-rich domain, which are arranged into a C-shaped structure with a large central cavity, while the C-terminal catalytic domain undergoes a ligand-dependent conformational alteration. 31266872 4 30 part_of epitope 900:906 arg1 HIV-1 Env HIV-1 Env epitope Cterm HIV-1 Env Amino acid substitutions in the V2 loop of SIVmac239 corresponding to the epitope for PGT145 in HIV-1 Env modulate sensitivity to this antibody. 33806155 5 17 part_of origin 1000:1005 arg1 the two ectodomains origin the two ectodomains Fterm Site origin ectodomains In total 25 O-glycosites were identified, with similar patterns in the two ectodomains of different cell origin, and a distinct pattern of the monomeric RBD. 34128680 1 6 gly used 289:292 arg2 short synthetic peptides short synthetic peptides peptides Owing to their biocompatibility and biodegradability, short synthetic peptides that self-assemble into elongated β-sheet fibers (i.e., peptide nanofibers) are widely used to create biomaterials for diverse medical and biotechnology applications. 30980499 7 74 part_of N-glycoproteins 896:910 arg1 318 identified glycosylation sites N-glycoproteins 318 identified glycosylation sites Fterm Site N-glycoproteins sites In total, 708 proteins were identified by mass spectrometry in human TDM, of which 208 were N-glycoproteins with 318 identified glycosylation sites. 31196789 5 30 gly sites 645:649 arg1 Three putative N-glycosylation sites Three putative N-glycosylation sites sites Three putative N-glycosylation sites (N293, N313, and N454) were then predicted in Lcc9 and substituted to evaluate their roles in its specific activity. 31196789 5 39 gly N-glycosylation 629:643 arg2 Three putative N-glycosylation sites Three putative N-glycosylation sites sites Three putative N-glycosylation sites (N293, N313, and N454) were then predicted in Lcc9 and substituted to evaluate their roles in its specific activity. 31196789 5 30 gly sites 645:649 arg1 N454 N293, N313, and N454 N293, N313, and N454 Three putative N-glycosylation sites (N293, N313, and N454) were then predicted in Lcc9 and substituted to evaluate their roles in its specific activity. 31196789 5 30 gly sites 645:649 arg1 N293 N293, N313, and N454 N293, N313, and N454 Three putative N-glycosylation sites (N293, N313, and N454) were then predicted in Lcc9 and substituted to evaluate their roles in its specific activity. 31196789 5 30 gly sites 645:649 arg1 N293 N293, N313, and N454 N293, N313, and N454 Three putative N-glycosylation sites (N293, N313, and N454) were then predicted in Lcc9 and substituted to evaluate their roles in its specific activity. 31196789 5 39 gly N-glycosylation 629:643 arg2 N293 N293, N313, and N454 N293, N313, and N454 Three putative N-glycosylation sites (N293, N313, and N454) were then predicted in Lcc9 and substituted to evaluate their roles in its specific activity. 31196789 5 39 gly N-glycosylation 629:643 arg2 N454 N293, N313, and N454 N293, N313, and N454 Three putative N-glycosylation sites (N293, N313, and N454) were then predicted in Lcc9 and substituted to evaluate their roles in its specific activity. 31196789 5 39 gly N-glycosylation 629:643 arg2 N454 N293, N313, and N454 N293, N313, and N454 Three putative N-glycosylation sites (N293, N313, and N454) were then predicted in Lcc9 and substituted to evaluate their roles in its specific activity. 34110173 1 42 gly glycoproteins 132:144 arg1 therapeutic glycoproteins therapeutic glycoproteins Fterm glycoproteins The characterization of therapeutic glycoproteins is challenging due to the structural heterogeneity of the therapeutic protein glycosylation. 29745666 2 33 gly derived 430:436 arg1 glycoproteins AND N-glycans glycoproteins N-glycans Fterm glycoproteins Efficient protein/glycoprotein extraction is a crucial step in the preparation of N-glycans derived from glycoproteins prior to LC-MS analysis. 29745666 2 49 gly protein/glycoprotein 348:367 arg1 Efficient protein/glycoprotein extraction Efficient protein/glycoprotein extraction Fterm protein/glycoprotein Efficient protein/glycoprotein extraction is a crucial step in the preparation of N-glycans derived from glycoproteins prior to LC-MS analysis. 29745666 2 63 gly glycoproteins 443:455 arg1 glycoproteins glycoproteins Fterm glycoproteins Efficient protein/glycoprotein extraction is a crucial step in the preparation of N-glycans derived from glycoproteins prior to LC-MS analysis. 30682623 1 30 gly glycosylation 129:141 arg1 several therapeutic proteins several therapeutic proteins Fterm proteins N-linked glycosylation affects the potency, safety, immunogenicity, and pharmacokinetic clearance of several therapeutic proteins including monoclonal antibodies. 32171833 3 37 gly glycosylated 441:452 arg1 glycosylated serum protein glycosylated serum protein Fterm protein Their effects on body weight, fasting blood glucose (FBG), glycosylated serum protein (GSP), serum insulin levels (HOMA-IR), blood lipids (including total cholesterol (TC), triglyceride (TG), low-density lipoprotein cholesterol (LDL-c), and high-density lipoprotein cholesterol (HDL-c)) were tested. 34192331 8 55 gly sialylated 1379:1388 arg1 a sialylated penta-antennary structure a sialylated penta-antennary structure Among the IgGs produced by these methods, the largest N-glycan attached was a bisecting N-acetylglucosamine containing a sialylated penta-antennary structure. 34770808 4 54 gly glycoproteins 726:738 arg1 the glycoproteins the glycoproteins Fterm glycoproteins To achieve the profile information of these complex oligosaccharides, linked by asparagine to hIgG in the blood, the glycoproteins of the samples needed to be cleaved, labelled, and purified with sufficient yield and selectivity. 34813786 1 51 gly sialyltransferase 123:139 arg1 An invertebrate sialyltransferase, cST3Gal-I sialyltransferase An invertebrate sialyltransferase, cST3Gal-I Fterm sialyltransferase An invertebrate sialyltransferase, cST3Gal-I, identified from the sea squirt Ciona savignyi, was functionally characterized in vitro using recombinant enzyme expressed in yeast strains. 32776107 1 14 gly Glycosylation 135:147 arg1 multiple proteins multiple proteins Fterm proteins Glycosylation of multiple proteins via O-linkage is well documented in bacterial species of Neisseria of import to human disease. 31266803 2 78 gly fucosylated 626:636 arg1 fucosylated glycans fucosylated glycans The pneumococcus can degrade a variety of complex glycans, including N- and O-linked glycans, glycosaminoglycans, and carbohydrate antigens, an ability that is tightly linked to the virulence of S. pneumoniae Although S. pneumoniae is known to use a sophisticated enzyme machinery to attack the human glycome, how it copes with fucosylated glycans, which are primarily histo-blood group antigens, is largely unknown. 31357165 3 39 gly glycosylation 414:426 arg2 potential N-linked glycosylation sites potential N-linked glycosylation sites sites Gp120 sequences were obtained from 322 subjects; length, potential N-linked glycosylation sites (PNGs), net-charge (NC) and 179-181tripeptide α4β7-binding-motif of V2 were evaluated. 30042931 6 81 gly glycosylation 1262:1274 arg2 this G1 site this G1 site site Furthermore, the JEV mutants with G1 glycosylation showed enhanced DC-SIGN binding, which may then lead to reduced brain invasion and explain the reason why WT JEV is devoid of this G1 site of glycosylation. 30852271 6 21 part_of protein 1046:1052 arg1 the IBV M protein ectodomain IBV M protein the IBV M protein ectodomain OGER Site IBV M protein P54296 ectodomain Taken together, this study demonstrates that although not essential for replication, glycosylation in the IBV M protein ectodomain plays important roles in activating ER stress, apoptosis and proinflammatory response, and may contribute to the pathogenesis of IBV. 30852271 6 24 part_of M 1044:1044 arg1 the IBV M protein ectodomain IBV M protein the IBV M protein ectodomain OGER Site IBV M protein P54296 ectodomain Taken together, this study demonstrates that although not essential for replication, glycosylation in the IBV M protein ectodomain plays important roles in activating ER stress, apoptosis and proinflammatory response, and may contribute to the pathogenesis of IBV. 30852271 6 37 part_of IBV 1040:1042 arg1 the IBV M protein ectodomain IBV M protein the IBV M protein ectodomain OGER Site IBV M protein P54296 ectodomain Taken together, this study demonstrates that although not essential for replication, glycosylation in the IBV M protein ectodomain plays important roles in activating ER stress, apoptosis and proinflammatory response, and may contribute to the pathogenesis of IBV. 29325746 2 1 gly glycoprotein 317:328 arg1 a high molecular weight (79.4 kDa) monomeric glycoprotein a high molecular weight (79.4 kDa) monomeric glycoprotein Fterm glycoprotein It is a high molecular weight (79.4 kDa) monomeric glycoprotein that contains 2.4% neutral sugars and 58.4% N-linked oligosaccharides and strongly binds to Concanavalin A. 29325746 2 3 gly contains 335:342 arg1 a high molecular weight (79.4 kDa) monomeric glycoprotein AND 2.4% neutral sugars and 58.4% N-linked oligosaccharides a high molecular weight (79.4 kDa) monomeric glycoprotein 2.4% neutral sugars and 58.4% N-linked oligosaccharides Fterm glycoprotein It is a high molecular weight (79.4 kDa) monomeric glycoprotein that contains 2.4% neutral sugars and 58.4% N-linked oligosaccharides and strongly binds to Concanavalin A. 34192331 1 53 gly N-glycosylation 155:169 arg2 Asn297 Asn297 Asn297 Immunoglobulin G (IgG) has a conserved N-glycosylation site at Asn297 in the fragment crystallizable (Fc) region. 34192331 1 53 gly N-glycosylation 155:169 arg2 a conserved N-glycosylation site a conserved N-glycosylation site site Immunoglobulin G (IgG) has a conserved N-glycosylation site at Asn297 in the fragment crystallizable (Fc) region. 33947960 5 28 part_of ErbB2 1164:1168 arg1 ErbB2 N-glycosylation sites ErbB2 ErbB2 N-glycosylation sites PUBTATOR Site ErbB2 2064 sites In-depth mass spectrometry-based glycomic and glycoproteomic analysis of ErbB2's ectodomain disclosed a site-specific glycosylation profile in GC cells, in which the ST6Gal1 sialyltransferase specifically targets ErbB2 N-glycosylation sites occurring within the receptor's trastuzumab-binding domain. 31336250 2 42 gly aglycosylated 474:486 arg1 the aglycosylated Fc region the aglycosylated Fc region region Despite abrogated Fc gamma receptor (FcγR) binding and therapeutic effector function in the absence of N-linked glycosylation at Asn297, the aglycosylated Fc region of IgG antibodies has bioprocessing advantages such as the absence of glycan heterogeneity and simple bacterial antibody production. 30712568 5 7 gly 1:230 1293:1297 arg1 sixteen glycopeptides sixteen glycopeptides glycopeptides Owning to the abundant of ZIC molecules with multi-charge and polar groups on the surface of resulting polymer coating, the Fe3O4@PMSA demonstrated high selectivity for glycopeptides enrichment with IgG digest (twenty glycopeptides identified, S/N ≥ 20) and a mixture of IgG and BSA at the mass ratio of 1:230 (sixteen glycopeptides identified, S/N ≥ 20). 30712568 5 27 gly glycopeptides 1207:1219 arg2 twenty glycopeptides twenty glycopeptides glycopeptides Owning to the abundant of ZIC molecules with multi-charge and polar groups on the surface of resulting polymer coating, the Fe3O4@PMSA demonstrated high selectivity for glycopeptides enrichment with IgG digest (twenty glycopeptides identified, S/N ≥ 20) and a mixture of IgG and BSA at the mass ratio of 1:230 (sixteen glycopeptides identified, S/N ≥ 20). 30712568 5 45 gly digest 1192:1197 arg1 twenty glycopeptides twenty glycopeptides glycopeptides Owning to the abundant of ZIC molecules with multi-charge and polar groups on the surface of resulting polymer coating, the Fe3O4@PMSA demonstrated high selectivity for glycopeptides enrichment with IgG digest (twenty glycopeptides identified, S/N ≥ 20) and a mixture of IgG and BSA at the mass ratio of 1:230 (sixteen glycopeptides identified, S/N ≥ 20). 30712568 5 54 gly glycopeptides 1308:1320 arg2 sixteen glycopeptides sixteen glycopeptides glycopeptides Owning to the abundant of ZIC molecules with multi-charge and polar groups on the surface of resulting polymer coating, the Fe3O4@PMSA demonstrated high selectivity for glycopeptides enrichment with IgG digest (twenty glycopeptides identified, S/N ≥ 20) and a mixture of IgG and BSA at the mass ratio of 1:230 (sixteen glycopeptides identified, S/N ≥ 20). 30712568 5 69 gly glycopeptides 1158:1170 arg2 glycopeptides glycopeptides glycopeptides Owning to the abundant of ZIC molecules with multi-charge and polar groups on the surface of resulting polymer coating, the Fe3O4@PMSA demonstrated high selectivity for glycopeptides enrichment with IgG digest (twenty glycopeptides identified, S/N ≥ 20) and a mixture of IgG and BSA at the mass ratio of 1:230 (sixteen glycopeptides identified, S/N ≥ 20). 27728760 5 36 gly N-glycoproteins 1092:1106 arg1 the surface N-glycoproteins the surface N-glycoproteins Fterm N-glycoproteins The "don't eat me" molecule CD47 and its binding partners thrombospondin-1 (TSP1) and signal regulatory protein α (SIRPα) were among the surface N-glycoproteins detected. 34324829 8 8 gly glycoproteins 1627:1639 arg1 homogeneous N-glycan glycoproteins homogeneous N-glycan glycoproteins Altogether, the experimental data provide pivotal insight into the molecular mechanism of substrate recognition and specificity for GH18 ENGases and further advance our understanding of chemoenzymatic synthesis and remodeling of homogeneous N-glycan glycoproteins. 31450586 9 28 gly glycoproteins 1213:1225 arg1 the altered glycoproteins the altered glycoproteins Fterm glycoproteins Most of the altered glycoproteins were also observed with changes in their global protein expression levels. 31671706 4 43 gly glycosylation 761:773 arg2 The expected N-linked glycosylation sites The expected N-linked glycosylation sites sites The expected N-linked glycosylation sites were successfully identified and site-specific glycopeptide mapping was completed by Integrated GlycoProteome Analyzer (I-GPA) for the resulting raw tandem mass data. 31671706 4 61 gly glycopeptide 828:839 arg2 site-specific glycopeptide mapping site-specific glycopeptide mapping glycopeptide The expected N-linked glycosylation sites were successfully identified and site-specific glycopeptide mapping was completed by Integrated GlycoProteome Analyzer (I-GPA) for the resulting raw tandem mass data. 31176190 8 23 gly glycopeptides 1681:1693 arg2 glycopeptides glycopeptides glycopeptides The devised assay and data handling method determines the accessible substrate concentration as well as the steady state kinetic parameters, KM and kcat, for glycoconjugates of glycopeptides described by the same units as obtained from using small-molecule substrates and thus allows for a direct comparison. 30147262 9 34 part_of epitope 1322:1328 arg1 the five antigenic sites epitope the five antigenic sites sites The neutralization epitope on the five antigenic sites of fusion is conserved in all Egyptian strains of this study except NDV-KFR-B7-2012 which has a substitution at D 170 N in epitope A4. 32269229 0 64 gly glycoproteins 70:82 arg1 human glycoproteins human glycoproteins Fterm glycoproteins Mutually exclusive locales for N-linked glycans and disorder in human glycoproteins. 33581334 5 15 part_of contains 561:568 arg1 OGP AND 9354 O-glycosylation sites OGP 9354 O-glycosylation sites PUBTATOR Site OGP 5016 sites OGP contains 9354 O-glycosylation sites and 11,633 site-specific O-glycans mapping to 2133 O-glycoproteins, and it is the largest O-glycoprotein repository thus far. 29649119 5 27 part_of SV2C 736:739 arg1 the human SV2C luminal domain SV2C the human SV2C luminal domain PUBTATOR Site SV2C 22987 domain We here present a high resolution (2.0 Å) co-crystal structure of the BoNT/A2 receptor-binding domain in complex with the human SV2C luminal domain. 32825463 2 8 gly fucosylated 184:194 arg1 fucosylated glycans fucosylated glycans Alterations in levels of fucosylated glycans are associated with various diseases. 30479582 4 22 part_of IgGs 803:806 arg1 glycopeptides IgGs glycopeptides Cterm Site IgGs glycopeptides Here, we have devised a unified model to predict the retention behavior of glycopeptides from human IgGs and applied this to the analysis of glycopeptides from rabbit IgGs. 30479582 4 44 part_of IgGs 736:739 arg1 glycopeptides IgGs glycopeptides Cterm Site IgGs glycopeptides Here, we have devised a unified model to predict the retention behavior of glycopeptides from human IgGs and applied this to the analysis of glycopeptides from rabbit IgGs. 29772801 12 27 part_of lamin 1471:1475 arg1 potential OGT-association motifs lamin A potential OGT-association motifs PUBTATOR Site lamin A 16905 motifs Interestingly, deletion Δ35, which does not remove the majority of identified O-GlcNAc sites, does remove potential OGT-association motifs (lamin A residues 622⁻625 and 639⁻645) homologous to that in mouse Tet1. 29772801 12 27 part_of lamin 1471:1475 arg1 lamin A residues 622⁻625 and 639⁻645 lamin A lamin A residues 622⁻625 and 639⁻645 PUBTATOR Site lamin A 16905 residues Interestingly, deletion Δ35, which does not remove the majority of identified O-GlcNAc sites, does remove potential OGT-association motifs (lamin A residues 622⁻625 and 639⁻645) homologous to that in mouse Tet1. 29772801 12 65 part_of A 1477:1477 arg1 potential OGT-association motifs lamin A potential OGT-association motifs PUBTATOR Site lamin A 16905 motifs Interestingly, deletion Δ35, which does not remove the majority of identified O-GlcNAc sites, does remove potential OGT-association motifs (lamin A residues 622⁻625 and 639⁻645) homologous to that in mouse Tet1. 29772801 12 65 part_of A 1477:1477 arg1 lamin A residues 622⁻625 and 639⁻645 lamin A lamin A residues 622⁻625 and 639⁻645 PUBTATOR Site lamin A 16905 residues Interestingly, deletion Δ35, which does not remove the majority of identified O-GlcNAc sites, does remove potential OGT-association motifs (lamin A residues 622⁻625 and 639⁻645) homologous to that in mouse Tet1. 29772801 12 69 part_of OGT-association 1447:1461 arg1 potential OGT-association motifs OGT potential OGT-association motifs PUBTATOR Site OGT 8473 motifs Interestingly, deletion Δ35, which does not remove the majority of identified O-GlcNAc sites, does remove potential OGT-association motifs (lamin A residues 622⁻625 and 639⁻645) homologous to that in mouse Tet1. 29772801 12 69 part_of OGT-association 1447:1461 arg1 lamin A residues 622⁻625 and 639⁻645 OGT lamin A residues 622⁻625 and 639⁻645 PUBTATOR Site OGT 8473 residues Interestingly, deletion Δ35, which does not remove the majority of identified O-GlcNAc sites, does remove potential OGT-association motifs (lamin A residues 622⁻625 and 639⁻645) homologous to that in mouse Tet1. 32035902 2 36 gly N-glycosylation 224:238 arg1 its extracellular domain domain domain N-glycosylation of asparagine 130 in its extracellular domain (ECD) enhances calcitonin hormone affinity with the proximal GlcNAc residue mediating this effect through an unknown mechanism. 32035902 2 36 gly N-glycosylation 224:238 arg1 ECD ECD domain OGER ECD O95905 domain N-glycosylation of asparagine 130 in its extracellular domain (ECD) enhances calcitonin hormone affinity with the proximal GlcNAc residue mediating this effect through an unknown mechanism. 32035902 2 36 gly N-glycosylation 224:238 arg1 ECD ECD domain OGER ECD O95905 domain N-glycosylation of asparagine 130 in its extracellular domain (ECD) enhances calcitonin hormone affinity with the proximal GlcNAc residue mediating this effect through an unknown mechanism. 32035902 2 36 gly N-glycosylation 224:238 arg1 ECD ECD asparagine 130 OGER ECD O95905 asparagine 130 N-glycosylation of asparagine 130 in its extracellular domain (ECD) enhances calcitonin hormone affinity with the proximal GlcNAc residue mediating this effect through an unknown mechanism. 32258897 9 7 gly di-sialylated 1402:1414 arg1 a di-sialylated, core-fucosylated bi-antennary structure a di-sialylated, core-fucosylated bi-antennary structure The major N-glycan, accounting for ∼42% of total N-glycans, had a di-sialylated, core-fucosylated bi-antennary structure. 31337705 0 64 gly trisaccharide 17:29 arg1 oviduct membrane glycoproteins glycoproteins trisaccharide Fterm glycoproteins Sulfated Lewis A trisaccharide on oviduct membrane glycoproteins binds bovine sperm and lengthens sperm lifespan. 31337705 0 65 gly glycoproteins 51:63 arg1 oviduct membrane glycoproteins oviduct membrane glycoproteins Fterm glycoproteins Sulfated Lewis A trisaccharide on oviduct membrane glycoproteins binds bovine sperm and lengthens sperm lifespan. 32364434 6 30 gly glycoproteins 1206:1218 arg1 purified glycoproteins purified glycoproteins Fterm glycoproteins Here, we are reporting the wide potential of micropermethylation-based high-throughput structural analysis of glycans from various sources, including human plasma, mammalian cells, and purified glycoproteins, through an automated tandem electrospray ionization-mass spectrometry (ESI-MSn) platform. 33983715 6 75 gly sialylated 1018:1027 arg1 neutral and sialylated N-glycans neutral and sialylated N-glycans The integrated analysis of neutral and sialylated N-glycans and fOSs showed the potential to elucidate the cause of ER stress, which cannot be readily done by protein markers alone. 34962767 9 76 gly O-glycosite 1398:1408 arg2 an O-glycosite an O-glycosite O-glycosite Glycopeptides with as few as two amino acids on either side of an O-glycosite were cleaved by IMPa. 30850477 11 24 gly N-glycosylation 1468:1482 arg2 N-glycosylation site acquisition N-glycosylation site acquisition site These results point toward a differential selection pressure of N-glycosylation site acquisition during affinity maturation of B cells, which depends on the location within the V region and is isotype and subclass dependent. 30029404 7 29 gly glycoproteins 1331:1343 arg1 78 glycoproteins 78 glycoproteins Fterm glycoproteins In total, 207 glycopeptides assigned to 78 glycoproteins were identified from 2 μL human serum. 30029404 7 31 gly glycopeptides 1302:1314 arg2 207 glycopeptides 207 glycopeptides glycopeptides In total, 207 glycopeptides assigned to 78 glycoproteins were identified from 2 μL human serum. 28929344 1 86 gly glycoproteins 243:255 arg1 N-linked glycoproteins N-linked glycoproteins Fterm glycoproteins PURPOSE Glucosidase II plays a major role in regulating the post-translational modification of N-linked glycoproteins. 30581149 9 87 part_of IgE 1455:1457 arg1 IgE epitopes IgE IgE epitopes OGER Site IgE P01854 epitopes The HHM-glycovariants exhibited strictly carbohydrate-specific IgE reactivity, designed to quantify carbohydrate-specific IgE and resembled IgE epitopes of pollen, venom and mite-derived carbohydrates. 29339411 8 68 gly glycopeptide 1609:1620 arg2 protonated glycopeptide ions protonated glycopeptide ions glycopeptide We also found that monosaccharide rearrangement occurred during collision-induced dissociation (CID) of protonated glycopeptide ions. 31308178 4 33 gly site 830:833 arg1 N-linked glycans Asn-247 site N-linked glycans Asn-247 site Here, using glycoside hydrolase and kinase assays and immunoprecipitation and MS-based analyses, we demonstrate that N-linked glycans at the Asn-247 site in VEGFR2 hinder VEGF ligand-mediated receptor activation and signaling in endothelial cells. 35518855 8 7 gly fucosylated 1225:1235 arg1 10 and 15 fucosylated N-linked glycans 10 and 15 fucosylated N-linked glycans There were 10 and 15 fucosylated N-linked glycans that were detected in PCTs and LUSC tissues respectively, 10 fucosylated N-glycans were common, while five fucosylated N-glycans were unique to LUSC tissues. 35518855 8 40 gly fucosylated 1315:1325 arg1 10 fucosylated N-glycans 10 fucosylated N-glycans There were 10 and 15 fucosylated N-linked glycans that were detected in PCTs and LUSC tissues respectively, 10 fucosylated N-glycans were common, while five fucosylated N-glycans were unique to LUSC tissues. 35518855 8 73 gly fucosylated 1361:1371 arg1 five fucosylated N-glycans five fucosylated N-glycans There were 10 and 15 fucosylated N-linked glycans that were detected in PCTs and LUSC tissues respectively, 10 fucosylated N-glycans were common, while five fucosylated N-glycans were unique to LUSC tissues. 34944439 9 33 gly fucosylated 1537:1547 arg1 fucosylated carbohydrates fucosylated carbohydrates Given the biological importance of fucosylated carbohydrates, these FucTs are promising candidates for synthetic glycobiology. 32767558 3 30 gly glycosylation 488:500 arg1 pea seed legumin pea seed legumin Fterm legumin RESULTS In this study, the effect of transglutaminase-induced oligochitosan glycosylation on the structural and functional properties of pea seed legumin was studied. 30042931 2 56 part_of has 432:434 arg1 the related dengue virus E protein AND two glycosylation sites the related dengue virus E protein two glycosylation sites Fterm Site protein sites JEV E protein has one N-linked glycosylation site at N154 (G2 site), but the related dengue virus E protein has two glycosylation sites at N67 (G1 site) and N153 (G2 site). 30042931 2 27 part_of has 338:340 arg1 JEV E protein AND one N-linked glycosylation site JEV E protein one N-linked glycosylation site Fterm Site protein site JEV E protein has one N-linked glycosylation site at N154 (G2 site), but the related dengue virus E protein has two glycosylation sites at N67 (G1 site) and N153 (G2 site). 34010560 4 19 gly glycosylation 1019:1031 arg2 glycosylation sites glycosylation sites sites Herein, we present the software GlycoHybridSeq for automated interpretation of EThcD-MS/MS spectra from glycoproteomic data using a customized scoring function, which enables the functionalities of identifying glycopeptides, characterizing glycosylation sites, and distinguishing some isomeric glycans. 34010560 4 67 gly glycopeptides 989:1001 arg2 glycopeptides glycopeptides glycopeptides Herein, we present the software GlycoHybridSeq for automated interpretation of EThcD-MS/MS spectra from glycoproteomic data using a customized scoring function, which enables the functionalities of identifying glycopeptides, characterizing glycosylation sites, and distinguishing some isomeric glycans. 31019513 10 50 gly glycosylation 1675:1687 arg2 these five glycosylation sites these five glycosylation sites sites We show that mutation of these five glycosylation sites increased the clustering tendency of CD22 and resulted in higher density CD22 nanoclusters. 32782472 11 19 gly position 2038:2045 arg1 glycans position N45 and N384 glycans position N45 and N384 Molecular dynamic simulation of the N-glycan mutants TrCel7A revealed higher number of contacts between CD and cellulose crystal upon removal of glycans at position N45 and N384. 32782472 11 83 gly N384 2055:2058 arg1 glycans position N45 and N384 glycans position N45 and N384 Molecular dynamic simulation of the N-glycan mutants TrCel7A revealed higher number of contacts between CD and cellulose crystal upon removal of glycans at position N45 and N384. 33629527 2 59 gly proteins 355:362 arg1 glycan patterns proteins glycan patterns Fterm proteins In contrast, glycan patterns of immunogenic viral proteins, which differ significantly between the various expression systems, are hardly analyzed yet. 32366695 2 3 gly glycoprotein 373:384 arg1 the spike (S) glycoprotein the spike (S) glycoprotein Fterm glycoprotein Vaccine development is focused on the principal target of the humoral immune response, the spike (S) glycoprotein, which mediates cell entry and membrane fusion. 30395637 2 60 part_of CD4 262:264 arg1 the CD4 binding site CD4 the CD4 binding site PUBTATOR Site CD4 920 site VRC01-class bnAbs that target the CD4 binding site (CD4bs) of trimeric HIV-1 envelope (Env) glycoprotein spikes are particularly attractive to elicit because of their extraordinary breadth and potency of neutralization in vitro and their ability to protect against infection in animal models. 33154157 1 37 gly glycosylation 118:130 arg1 glycoprotein folding glycoprotein folding Fterm glycoprotein Mammalian protein N-linked glycosylation is critical for glycoprotein folding, quality control, trafficking, recognition, and function. 33154157 1 54 gly glycoprotein 148:159 arg1 glycoprotein folding glycoprotein folding Fterm glycoprotein Mammalian protein N-linked glycosylation is critical for glycoprotein folding, quality control, trafficking, recognition, and function. 30946947 5 74 part_of glycoprotein 663:674 arg1 an N-terminal amino acid sequence glycoprotein an N-terminal amino acid sequence Fterm Site glycoprotein sequence Purified Hyal-Ba is a 69-kDa (SDS-PAGE) monomeric glycoprotein with an N-terminal amino acid sequence sharing high identity with homologous snake venom hyaluronidases. 31616924 1 75 gly O-glycoprotein 108:121 arg1 The O-glycoprotein apolipoprotein E The O-glycoprotein apolipoprotein E Fterm O-glycoprotein The O-glycoprotein apolipoprotein E (APOE), the strongest genetic risk factor for Alzheimer's disease, associates with lipoproteins. 30355725 6 4 part_of Sog 861:863 arg1 individual Sog glycosylation sites Sog individual Sog glycosylation sites PUBTATOR Site Sog 32498 sites We identify conserved N-glycosylated sites and describe the effect of mutating these residues on BMP pathway activity in Drosophila Functional analysis reveals that loss of individual Sog glycosylation sites enhances BMP antagonism and/or increases the spatial range of Sog effects in the tissue. 28057501 6 9 gly N-glycosylation 1116:1130 arg2 the most possible N-glycosylation sites the most possible N-glycosylation sites sites Furthermore, PYC protein also had three potential N-linked glycosylation sites, among them, -N-S-T-I- at 36 amino acid, -N-G-T-V- at 237 amino acid, and -N-G-S-S- at 517 amino acid were the most possible N-glycosylation sites. 28057501 6 74 gly glycosylation 971:983 arg2 three potential N-linked glycosylation sites three potential N-linked glycosylation sites sites Furthermore, PYC protein also had three potential N-linked glycosylation sites, among them, -N-S-T-I- at 36 amino acid, -N-G-T-V- at 237 amino acid, and -N-G-S-S- at 517 amino acid were the most possible N-glycosylation sites. 34962767 11 53 gly glycopeptide 1781:1792 arg2 glycopeptide enrichment glycopeptide enrichment glycopeptide We present the use of IMPa in a one-step O-glycoproteomic workflow for glycoprofiling of the purified glycoproteins granulocyte colony-stimulating factor and receptor-type tyrosine-protein phosphatase C without the need for glycopeptide enrichment. 34962767 11 84 gly glycoproteins 1659:1671 arg1 the purified glycoproteins granulocyte colony-stimulating factor and receptor-type tyrosine-protein phosphatase C the purified glycoproteins granulocyte colony-stimulating factor and receptor-type tyrosine-protein phosphatase C Fterm glycoproteins We present the use of IMPa in a one-step O-glycoproteomic workflow for glycoprofiling of the purified glycoproteins granulocyte colony-stimulating factor and receptor-type tyrosine-protein phosphatase C without the need for glycopeptide enrichment. 30834446 10 46 gly glycoprotein 1827:1838 arg1 the IHNV glycoprotein the IHNV glycoprotein Fterm glycoprotein These models suggest mechanisms for which the binding of these galectins to the IHNV glycoprotein hinders with different potencies the viral attachment required for infection. 31178836 6 24 part_of env 1288:1290 arg1 env sequences env env sequences PUBTATOR Site env 100616444 sequences A sequence analysis and a neutralization assay of Env-pseudoviruses showed that the increasing diversity of env sequences in the patient was consistent with the appearance and maturation of A7 lineage antibodies. 30042931 5 95 gly E-glycosylation 928:942 arg1 both G1 and G2 sites sites sites The G1G2 mutant (E-D67N), with E-glycosylation on both G1 and G2 sites, showed potent in vitro viral replication and in vivo neurovirulence, but reduced neuroinvasiveness. 33908014 3 47 part_of proteins 575:582 arg1 the Fc domain proteins the Fc domain Fterm Site proteins domain Here we use combinations of exoglycosidases to precisely characterize glycans on the Fc domain of therapeutic antibodies and dimeric fusion proteins. 32707739 3 36 gly N-glycosylation 539:553 arg1 different AMPAR subunits different AMPAR subunits Fterm subunits Although N-glycosylation on different AMPAR subunits has been shown to regulate the ER-exit of hetero-oligomers, its role in the ER-exit of homo-oligomers remains unclear. 29784879 2 49 gly glycoproteins 235:247 arg1 glycoproteins glycoproteins Fterm glycoproteins Correct folding of glycoproteins in the endoplasmic reticulum (ER) is tightly monitored by the recognition of glycan signals by lectins in the ER-associated degradation (ERAD) pathway. 31527085 0 8 gly O-GlcNAcylation 0:14 arg1 short-form O-GlcNAc transferase transferase O-GlcNAcylation Fterm transferase O-GlcNAcylation of Thr12/Ser56 in short-form O-GlcNAc transferase (sOGT) regulates its substrate selectivity. 34106099 9 3 gly sialylated 1592:1601 arg1 intact sialylated N-linked glycopeptides intact sialylated N-linked glycopeptides glycopeptides However, correct identification of intact sialylated N-linked glycopeptides using the Byonic program failed, most likely due to the lack of peptide backbone fragmentation during tandem mass spectrometry. 34106099 9 44 gly glycopeptides 1612:1624 arg2 intact sialylated N-linked glycopeptides intact sialylated N-linked glycopeptides glycopeptides However, correct identification of intact sialylated N-linked glycopeptides using the Byonic program failed, most likely due to the lack of peptide backbone fragmentation during tandem mass spectrometry. 30076101 1 34 part_of glycoprotein 280:291 arg1 the conserved CD4-binding site envelope glycoprotein the conserved CD4-binding site PUBTATOR Site envelope glycoprotein 100616444 site An important class of HIV-1 broadly neutralizing antibodies, termed the VRC01 class, targets the conserved CD4-binding site (CD4bs) of the envelope glycoprotein (Env). 30076101 1 66 part_of CD4-binding 239:249 arg1 the conserved CD4-binding site CD4 the conserved CD4-binding site PUBTATOR Site CD4 920 site An important class of HIV-1 broadly neutralizing antibodies, termed the VRC01 class, targets the conserved CD4-binding site (CD4bs) of the envelope glycoprotein (Env). 32719555 0 52 gly glycoprotein 38:49 arg1 orthogonal human O-linked glycoprotein biosynthesis orthogonal human O-linked glycoprotein biosynthesis Fterm glycoprotein Engineering orthogonal human O-linked glycoprotein biosynthesis in bacteria. 32461612 3 43 gly glycosylation 466:478 arg2 66-87 N-linked glycosylation sites 66-87 N-linked glycosylation sites sites Coronavirus S proteins are extensively glycosylated, encoding around 66-87 N-linked glycosylation sites per trimeric spike. 32535395 13 19 gly glycoproteins 1997:2009 arg1 epithelial secretory glycoproteins epithelial secretory glycoproteins Fterm glycoproteins We speculate that, as well as providing nourishment for the developing embryo, epithelial secretory glycoproteins may contribute components to the capsule, which develops only partially in embryos cultured in vitro. 30659065 11 84 gly sites 1846:1850 arg1 N272 sites N46, N209, and N272 sites N46, N209, and N272 IgM sites N46, N209, and N272 displayed mostly complex glycans, whereas sites N279 and N439 displayed higher relative abundances of high-mannose glycoforms. 30659065 11 84 gly sites 1846:1850 arg1 N46 sites N46, N209, and N272 sites N46, N209, and N272 IgM sites N46, N209, and N272 displayed mostly complex glycans, whereas sites N279 and N439 displayed higher relative abundances of high-mannose glycoforms. 30659065 11 84 gly sites 1846:1850 arg1 IgM sites sites N46, N209, and N272 sites N46, N209, and N272 IgM sites N46, N209, and N272 displayed mostly complex glycans, whereas sites N279 and N439 displayed higher relative abundances of high-mannose glycoforms. 30659065 11 84 gly sites 1846:1850 arg1 N46 sites N46, N209, and N272 sites N46, N209, and N272 IgM sites N46, N209, and N272 displayed mostly complex glycans, whereas sites N279 and N439 displayed higher relative abundances of high-mannose glycoforms. 30659065 11 84 gly sites 1846:1850 arg1 IgM sites sites N46, N209, and N272 sites N46, N209, and N272 IgM sites N46, N209, and N272 displayed mostly complex glycans, whereas sites N279 and N439 displayed higher relative abundances of high-mannose glycoforms. 30659065 11 84 gly sites 1846:1850 arg1 IgM sites sites N46, N209, and N272 sites N46, N209, and N272 IgM sites N46, N209, and N272 displayed mostly complex glycans, whereas sites N279 and N439 displayed higher relative abundances of high-mannose glycoforms. 30659065 11 97 gly sites 1914:1918 arg1 sites N279 and N439 sites N279 and N439 sites N279 and N439 IgM sites N46, N209, and N272 displayed mostly complex glycans, whereas sites N279 and N439 displayed higher relative abundances of high-mannose glycoforms. 30659065 11 97 gly sites 1914:1918 arg1 N439 sites N279 and N439 sites N279 and N439 IgM sites N46, N209, and N272 displayed mostly complex glycans, whereas sites N279 and N439 displayed higher relative abundances of high-mannose glycoforms. 30659065 11 97 gly sites 1914:1918 arg1 N439 sites N279 and N439 sites N279 and N439 IgM sites N46, N209, and N272 displayed mostly complex glycans, whereas sites N279 and N439 displayed higher relative abundances of high-mannose glycoforms. 29267884 4 32 gly glycosylation 729:741 arg2 sites sites sites The initial data comprises sites of glycosylation for N-linked, O-GalNAc, O-Fucose, O-Xyl, O-Mannose (in both human and yeast) and cytosolic O-GlcNAc type. 34229070 6 22 gly O-glycosites 910:921 arg2 14 O-glycosites 14 O-glycosites O-glycosites RESULTS A total of 14 O-glycosites were identified on three glycopeptides of APP, and at least four O-glycans including GalNAc (Tn antigen), core 1, and mono-/di-sialylated core 1 glycans were determinant at the residues of Thr576 and Thr577. 34229070 6 39 gly mono-/di-sialylated 1041:1059 arg1 mono-/di-sialylated core 1 glycans mono-/di-sialylated core 1 glycans RESULTS A total of 14 O-glycosites were identified on three glycopeptides of APP, and at least four O-glycans including GalNAc (Tn antigen), core 1, and mono-/di-sialylated core 1 glycans were determinant at the residues of Thr576 and Thr577. 34229070 6 43 gly residues 1100:1107 arg1 determinant residues determinant residues RESULTS A total of 14 O-glycosites were identified on three glycopeptides of APP, and at least four O-glycans including GalNAc (Tn antigen), core 1, and mono-/di-sialylated core 1 glycans were determinant at the residues of Thr576 and Thr577. 34229070 6 1 gly glycopeptides 948:960 arg2 three glycopeptides APP glycopeptides OGER APP P05067 glycopeptides RESULTS A total of 14 O-glycosites were identified on three glycopeptides of APP, and at least four O-glycans including GalNAc (Tn antigen), core 1, and mono-/di-sialylated core 1 glycans were determinant at the residues of Thr576 and Thr577. 31826991 11 151 gly presence 1481:1488 arg1 the head region AND high-mannose glycan the head region high-mannose glycan region Since SP-D affinity for influenza HA depends on the presence of high-mannose glycan on the head region, our data demonstrate that SP-D may not protect against virus containing these HA subtypes. 32827291 2 9 gly glycosylation 405:417 arg2 two asparagine-linked glycosylation sites two asparagine-linked glycosylation sites sites Herein, we identify two asparagine-linked glycosylation sites in B4GalT4. 32827291 2 49 gly sites 419:423 arg1 B4GalT4 sites B4GalT4 sites Herein, we identify two asparagine-linked glycosylation sites in B4GalT4. 32452486 3 2 gly glycopeptides 412:424 arg2 glycopeptides glycopeptides glycopeptides Current technologies for glycan structural analysis normally involve the isolation of glycans from proteins, or enrichment of glycopeptides, and detection by mass spectrometry, which requires relatively large amounts of sample and is not able to be used by non-specialist laboratories. 32452486 3 23 gly proteins 385:392 arg1 glycans proteins glycans Fterm proteins Current technologies for glycan structural analysis normally involve the isolation of glycans from proteins, or enrichment of glycopeptides, and detection by mass spectrometry, which requires relatively large amounts of sample and is not able to be used by non-specialist laboratories. 34662441 6 65 gly presence 1239:1246 arg2 the former sequons AND high mannose glycoforms the former sequons high mannose glycoforms The presence of high mannose glycoforms at the former sequons likely results from the limited access of enzymes of the glycosynthetic pathway required for the synthesis of the complex structures. 34662441 6 80 gly glycoforms 1264:1273 arg1 high mannose glycoforms high mannose glycoforms The presence of high mannose glycoforms at the former sequons likely results from the limited access of enzymes of the glycosynthetic pathway required for the synthesis of the complex structures. 29263266 3 70 gly glycosylated 578:589 arg1 the glycosylated envelope proteins the glycosylated envelope proteins Fterm proteins Unlike the MBLs, which block HIV only through binding to the glycosylated envelope proteins (gp120 and gp41) of the virus, SBL inhibited HIV at multiple steps of the virus infection/replication cycle. 32915505 1 12 gly glycoprotein 230:241 arg1 the SARS-CoV2 spike glycoprotein the SARS-CoV2 spike glycoprotein Fterm glycoprotein The glycan structures of the receptor binding domain of the SARS-CoV2 spike glycoprotein expressed in human HEK293F cells have been studied by using NMR. 32915505 1 29 gly domain 200:205 arg1 The glycan structures domain The glycan structures domain The glycan structures of the receptor binding domain of the SARS-CoV2 spike glycoprotein expressed in human HEK293F cells have been studied by using NMR. 29295913 10 31 gly O-mannosylation 1627:1641 arg1 proteins proteins Fterm proteins These findings demonstrate that O-mannosylation of proteins increases the thermotolerance of Histoplasma yeast cells, which facilitates infection of mammalian hosts.IMPORTANCE For dimorphic fungal pathogens, mammalian body temperature can have contrasting roles. 29295913 10 52 gly proteins 1646:1653 arg1 O-mannosylation proteins O-mannosylation Fterm proteins These findings demonstrate that O-mannosylation of proteins increases the thermotolerance of Histoplasma yeast cells, which facilitates infection of mammalian hosts.IMPORTANCE For dimorphic fungal pathogens, mammalian body temperature can have contrasting roles. 32699088 3 15 gly glycosylation 517:529 arg2 three N-linked glycosylation sites three N-linked glycosylation sites sites Sequence analysis showed that in the NA head domain of H1N1 IAVs, three N-linked glycosylation sites are conserved and that a fourth site is conserved in H3N2 IAVs. 33205023 3 37 gly N-glycosylation 461:475 arg2 key N-glycosylation sites key N-glycosylation sites sites Here, analysis of two Env variants from the same donor, with differing functional characteristics and N-glycosylation-site composition, revealed that changes to key N-glycosylation sites affected the Env structure at distant locations and had a ripple effect on Env-wide glycan processing, virus infectivity, antibody recognition, and virus neutralization. 31199881 3 115 gly glycosylation 623:635 arg2 the Fc N-linked glycosylation site the Fc N-linked glycosylation site site TfRMAbs have Fc effector function side effects, and removal of the Fc N-linked glycosylation site by substituting Asn with Gly reduces the Fc effector function. 30684504 4 24 gly glycosylated 941:952 arg1 its N-linked glycosylated form its N-linked glycosylated form In its N-linked glycosylated form, the resulting fusion protein was easily purified from the culture supernatant via a three-step chromatography process. 31810853 9 33 part_of have 1360:1363 arg1 ribosomal protein S5 AND epitopes S5, L11 epitopes OGER Site S5, L11 Q9H910 epitopes In addition, ribosomal protein S5, L11, S2, L36 and S17 were predicted to have a lot of epitopes which have low IC50 and percentile rank value indicating a strong binding among epitopes and MHC-I/II alleles, and post-translational modifications such as N-linked glycosylation, acetylation and phosphorylation. 33947960 2 66 part_of localized 367:375 arg2 the oncogenic cell surface receptor tyrosine kinase (RTK) ErbB2 AND Trastuzumab's target epitope the oncogenic cell surface receptor tyrosine kinase (RTK) ErbB2 Trastuzumab's target epitope PUBTATOR Site ErbB2 2064 epitope Trastuzumab's target epitope is localized within the extracellular domain of the oncogenic cell surface receptor tyrosine kinase (RTK) ErbB2, which is known to undergo extensive N-linked glycosylation. 33947960 2 81 part_of ErbB2 470:474 arg1 the extracellular domain ErbB2 the extracellular domain PUBTATOR Site ErbB2 2064 domain Trastuzumab's target epitope is localized within the extracellular domain of the oncogenic cell surface receptor tyrosine kinase (RTK) ErbB2, which is known to undergo extensive N-linked glycosylation. 30814666 0 46 gly glycosylation 6:18 arg1 cell envelope proteins cell envelope proteins Fterm proteins Ample glycosylation in membrane and cell envelope proteins may explain the phenotypic diversity and virulence in the Mycobacterium tuberculosis complex. 31333671 8 52 part_of IgE 967:969 arg1 Many IgE sequences IgE Many IgE sequences PUBTATOR Site IgE P01854 sequences Many IgE sequences contained N-linked glycosylation motifs. 31333671 8 79 part_of contained 981:989 arg1 Many IgE sequences AND N-linked glycosylation motifs Many IgE sequences N-linked glycosylation motifs motifs Many IgE sequences contained N-linked glycosylation motifs. 32782472 6 102 gly N-glycosylation 1115:1129 arg2 N-glycosylation site N-glycosylation site site Also, we expressed single N-glycosylation site deficient mutants TrCel7A (N45Q , N270Q , N384Q ). 30023808 3 80 gly glycopeptides 655:667 arg2 N-linked glycopeptides N-linked glycopeptides glycopeptides The obtained superhydrophilic Fe3O4-PEI-pMaltose NPs displayed outstanding advantages in the enrichment of N-linked glycopeptides, including high selectivity (1:100, mass ratios of HRP and bovine serum albumin (BSA) digest), low detection limit (10 fmol), large binding capacity (200 mg/g), and high enrichment recovery (above 85%). 29596379 4 51 gly glycosylation 750:762 arg2 three N-linked glycosylation sites three N-linked glycosylation sites sites The deduced protein (maNRAMP) possesses the typical structural features of NRAMP protein family, including 12 transmembrane domains, three N-linked glycosylation sites, and a conserved transport motif. 29782851 4 32 part_of C1q 659:661 arg1 the C1q site C1q the C1q site PUBTATOR Site C1q 12259 site Mutation (asparagine to glutamine) of the N-terminal site, increased neurexin binding whereas mutation of the C1q site markedly increased Grid2 binding. 31059811 5 112 gly leucine-rich 746:757 arg1 eleven leucine-rich repeats leucine eleven leucine-rich repeats leucine The derived amino acids sequence comprised of an extracellular domain including 26 amino acids signal peptide and eleven leucine-rich repeats (LRR), capped with LRRCT and LRRNT followed by transmembrane domain and cytoplasmic Toll/IL-1R domain (TIR). 28067406 3 31 gly N-glycosylation 484:498 arg2 Asn60 Asn60 Asn60 We showed that Ninj1 assembles into a homomeric complex via a cis-interaction mediated by the intracellular region and N-glycosylation at Asn60 . 30101988 0 65 gly N-glycosylation 125:139 arg1 human immunoglobulin G1 human immunoglobulin G1 G1" by J.J. Bevelacqua and S.M. Authors' Reply to the Commentary in the journal of Electrophoresis regarding "The effect of simulated space radiation on the N-glycosylation of human immunoglobulin G1" by J.J. Bevelacqua and S.M.J. Mortazavi. 30712568 4 66 gly glycopeptides 911:923 arg2 glycopeptides glycopeptides glycopeptides The well-designed composites presented clearly ZIC-polymer shell and superior hydrophilicity (water contact angle 30.2), and the performance for selective enrichment of glycopeptides were investigated with standard and real samples, respectively. 29980609 8 71 gly glycosylation 1599:1611 arg2 the atypical glycosylation site the atypical glycosylation site site However, although the extent of conventional N-linked glycosylation positively correlates with AICL surface expression, the atypical glycosylation site impairs AICL surfacing. 30881698 10 15 gly deglycosylate 1417:1429 arg1 whey proteins whey proteins Fterm proteins In view of future applications in the dairy industry, we investigated the ability of this enzyme to deglycosylate whey proteins. 29681862 4 41 gly proteins 842:849 arg1 tissue-specific O-GlcNAc modification proteins tissue-specific O-GlcNAc modification Fterm proteins Increased flux of glucose through the hexosamine biosynthetic pathway and the consequent increase in tissue-specific O-GlcNAc modification of proteins have been linked to multiple facets of vascular dysfunction in diabetes and other pathological conditions. 29681862 4 60 gly modification 826:837 arg3 proteins AND tissue-specific O-GlcNAc modification proteins tissue-specific O-GlcNAc modification Fterm proteins Increased flux of glucose through the hexosamine biosynthetic pathway and the consequent increase in tissue-specific O-GlcNAc modification of proteins have been linked to multiple facets of vascular dysfunction in diabetes and other pathological conditions. 30069741 1 15 gly glycosylated 94:105 arg1 Most secreted proteins Most secreted proteins Fterm proteins Most secreted proteins in eukaryotes are glycosylated, and after a number of common biosynthesis steps the glycan structures mature in a species-dependent manner. 29409894 2 68 gly glycoproteins 329:341 arg1 glycoproteins glycoproteins Fterm glycoproteins The maturation of glycoproteins involves the trimming of mannosyl residues by mannosidases and addition of other sugar molecules to three-branched N-glycans in the Golgi. 32001344 7 77 part_of sites 1171:1175 arg1 V3 V3 sites Cterm Site V3 sites By site-directed mutagenesis, we identified amino acids 57 and 330 as the active N-linked glycosylation sites on V3 when expressed in this cell type. 31196789 7 46 gly glycosylation 974:986 arg1 N454 N313 and N454 N313 and N454 Comparison of catalytic properties of those mutants revealed that glycosylation at N313 and N454 in rLcc9 could affect the binding affinity to substrates and the catalytic rate, respectively. 31196789 7 46 gly glycosylation 974:986 arg2 N454 N313 and N454 N313 and N454 Comparison of catalytic properties of those mutants revealed that glycosylation at N313 and N454 in rLcc9 could affect the binding affinity to substrates and the catalytic rate, respectively. 31196789 7 46 gly glycosylation 974:986 arg1 N313 N313 and N454 N313 and N454 Comparison of catalytic properties of those mutants revealed that glycosylation at N313 and N454 in rLcc9 could affect the binding affinity to substrates and the catalytic rate, respectively. 31196789 7 46 gly glycosylation 974:986 arg2 N454 N313 and N454 N313 and N454 Comparison of catalytic properties of those mutants revealed that glycosylation at N313 and N454 in rLcc9 could affect the binding affinity to substrates and the catalytic rate, respectively. 31196789 7 46 gly glycosylation 974:986 arg1 N313 N313 and N454 N313 and N454 Comparison of catalytic properties of those mutants revealed that glycosylation at N313 and N454 in rLcc9 could affect the binding affinity to substrates and the catalytic rate, respectively. 31196789 7 46 gly glycosylation 974:986 arg1 N313 N313 and N454 N313 and N454 Comparison of catalytic properties of those mutants revealed that glycosylation at N313 and N454 in rLcc9 could affect the binding affinity to substrates and the catalytic rate, respectively. 33677548 3 12 gly glycoproteins 490:502 arg1 glycoproteins glycoproteins glycans Fterm glycoproteins One of the major reasons is the absence of digital standard to represent glycoproteins and the challenging annotations with glycans. 33300777 6 64 gly disialylated 1137:1148 arg1 the biantennary digalactosylated disialylated N-glycan A2G2S2 the biantennary digalactosylated disialylated N-glycan A2G2S2 As proof of the principle, the biantennary digalactosylated disialylated N-glycan A2G2S2, against which there have been no antibodies and lectins so far, was employed as the target. 29756380 1 29 part_of N-acetylglucosamine 226:244 arg1 N-acetylglucosamine (O-GlcNAc) residues N-acetylglucosamine (O-GlcNAc N-acetylglucosamine (O-GlcNAc) residues PUBTATOR Site N-acetylglucosamine (O-GlcNAc 8473 residues O-Linked glycosylation of serine and threonine residues of nucleocytoplasmic proteins with N-acetylglucosamine (O-GlcNAc) residues is catalyzed by O-GlcNAc transferase (OGT). 29756380 1 21 part_of proteins 212:219 arg1 serine proteins serine and threonine residues Fterm AminoAcid proteins serine and threonine residues O-Linked glycosylation of serine and threonine residues of nucleocytoplasmic proteins with N-acetylglucosamine (O-GlcNAc) residues is catalyzed by O-GlcNAc transferase (OGT). 31471298 9 4 gly sites 1648:1652 arg1 V-domain glycans sites V-domain glycans sites CONCLUSION Our observations indicate that somatic hypermutation of ACPA, which results in the incorporation of N-linked glycosylation sites and consequently V-domain glycans, occurs already years before symptom onset in individuals that will develop RA later in life. 31471298 9 99 gly glycosylation 1634:1646 arg2 N-linked glycosylation sites N-linked glycosylation sites sites CONCLUSION Our observations indicate that somatic hypermutation of ACPA, which results in the incorporation of N-linked glycosylation sites and consequently V-domain glycans, occurs already years before symptom onset in individuals that will develop RA later in life. 30250045 9 78 gly contained 1331:1339 arg1 the epitope AND a similar glycan modification the epitope a similar glycan modification epitope Neuraminidase treatment analysis also confirmed that the epitope in mesothelioma cells contained a similar glycan modification. 31636418 8 4 gly found 1271:1275 arg1 exposed positions AND N-linked glycans exposed positions N-linked glycans positions In contrast, polymorphic sites and N-linked glycans are preferentially found in exposed positions on the receptor surface, not contacting transferrin, suggesting that transferrin receptor diversification is driven by a need for antigenic variation in the receptor to prolong survival in a host. 33676668 2 45 gly glycopeptide 313:324 arg2 glycopeptide glycopeptide glycopeptide However, due to the diversity of glycopeptide forms and their low abundance, it is extraordinarily challenging to capture and separate glycopeptides with high selectivity from complex biological samples with mass spectrometric analysis. 33676668 2 77 gly glycopeptides 415:427 arg2 capture and separate glycopeptides capture and separate glycopeptides glycopeptides However, due to the diversity of glycopeptide forms and their low abundance, it is extraordinarily challenging to capture and separate glycopeptides with high selectivity from complex biological samples with mass spectrometric analysis. 29784879 7 24 gly glycoprotein 1335:1346 arg1 the glycoprotein T-cell receptor α locus the glycoprotein T-cell receptor α locus Fterm glycoprotein In a defined in vitro system consisting of recombinant proteins purified from HEK293 cells, the mannose-trimming activity of EDEM3 toward the model misfolded substrate, the glycoprotein T-cell receptor α locus (TCRα), was reconstituted only when ERp46 had established a covalent interaction with EDEM3. 32236654 8 87 gly sialylated 1456:1465 arg1 truncated α2,6-core sialylated glycans truncated α2,6-core sialylated glycans Colon-like cell lines are characterized by a prevalence of I-branched and sialyl Lewis x/a epitope carrying glycans, while most undifferentiated cell lines show absence of Lewis epitope expression resulting in dominance of truncated α2,6-core sialylated glycans. 32236654 8 31 gly carrying 1312:1319 arg1 I-branched and sialyl Lewis x/a epitope AND glycans I-branched and sialyl Lewis x/a epitope glycans Colon-like cell lines are characterized by a prevalence of I-branched and sialyl Lewis x/a epitope carrying glycans, while most undifferentiated cell lines show absence of Lewis epitope expression resulting in dominance of truncated α2,6-core sialylated glycans. 33600485 9 33 gly glycosylation 1179:1191 arg2 both glycosylation sites both glycosylation sites sites A total of 100 structures were detected on both glycosylation sites. 30486487 5 15 part_of possesses 650:658 arg1 E2 protein AND N-linked glycosylation sites E2 protein N-linked glycosylation sites Fterm Site protein sites E2 protein was confirmed by Western blot assay, which showed that E2 protein possesses N-linked glycosylation sites. 31471298 2 31 gly N-glycosylation 378:392 arg2 N-glycosylation sites N-glycosylation sites sites Recently, we showed that N-glycosylation sites, which are required for the incorporation of V-domain glycans, are introduced following somatic hypermutation. 29541627 6 57 gly N-glycosylation 1742:1756 arg1 preferred and non-preferred sites sites sites The current genome-wide mapping of 1,117 proteins (2,909 asparagine residues) was used to explore charge- and polarity-based mechanistic constraints in N-glycosylation, and discuss alterations of the neoplastic phenotype that can be ascribed to N-glycosylation at preferred and non-preferred sites. 30633504 5 27 gly N-glycosylation 832:846 arg2 any position position position We found that the N-glycosylation of RNase 1 at any position attenuates its catalytic activity but enhances both its thermostability and its resistance to proteolysis. 30633504 5 27 gly N-glycosylation 832:846 arg1 RNase 1 RNase 1 position PUBTATOR RNase 1 6035 position We found that the N-glycosylation of RNase 1 at any position attenuates its catalytic activity but enhances both its thermostability and its resistance to proteolysis. 30633504 5 27 gly N-glycosylation 832:846 arg1 RNase 1 RNase 1 position PUBTATOR RNase 1 6035 position We found that the N-glycosylation of RNase 1 at any position attenuates its catalytic activity but enhances both its thermostability and its resistance to proteolysis. 33093196 1 54 gly glycans 88:94 arg1 the HIV-1 envelope glycoprotein glycoprotein glycans Fterm glycoprotein The dense array of N-linked glycans on the HIV-1 envelope glycoprotein (Env), known as the "glycan shield," is a key determinant of immunogenicity, yet intrinsic heterogeneity confounds typical structure-function analysis. 33093196 1 47 gly glycoprotein 118:129 arg1 the HIV-1 envelope glycoprotein glycoprotein a key determinant Fterm glycoprotein The dense array of N-linked glycans on the HIV-1 envelope glycoprotein (Env), known as the "glycan shield," is a key determinant of immunogenicity, yet intrinsic heterogeneity confounds typical structure-function analysis. 30224358 2 67 part_of proteins 295:302 arg1 serines proteins serines and threonines Fterm AminoAcid proteins serines and threonines OGT thereby stably glycosylates serines and threonines of numerous proteins and, via a transient glutamate glycosylation, cleaves a single known substrate-the so-called HCF-1PRO repeat of the transcriptional co-regulator host-cell factor 1 (HCF-1). 33135055 9 17 part_of hACE2 1439:1443 arg1 hACE2 glycosylation sites hACE2 hACE2 glycosylation sites PUBTATOR Site hACE2 59272 sites Our elucidation of the site-specific glycosylation and its terminal orientations on the hACE2 receptor, along with the modeling of hACE2 glycosylation sites can aid in understanding the intriguing virus-receptor interactions and assist in the development of novel therapeutics to prevent viral entry. 29988048 3 50 gly glycoprotein 339:350 arg1 its variant surface glycoprotein its variant surface glycoprotein Fterm glycoprotein The parasite elicits robust antibody-mediated immune responses to its variant surface glycoprotein (VSG) coat, but evades immune clearance by repeatedly accessing a large genetic VSG repertoire and 'switching' to antigenically distinct VSGs. 34551980 0 28 gly neoglycoproteins 103:118 arg1 neoglycoproteins neoglycoproteins Fterm neoglycoproteins Shotgun scanning glycomutagenesis: A simple and efficient strategy for constructing and characterizing neoglycoproteins. 33676668 5 7 gly glycopeptides 1173:1185 arg2 glycopeptides glycopeptides glycopeptides Thirty-two glycopeptides from human serum immunoglobulin G (IgG) tryptic digests were observed with a greatly improved signal-to-noise ratio (S/N) and also presented high performance in anti-interfering enrichment of glycopeptides from complex samples containing 100-fold bovine serum albumin tryptic digests. 33676668 5 13 gly glycopeptides 967:979 arg2 Thirty-two glycopeptides Thirty-two glycopeptides glycopeptides Thirty-two glycopeptides from human serum immunoglobulin G (IgG) tryptic digests were observed with a greatly improved signal-to-noise ratio (S/N) and also presented high performance in anti-interfering enrichment of glycopeptides from complex samples containing 100-fold bovine serum albumin tryptic digests. 33525794 3 41 gly glycoprotein 631:642 arg1 efficient glycoprotein expression platforms efficient glycoprotein expression platforms Fterm glycoprotein It is becoming clear that future progress in creating efficient glycoprotein expression platforms in bacteria will depend on the adoption of advanced strain engineering strategies such as rational design and assembly of orthogonal glycosylation pathways, genome-wide identification of metabolic engineering targets, and evolutionary engineering of pathway performance. 31826991 6 54 gly glycosylation 943:955 arg2 each head glycosylation site each head glycosylation site site Using mass spectrometry, we determined the glycan subclasses and heterogeneities at each head glycosylation site. 34200965 8 10 gly glycoproteins 1191:1203 arg1 the altered glycoproteins the altered glycoproteins Fterm glycoproteins N-glycosidase treatment combined with nanoUPLC-coupled mass spectrometry identified the altered glycoproteins and respective glycosites. 34200965 8 24 gly glycosites 1220:1229 arg2 respective glycosites respective glycosites glycosites N-glycosidase treatment combined with nanoUPLC-coupled mass spectrometry identified the altered glycoproteins and respective glycosites. 32462590 2 45 gly N-glycoproteins 382:396 arg1 N-glycoproteins N-glycoproteins Fterm N-glycoproteins However, this likely represents a narrow functional role for the diverse array of glycan structures currently associated with N-glycoproteins in plants. 32915358 5 31 gly glycoproteins 1159:1171 arg1 a detailed N-glycan characterization glycoproteins a detailed N-glycan characterization Fterm glycoproteins We exploited the analytical capabilities of RapiFluor-MS (RFMS) to perform, by a slightly modified protocol, a detailed N-glycan characterization of total serum and single serum glycoproteins from specific patients with CDG (MAN1B1-CDG, ALG12-CDG, MOGS-CDG, TMEM199-CDG). 33947960 4 57 gly α2,3-sialylated 891:905 arg1 both α2,6- and α2,3-sialylated glycan structures both α2,6- and α2,3-sialylated glycan structures Here, we demonstrate that ErbB2 is modified with both α2,6- and α2,3-sialylated glycan structures in GC clinical specimens. 32965048 8 104 part_of N-glycosites 1741:1752 arg1 327 intact N-glycoproteins N-glycoproteins N-glycosites Fterm Site N-glycoproteins N-glycosites The 2986 intact N-glycopeptide IDs corresponded to 754 putative N-glycan linkage structures on 419 N-glycosites of 450 peptide backbones from 327 intact N-glycoproteins. 32965048 8 115 part_of N-glycoproteins 1795:1809 arg1 419 N-glycosites N-glycoproteins 419 N-glycosites Fterm Site N-glycoproteins N-glycosites The 2986 intact N-glycopeptide IDs corresponded to 754 putative N-glycan linkage structures on 419 N-glycosites of 450 peptide backbones from 327 intact N-glycoproteins. 29541627 5 87 gly glycosylation 1306:1318 arg1 membrane proteins membrane proteins Fterm proteins However, the alteration in side-chain charge and polarity environment of genetic variants, particularly in the vicinity of Asn-containing epitope, may induce constitutive glycosylation (e.g., aberrant glycosylation at preferred and non-preferred sites) of membrane proteins causing constitutive proliferation and triggering epithelial-to-mesenchymal transition. 29541627 5 52 gly glycosylation 1336:1348 arg2 preferred and non-preferred sites sites sites However, the alteration in side-chain charge and polarity environment of genetic variants, particularly in the vicinity of Asn-containing epitope, may induce constitutive glycosylation (e.g., aberrant glycosylation at preferred and non-preferred sites) of membrane proteins causing constitutive proliferation and triggering epithelial-to-mesenchymal transition. 30591584 6 8 gly proteins 1111:1118 arg1 O-GalNAc glycosylation proteins O-GalNAc glycosylation Fterm proteins The demonstration of O-GalNAc glycosylation of nuclear proteins in mammalian cells reported here has important implications for cell and chemical biology. 30591584 6 50 gly glycosylation 1086:1098 arg1 nuclear proteins nuclear proteins Fterm proteins The demonstration of O-GalNAc glycosylation of nuclear proteins in mammalian cells reported here has important implications for cell and chemical biology. 28614667 0 30 part_of Receptor 86:93 arg1 the Extracellular Domain Human Calcitonin Receptor the Extracellular Domain PUBTATOR Human Calcitonin Receptor 799 N-Glycosylation of Asparagine 130 in the Extracellular Domain of the Human Calcitonin Receptor Significantly Increases Peptide Hormone Affinity. 28614667 0 44 part_of Extracellular 41:53 arg1 the Extracellular Domain Extracellular the Extracellular Domain Cterm Extracellular N-Glycosylation of Asparagine 130 in the Extracellular Domain of the Human Calcitonin Receptor Significantly Increases Peptide Hormone Affinity. 34358619 2 87 gly attached 269:276 arg2 cell membrane proteins AND N-glycans cell membrane proteins N-glycans Fterm proteins N-glycans attached to cell membrane proteins play crucial roles in all aspects of biology, including embryogenesis, development, cell-cell recognition and adhesion, and cell signaling and communication. 30991145 4 40 gly glycosylation 795:807 arg2 four N-linked glycosylation sites four N-linked glycosylation sites sites In this study, we predicted four N-linked glycosylation sites at position 56, 379, 401, and 438 Asp (N) in G protein, and using a reverse genetics system developed in our laboratory, constructed nine recombinant viruses with single, triple, or quadruple glycosylation site disruptions using alanine substitutions in the following combinations: rIHNV-N56A, rIHNV-N379A, rIHNV-N401A, rIHNV-N438A, rIHNV-N56A-N379A-N401A, rIHNV-N56A-N379A-N438A, rIHNV-N56A-N401A-N438A, rIHNV-N379A-N401A-N438A, and rIHNV-N56A-N379A-N401A-N438A. 30991145 4 74 gly glycosylation 1007:1019 arg2 quadruple glycosylation site disruptions quadruple glycosylation site disruptions site In this study, we predicted four N-linked glycosylation sites at position 56, 379, 401, and 438 Asp (N) in G protein, and using a reverse genetics system developed in our laboratory, constructed nine recombinant viruses with single, triple, or quadruple glycosylation site disruptions using alanine substitutions in the following combinations: rIHNV-N56A, rIHNV-N379A, rIHNV-N401A, rIHNV-N438A, rIHNV-N56A-N379A-N401A, rIHNV-N56A-N379A-N438A, rIHNV-N56A-N401A-N438A, rIHNV-N379A-N401A-N438A, and rIHNV-N56A-N379A-N401A-N438A. 31866443 8 18 gly proteins 1126:1133 arg1 O-GlcNAcylation proteins O-GlcNAcylation Fterm proteins Functional studies in human adipocytes established a mechanistic link between reduced glutamine, O-GlcNAcylation of nuclear proteins, and a pro-inflammatory transcriptional response. 30852271 0 40 gly glycosylation 9:21 arg1 the membrane protein ectodomain the membrane protein ectodomain ectodomain N-Linked glycosylation of the membrane protein ectodomain regulates infectious bronchitis virus-induced ER stress response, apoptosis and pathogenesis. 34450331 6 39 gly glycoproteins 1135:1147 arg1 glycoproteins glycoproteins Fterm glycoproteins Data from the LDA and 3D structure analysis showed that glycoproteins predominantly undergo structural changes in loops/turns upon ER stress as exemplified with detailed analysis of ephrin-A5, GALNT10, PVR and BCAM. 30834446 0 65 gly glycoprotein 135:146 arg1 the infectious hematopoietic necrosis virus (IHNV) envelope glycoprotein the infectious hematopoietic necrosis virus (IHNV) envelope glycoprotein Fterm glycoprotein Structure of the zebrafish galectin-1-L2 and model of its interaction with the infectious hematopoietic necrosis virus (IHNV) envelope glycoprotein. 34523671 1 66 gly O-glycosylation 231:245 arg1 therapeutic proteins therapeutic proteins Fterm proteins We have been developing bacterial expression systems for human mucin-type O-glycosylation on therapeutic proteins, which is initiated by the addition of α-linked GalNAc to serine or threonine residues by enzymes in the GT-27 family of glycosyltransferases. 34523671 1 90 gly serine 329:334 arg1 residues residues threonine residues We have been developing bacterial expression systems for human mucin-type O-glycosylation on therapeutic proteins, which is initiated by the addition of α-linked GalNAc to serine or threonine residues by enzymes in the GT-27 family of glycosyltransferases. 32364434 7 25 gly released 1323:1330 arg1 glycoproteins AND The glycans glycoproteins The glycans Fterm glycoproteins The glycans released from the plasma, cells, and glycoproteins are permethylated in microscale in a 96-well plate or microcentrifuge tube and isolated by a C18 tip-based cleanup through a shorter and simple process. 32364434 7 44 gly glycoproteins 1360:1372 arg1 glycoproteins glycoproteins Fterm glycoproteins The glycans released from the plasma, cells, and glycoproteins are permethylated in microscale in a 96-well plate or microcentrifuge tube and isolated by a C18 tip-based cleanup through a shorter and simple process. 33135055 6 0 gly O-glycosylation 883:897 arg2 one novel O-glycosylation site one novel O-glycosylation site site We observed high glycan occupancy (73.2 to 100%) at all seven possible N-glycosylation sites and surprisingly detected one novel O-glycosylation site. 33135055 6 18 gly N-glycosylation 825:839 arg2 all seven possible N-glycosylation sites all seven possible N-glycosylation sites sites We observed high glycan occupancy (73.2 to 100%) at all seven possible N-glycosylation sites and surprisingly detected one novel O-glycosylation site. 30487799 7 18 gly site 1234:1237 arg1 Glycan variation site Glycan variation site Glycan variation at a single site was greatest at the Asn-262 glycosite. 30487799 7 83 gly glycosite 1267:1275 arg2 the Asn-262 glycosite the Asn-262 glycosite Asn-262 glycosite Glycan variation at a single site was greatest at the Asn-262 glycosite. 33039440 8 13 gly deglycosylated 1214:1227 arg1 deglycosylated, hypo-galactosylated and hyper-galactosylated variants deglycosylated, hypo-galactosylated and hyper-galactosylated variants Fterm variants In this article, we report optimized lab-scale workflows and detailed protocols for generation of deglycosylated, hypo-galactosylated and hyper-galactosylated variants of IgG therapeutic antibodies using the in-vitro glycoengineering technology. 31810853 8 18 part_of have 1153:1156 arg1 ribosomal protein S5 AND signal peptide S5, L11 peptide OGER Site S5, L11 Q9H910 peptide Among antigenic proteins, ribosomal protein S5, L11 and S2 were predicted to have signal peptide whereas ribosomal protein L36 and S17 were predicted to have a significantly high antigenicity value (P < 0.05). 33092920 6 64 gly trifucosylated 662:675 arg1 The triantennary trifucosylated complex N-glycan The triantennary trifucosylated complex N-glycan The triantennary trifucosylated complex N-glycan (H5N5F3) was reported for the first time. 33629527 4 31 gly glycoproteins 815:827 arg1 IAV glycoproteins IAV glycoproteins Fterm glycoproteins Here, we present a versatile and powerful glycoanalytical workflow that enables a comprehensive N-glycosylation analysis of IAV glycoproteins. 33629527 4 41 gly N-glycosylation 783:797 arg1 IAV glycoproteins IAV glycoproteins Fterm glycoproteins Here, we present a versatile and powerful glycoanalytical workflow that enables a comprehensive N-glycosylation analysis of IAV glycoproteins. 30659065 1 17 gly glycoproteins 166:178 arg1 critical glycoproteins critical glycoproteins Fterm glycoproteins Antibodies are critical glycoproteins that bridge the innate and adaptive immune systems to provide protection against infection. 31511323 10 10 part_of β2 1492:1493 arg1 a single intact glycosylation site 2 a single intact glycosylation site PUBTATOR Site 2 170589 site Interestingly, β2 with a single intact glycosylation site was as effective as the WT in promoting NaV1.5 surface localization. 30036038 7 7 gly glycoproteins 1024:1036 arg1 glycoproteins glycoproteins Fterm glycoproteins With glycoproteins containing only N-glycans as well as both N- and O-glycans as glycan source, this approach was proved to be widely applicable and efficient. 30036038 7 43 gly containing 1038:1047 arg1 glycoproteins AND N- glycoproteins N- Fterm glycoproteins With glycoproteins containing only N-glycans as well as both N- and O-glycans as glycan source, this approach was proved to be widely applicable and efficient. 30036038 7 43 gly containing 1038:1047 arg1 glycoproteins AND only N-glycans glycoproteins only N-glycans Fterm glycoproteins With glycoproteins containing only N-glycans as well as both N- and O-glycans as glycan source, this approach was proved to be widely applicable and efficient. 28976803 5 4 gly mannosylation 1182:1194 arg1 the virulence factor the virulence factor Fterm factor Phenotypic comparison of the arg1Δ and kcs1Δ deletion mutants (both PP-IP5-deficient) reveals that arg1Δ has the most deleterious phenotype: while PP-IP5 is essential for metabolic and stress adaptation in both mutant strains, PP-IP5 is dispensable for virulence-associated functions such as capsule production, cell wall organization, and normal N-linked mannosylation of the virulence factor, phospholipase B1, as these phenotypes were defective only in arg1Δ. 28976803 5 30 gly factor 1213:1218 arg1 normal N-linked mannosylation factor normal N-linked mannosylation Fterm factor Phenotypic comparison of the arg1Δ and kcs1Δ deletion mutants (both PP-IP5-deficient) reveals that arg1Δ has the most deleterious phenotype: while PP-IP5 is essential for metabolic and stress adaptation in both mutant strains, PP-IP5 is dispensable for virulence-associated functions such as capsule production, cell wall organization, and normal N-linked mannosylation of the virulence factor, phospholipase B1, as these phenotypes were defective only in arg1Δ. 32553552 5 15 gly glycopeptides 746:758 arg2 the resulting glycopeptides the resulting glycopeptides glycopeptides We subjected midgut cell microvilli proteins to proteolytic digestion and enriched the resulting glycopeptides prior to analysis. 31358982 3 0 gly present 708:714 arg1 glycoproteins AND N-linked glycans glycoproteins N-linked glycans Fterm glycoproteins We further show that recruited IDCs express the C-type lectin receptor SIGN-R1, which mediates direct recognition of the virus by interacting with N-linked glycans present in glycoproteins of the virion envelope. 31358982 3 23 gly glycoproteins 719:731 arg1 glycoproteins glycoproteins Fterm glycoproteins We further show that recruited IDCs express the C-type lectin receptor SIGN-R1, which mediates direct recognition of the virus by interacting with N-linked glycans present in glycoproteins of the virion envelope. 31511323 7 76 gly nonglycosylated 1148:1162 arg1 The nonglycosylated variant The nonglycosylated variant Fterm variant The nonglycosylated variant reached the cell surface by bypassing the Golgi compartment at a rate of only approximately one-third of that of WT β2. 34869209 5 11 gly glycosylation 583:595 arg1 the HEK293 recombinant spike RBD and S1 domains spike RBD domains PUBTATOR spike RBD 43740568 domains In this study, we have characterized the site-specific glycosylation patterns of the HEK293 recombinant spike RBD and S1 domains as well as the intact spike derived from the whole virus produced in Vero cells. 34869209 5 11 gly glycosylation 583:595 arg1 the intact spike spike domains PUBTATOR spike 43740568 domains In this study, we have characterized the site-specific glycosylation patterns of the HEK293 recombinant spike RBD and S1 domains as well as the intact spike derived from the whole virus produced in Vero cells. 30348809 6 24 gly receptor 840:847 arg1 sialylation receptor sialylation Fterm receptor N610 was also the primary site of sialylation of the receptor. 30348809 6 34 gly sialylation 821:831 arg1 the receptor the receptor Fterm receptor N610 was also the primary site of sialylation of the receptor. 32269229 7 40 gly N-glycosite 1780:1790 arg2 N-glycosite N-glycosite N-glycosite Our results lead us to propose that unique primary structural compositions and differential propensities for evolvability allowed for the mutual spatial exclusion of N-glycosite neighborhoods and disordered stretches. 32817340 0 82 gly glycan 35:40 arg1 S-layer protein protein glycan Fterm protein Identification of a novel N-linked glycan on the archaellins and S-layer protein of the thermophilic methanogen, Methanothermococcus thermolithotrophicus. 28528272 10 70 gly unglycosylated 1575:1588 arg1 unglycosylated prolegumain unglycosylated prolegumain Fterm prolegumain Glycosylated prolegumain was internalized and processed to the mature active form, but no internalization of unglycosylated prolegumain was observed. 32374435 1 7 gly glycoproteins 247:259 arg1 therapeutic glycoproteins therapeutic glycoproteins Fterm glycoproteins The glycosylation pathways of several eukaryotic protein expression hosts are being engineered to enable the production of therapeutic glycoproteins with humanized application-customized glycan structures. 32080177 6 34 gly arm 966:968 arg1 the α1,3 arm GlcNAc the α1,3 arm GlcNAc An exosite, formed by one of these loops and an SH3 domain, is responsible for the recognition of branched sugars, making contacts specifically to the α1,3 arm GlcNAc, a feature required for catalysis. 33435207 7 57 gly glycoproteins 1471:1483 arg1 their glycoproteins their glycoproteins Fterm glycoproteins Importantly, these findings provide additional support that the chloroviruses do not use the canonical host endoplasmic reticulum-Golgi glycosylation pathway to glycosylate their glycoproteins; instead, they perform glycosylation independent of cellular organelles using virus-encoded enzymes. 33435207 7 63 gly glycosylate 1453:1463 arg1 their glycoproteins their glycoproteins Fterm glycoproteins Importantly, these findings provide additional support that the chloroviruses do not use the canonical host endoplasmic reticulum-Golgi glycosylation pathway to glycosylate their glycoproteins; instead, they perform glycosylation independent of cellular organelles using virus-encoded enzymes. 33103998 1 34 part_of SARS-CoV-2 101:110 arg1 its receptor-binding domain SARS its receptor-binding domain OGER Site SARS P49591 domain The Spike protein of SARS-CoV-2, its receptor-binding domain (RBD), and its primary receptor ACE2 are extensively glycosylated. 33581334 6 57 gly O-glycosylation 745:759 arg2 the recorded O-glycosylation sites the recorded O-glycosylation sites sites Based on the recorded O-glycosylation sites, an O-glycosylation site prediction tool was developed. 33581334 6 71 gly O-glycosylation 771:785 arg2 an O-glycosylation site prediction tool an O-glycosylation site prediction tool site Based on the recorded O-glycosylation sites, an O-glycosylation site prediction tool was developed. 34869209 14 27 gly occupied 2011:2018 arg2 The O-glycosites The O-glycosites O-glycosites The O-glycosites shared between the S1 and RBD constructs, sites T323 and T523, were occupied by a similar range of Core 1 and 2 type O-glycans. 34869209 14 85 gly sites 1985:1989 arg1 sites T323 and T523 sites T323 and T523 sites The O-glycosites shared between the S1 and RBD constructs, sites T323 and T523, were occupied by a similar range of Core 1 and 2 type O-glycans. 34869209 14 122 gly O-glycosites 1930:1941 arg2 The O-glycosites The O-glycosites O-glycosites The O-glycosites shared between the S1 and RBD constructs, sites T323 and T523, were occupied by a similar range of Core 1 and 2 type O-glycans. 29755357 3 29 gly N-glycosylation 474:488 arg2 one N-glycosylation site one N-glycosylation site site Human LCN2 contains one N-glycosylation site conserved in other species. 33167210 4 67 gly glycopeptide 684:695 arg2 a novel, high-throughput PSA glycopeptide workflow a novel, high-throughput PSA glycopeptide workflow glycopeptide In this study, we developed a novel, high-throughput PSA glycopeptide workflow, based on matrix-assisted laser desorption/ionization-mass spectrometry, allowing the discrimination of sialic acid linkage isomers via the derivatization of glycopeptides. 33167210 4 76 gly glycopeptides 864:876 arg2 glycopeptides glycopeptides glycopeptides In this study, we developed a novel, high-throughput PSA glycopeptide workflow, based on matrix-assisted laser desorption/ionization-mass spectrometry, allowing the discrimination of sialic acid linkage isomers via the derivatization of glycopeptides. 34888356 9 22 part_of terminus 1907:1914 arg1 the epitope terminus the epitope epitope In particular, it was confirmed that α2,3-sialic acid at the terminus of biantennary N-glycan was the epitope associated with BD. 33516683 2 98 gly glycoprotein 371:382 arg1 glycoprotein glycoprotein Fterm glycoprotein Changes in glycoprotein and proteoglycan distribution are a hallmark of AS, yet valvular carbohydrate content remains virtually uncharacterized at the molecular level. 31879931 8 30 gly N-glycopeptides 1456:1470 arg2 other biologically important N-glycopeptides other biologically important N-glycopeptides N-glycopeptides The described procedures should be generally applicable for the synthesis of other biologically important N-glycopeptides. 28364041 0 54 gly glycoprotein 43:54 arg1 the cell-surface glycoprotein CD146 the cell-surface glycoprotein CD146 Fterm glycoprotein Galectin-3 interacts with the cell-surface glycoprotein CD146 (MCAM, MUC18) and induces secretion of metastasis-promoting cytokines from vascular endothelial cells. 34200965 5 38 gly glycosites 777:786 arg2 the respective glycosites the respective glycosites glycosites Here we describe a new strategy to compare membrane glycoproteomes, thereby identifying proteins with altered glycan structures and the respective glycosites. 34089345 8 28 gly glycoprotein 1266:1277 arg1 the MR glycoprotein ligands the MR glycoprotein ligands Fterm glycoprotein As lung cancer tissue and the lung cancer cell line A549 showed intense MR-Fc binding, we further investigated the MR glycoprotein ligands in those cells by immunoprecipitation and glycoproteomic analysis. 29920571 4 27 gly glycopeptides 857:869 arg2 glycopeptides glycopeptides glycopeptides Endowed with the high hydrophilicity of glutathione, the large surface area of the MOF and strong magnetic responsiveness of magnetic nanoparticles, the as-prepared mMOF@Au@GSH exhibited high selectivity (1 : 100) and great sensitivity (0.5 fmol μL-1) towards glycopeptides. 33581334 11 6 part_of OGP 1510:1512 arg1 OGP website OGP OGP website PUBTATOR Site OGP 5016 website In addition, the database is accessible from OGP website (https://www.oglyp.org/download.php). 33581334 11 61 part_of website 1514:1520 arg1 the database database website Fterm Site database website In addition, the database is accessible from OGP website (https://www.oglyp.org/download.php). 33270232 3 45 gly carbohydrates 359:371 arg1 EhUbiquitin EhUbiquitin carbohydrates Fterm EhUbiquitin Here we examined the immunogenicity and antigenicity of carbohydrates in EhUbiquitin. 28970495 5 0 part_of CD22 765:768 arg1 the CD22 site CD22 the CD22 site PUBTATOR Site CD22 933 site We structurally delineate the CD22 site targeted by the therapeutic antibody epratuzumab at 3.1 Å resolution and determine a critical role for CD22 N-linked glycosylation in antibody engagement. 31371405 4 52 gly N-glycosylated 844:857 arg2 the Asn-141 residue DDR-2 Asn-141 residue PUBTATOR DDR-2 180622 Asn-141 residue Furthermore, we found that DDR-2 is N-glycosylated at the Asn-141 residue located in its discoidin domain, and mutation of this residue caused an axon regeneration defect. 30677534 6 51 gly glycosylation 1268:1280 arg2 asparagine (N)-linked glycosylation sites asparagine (N)-linked glycosylation sites sites Computational analysis showed that these mutations may lead to remarkable changes in the conformational structure and asparagine (N)-linked glycosylation sites of S1-NTD, which may be associated with the altered pathogenicity of these variant PEDV strains. 32825463 4 43 gly fucosylated 500:510 arg1 fucosylated glycans fucosylated glycans However, little is known about how efficiently each unnatural Fuc analog is utilized by enzymes in the biosynthetic pathway of fucosylated glycans. 28778927 2 16 gly glycoproteins 270:282 arg1 three salivary glycoproteins three salivary glycoproteins Fterm glycoproteins In particular, the tick Rhipicephalus sanguineus has been shown to produce three salivary glycoproteins named "evasins," which bind to host chemokines, thereby inhibiting the recruitment of leukocytes to the location of the tick bite. 33073996 6 58 gly site 938:941 arg1 glycans N219 site glycans N219 site Molecular modeling of PD-L1/PD-1 interaction with N-glycans suggests that glycans at the N219 site of PD-L1 and N74 and N116 of PD-1 may be involved in glycan-glycan interactions, but the impact of this potential interaction on the protein function remains at this point unknown. 28254785 3 9 part_of EGF 563:565 arg1 Notch1 epidermal growth factor-like (EGF) domains 8 and 12 EGF Notch1 epidermal growth factor-like (EGF) domains 8 and 12 OGER Site EGF P01133 domains O-Linked fucose modifications on Notch1 epidermal growth factor-like (EGF) domains 8 and 12 engage the EGF3 and C2 domains of Jag1, respectively, and different Notch1 domains are favored in binding to Jag1 than those that bind to the Delta-like 4 ligand. 28254785 3 28 part_of Notch1 526:531 arg1 Notch1 epidermal growth factor-like (EGF) domains 8 and 12 Notch1 Notch1 epidermal growth factor-like (EGF) domains 8 and 12 PUBTATOR Site Notch1 4851 domains O-Linked fucose modifications on Notch1 epidermal growth factor-like (EGF) domains 8 and 12 engage the EGF3 and C2 domains of Jag1, respectively, and different Notch1 domains are favored in binding to Jag1 than those that bind to the Delta-like 4 ligand. 28254785 3 29 part_of Notch1 653:658 arg1 different Notch1 domains Notch1 different Notch1 domains PUBTATOR Site Notch1 31293 domains O-Linked fucose modifications on Notch1 epidermal growth factor-like (EGF) domains 8 and 12 engage the EGF3 and C2 domains of Jag1, respectively, and different Notch1 domains are favored in binding to Jag1 than those that bind to the Delta-like 4 ligand. 28254785 3 50 part_of Jag1 619:622 arg1 the EGF3 and C2 domains Jag1 the EGF3 and C2 domains PUBTATOR Site Jag1 182 domains O-Linked fucose modifications on Notch1 epidermal growth factor-like (EGF) domains 8 and 12 engage the EGF3 and C2 domains of Jag1, respectively, and different Notch1 domains are favored in binding to Jag1 than those that bind to the Delta-like 4 ligand. 30593635 3 37 gly ectodomain 573:582 arg1 11 N-linked glycans ectodomain 11 N-linked glycans ectodomain Here, we describe an expression system for HCV E2 ectodomain (eE2) with 11 N-linked glycans and eight disulfide bonds, which combines lentivirus transduction of mammalian cells and a continuous growth, adherent cell bioreactor. 34324829 4 39 gly N-glycosylated 796:809 arg1 N-glycosylated proteins N-glycosylated proteins Fterm proteins Chemoenzymatic synthesis using engineered endo-β-N-acetylglucosaminidases (ENGases) has been used extensively to modulate the chemistry of N-glycosylated proteins. 33263330 1 55 gly glycoproteins 151:163 arg1 glycoproteins glycoproteins Fterm glycoproteins Structural studies of glycoproteins and their complexes provide critical insights into their roles in normal physiology and disease. 34571967 6 10 gly fucosylated 948:958 arg1 fucosylated glycans fucosylated glycans Glycans of untreated cells were compared to glycans of cells treated with inhibitors, including kifunensine, which inhibits the formation of complex- and hybrid-type structures, 2,4,7,8,9-Penta-O-acetyl-N-acetyl-3-fluoro-b-d-neuraminic acid methyl ester for sialylated glycans, 2-deoxy-2-fluorofucose, and 6-alkynyl fucose for fucosylated glycans. 34571967 6 36 gly sialylated 879:888 arg1 sialylated glycans sialylated glycans Glycans of untreated cells were compared to glycans of cells treated with inhibitors, including kifunensine, which inhibits the formation of complex- and hybrid-type structures, 2,4,7,8,9-Penta-O-acetyl-N-acetyl-3-fluoro-b-d-neuraminic acid methyl ester for sialylated glycans, 2-deoxy-2-fluorofucose, and 6-alkynyl fucose for fucosylated glycans. 32764711 6 72 gly asparagine-linked 1072:1088 arg1 hybrid glycans asparagine hybrid glycans asparagine High-mannose glycan with five mannose residues (Man5GlcNAc2), a complex biantennary galactosylated structure with core fucose (Gal2GlcNAc2Man3GlcNAc2Fuc), and a group of hybrid glycans with the composition Gal0-1GlcNAc1Man3-5GlcNAc2Fuc0-1 were confirmed as the main asparagine-linked oligosaccharides on the surface of TBEV derived from human neuronal cells. 32764711 6 72 gly asparagine-linked 1072:1088 arg1 the main asparagine-linked oligosaccharides asparagine the main asparagine-linked oligosaccharides asparagine High-mannose glycan with five mannose residues (Man5GlcNAc2), a complex biantennary galactosylated structure with core fucose (Gal2GlcNAc2Man3GlcNAc2Fuc), and a group of hybrid glycans with the composition Gal0-1GlcNAc1Man3-5GlcNAc2Fuc0-1 were confirmed as the main asparagine-linked oligosaccharides on the surface of TBEV derived from human neuronal cells. 32764711 6 72 gly asparagine-linked 1072:1088 arg1 High-mannose glycan asparagine High-mannose glycan asparagine High-mannose glycan with five mannose residues (Man5GlcNAc2), a complex biantennary galactosylated structure with core fucose (Gal2GlcNAc2Man3GlcNAc2Fuc), and a group of hybrid glycans with the composition Gal0-1GlcNAc1Man3-5GlcNAc2Fuc0-1 were confirmed as the main asparagine-linked oligosaccharides on the surface of TBEV derived from human neuronal cells. 32764711 6 72 gly asparagine-linked 1072:1088 arg1 a complex biantennary galactosylated structure asparagine a complex biantennary galactosylated structure asparagine High-mannose glycan with five mannose residues (Man5GlcNAc2), a complex biantennary galactosylated structure with core fucose (Gal2GlcNAc2Man3GlcNAc2Fuc), and a group of hybrid glycans with the composition Gal0-1GlcNAc1Man3-5GlcNAc2Fuc0-1 were confirmed as the main asparagine-linked oligosaccharides on the surface of TBEV derived from human neuronal cells. 32986846 5 3 gly glycoproteins 837:849 arg1 brain glycoproteins brain glycoproteins Fterm glycoproteins Glycans were enzymatically liberated from brain glycoproteins and analyzed by liquid chromatography-tandem mass spectrometry (LC-MS/MS). 32986846 5 50 gly liberated 816:824 arg2 brain glycoproteins AND Glycans brain glycoproteins Glycans Fterm glycoproteins Glycans were enzymatically liberated from brain glycoproteins and analyzed by liquid chromatography-tandem mass spectrometry (LC-MS/MS). 31019496 4 64 gly proteins 745:752 arg1 polysaccharides proteins polysaccharides Fterm proteins We extracted and determined the amount of polysaccharides and proteins from representative bacterial biofilms. 30659065 4 60 part_of have 838:841 arg1 IgGs AND a single N-glycosylation site IgGs a single N-glycosylation site Cterm Site IgGs site Although IgGs usually have a single N-glycosylation site and are well studied, other antibody isotypes, e.g. IgA and IgM, that are the first responders in certain diseases, have two to five sites/monomer of antibody, and little is known about their N-glycosylation. 32553552 3 60 gly glycoproteins 437:449 arg1 membrane-bound midgut glycoproteins membrane-bound midgut glycoproteins Fterm glycoproteins However, there is still little information about the N-glycome of membrane-bound midgut glycoproteins in Lepidoptera and other insect groups. 30988294 0 27 gly flippase 53:60 arg1 the Lipid II flippase MurJ flippase the Lipid II flippase MurJ Fterm flippase Visualizing conformation transitions of the Lipid II flippase MurJ. 30659065 10 66 part_of containing 1731:1740 arg1 an unmodified peptide AND a proline residue an unmodified peptide a proline residue proline residue at position 93 In digests of the sera from a subset of donors, we detected an unmodified peptide containing a proline residue at position 93; this substitution would strongly disfavor N-glycosylation at N92. 31852790 9 25 gly glycosylation 1702:1714 arg2 residue 144 residue 144 residue 144 Mice were vaccinated with VLPs expressing HA antigens that lacked a glycosylation site at residue 144 and a deleted lysine at position 147 residue were more effective at protecting against morbidity and mortality following infection with pandemic-like and seasonal-like H1N1 influenza viruses.IMPORTANCE There is a great need to develop broadly reactive or universal vaccines against influenza viruses. 31852790 9 25 gly glycosylation 1702:1714 arg2 a glycosylation site a glycosylation site site Mice were vaccinated with VLPs expressing HA antigens that lacked a glycosylation site at residue 144 and a deleted lysine at position 147 residue were more effective at protecting against morbidity and mortality following infection with pandemic-like and seasonal-like H1N1 influenza viruses.IMPORTANCE There is a great need to develop broadly reactive or universal vaccines against influenza viruses. 32022078 0 60 gly structures 27:36 arg1 human urinary glycoproteins glycoproteins structures Fterm glycoproteins Novel O-linked sialoglycan structures in human urinary glycoproteins. 32022078 0 61 gly glycoproteins 55:67 arg1 human urinary glycoproteins human urinary glycoproteins Fterm glycoproteins Novel O-linked sialoglycan structures in human urinary glycoproteins. 30850477 1 30 gly glycans 137:143 arg1 their V regions their V regions their V regions Site regions Abs can acquire N-linked glycans in their V regions during Ag-specific B cell responses. 31616924 8 47 part_of CSF 1287:1289 arg1 CSF peptide283-299 CSF CSF peptide283-299 OGER Site CSF peptide283-299 CSF APOE held almost 10-fold more abundant C-terminal (Thr289, Ser290 and Ser296) glycosylation (36.8% of CSF peptide283-299 was glycosylated, 3.8% of plasma peptide283-299), with sialylated and disialylated (Neu5Acα2-3Galβ1-3(Neu5Acα2-6) GalNAcα1-) core 1 structures. 29864502 6 28 part_of sites 948:952 arg1 the VP7 protein protein sites Fterm Site protein sites Overall, analysis of antigenic sites in the VP7 protein demonstrated the presence of several amino acid substitutions in the epitopes exposed on the surface including a non-conserved N-linked glycosylation site (D123N) in G14P[12] strains, while changes in antigenic sites of VP8* were minor. 31479573 4 57 gly glycosylated 919:930 arg1 the wild-type glycosylated A1 domain the wild-type glycosylated A1 domain domain OBJECTIVES The platelet adhesive function, thermodynamic stability, and conformational dynamics of the wild-type and type 2M G1324S A1 domain lacking glycosylation (Escherichia coli) are compared with the wild-type glycosylated A1 domain (HEK293 cell culture) to decipher the self-inhibitory mechanism. 33030205 6 49 gly residues 1332:1339 arg1 the bowl to make classic aromatic ring-carbohydrate CH-π interactions tyrosine residues the bowl to make classic aromatic ring-carbohydrate CH-π interactions tyrosine residues The proline is bound in the center of a bowl formed by four functionally conserved aromatic amino acid side chains while the glycan wraps around one of the tyrosine residues in the bowl to make classic aromatic ring-carbohydrate CH-π interactions. 34864058 0 90 gly fucosylation 53:64 arg1 glycoproteins glycoproteins Fterm glycoproteins Interleukin-22 regulates B3GNT7 expression to induce fucosylation of glycoproteins in intestinal epithelial cells. 34864058 0 69 gly glycoproteins 69:81 arg1 glycoproteins glycoproteins fucosylation Fterm glycoproteins Interleukin-22 regulates B3GNT7 expression to induce fucosylation of glycoproteins in intestinal epithelial cells. 29465778 5 8 part_of HOXA1 614:618 arg1 domains HOXA1 domains PUBTATOR Site HOXA1 3198 domains Here, we confirm OGT as a HOXA1 interactor, we characterise which domains of HOXA1 and OGT are required for the interaction, and we provide evidence that OGT post-translationally modifies HOXA1. 29465778 5 9 part_of OGT 624:626 arg1 domains OGT domains PUBTATOR Site OGT 8473 domains Here, we confirm OGT as a HOXA1 interactor, we characterise which domains of HOXA1 and OGT are required for the interaction, and we provide evidence that OGT post-translationally modifies HOXA1. 28302723 1 11 gly proteins 258:265 arg1 O-GlcNAc proteins O-GlcNAc Fterm proteins O-GlcNAc is a regulatory post-translational modification of nucleocytoplasmic proteins that has been implicated in multiple biological processes, including transcription. 30535277 3 44 gly fucosylated 429:439 arg1 fucosylated N/O-glycans fucosylated N/O-glycans Here, we further investigated the alterations of fucosylated N/O-glycans recognized by LTL in saliva from 120 subjects (30 healthy volunteers (HV), 30 patients with hepatitis B (HB), 30 patients with hepatic cirrhosis (HC), and 30 patients with hepatocellular carcinoma (HCC)) using salivary microarrys and MALDI-TOF/TOF-MS. 33610554 9 21 part_of N-Cdh 1374:1378 arg1 the extracellular domain Cdh the extracellular domain OGER Site Cdh Q8NE62 domain In addition, site-specific changes in the N-glycan structures in the extracellular domain of N-Cdh were detected, which positively impact on homotypic interactions. 32699088 7 4 gly domain 1260:1265 arg1 the head domain glycans the head domain glycans It also revealed that N1 stability is more affected by the head domain glycans, suggesting N2 is more amenable to glycan additions. 32699088 7 67 gly head 1255:1258 arg1 the head domain glycans the head domain glycans It also revealed that N1 stability is more affected by the head domain glycans, suggesting N2 is more amenable to glycan additions. 34278967 4 18 part_of site 1034:1037 arg1 B.1.1.7 variants B site Fterm Site variants B site The Lens culinaris-derived lentil lectin which specifically bind to oligomannose-type glycans and GlcNAc at the non-reducing end terminus showed most potent and broad antiviral activity against a panel of mutant strains and variants, including the artificial mutants at N-/O-linked glycosylation site, natural existed amino acid mutants, as well as the epidemic variants B.1.1.7, B.1.351, and P.1. 31837192 2 24 gly glycoproteins 473:485 arg1 plant-derived glycoproteins plant-derived glycoproteins Fterm glycoproteins Plants, particularly Nicotiana benthamiana, are attractive hosts to produce recombinant glycoproteins, and recent advances in glyco-engineering facilitate customized N-glycosylation of plant-derived glycoproteins. 31837192 2 36 gly glycoproteins 362:374 arg1 recombinant glycoproteins recombinant glycoproteins Fterm glycoproteins Plants, particularly Nicotiana benthamiana, are attractive hosts to produce recombinant glycoproteins, and recent advances in glyco-engineering facilitate customized N-glycosylation of plant-derived glycoproteins. 31837192 2 78 gly N-glycosylation 440:454 arg1 plant-derived glycoproteins plant-derived glycoproteins Fterm glycoproteins Plants, particularly Nicotiana benthamiana, are attractive hosts to produce recombinant glycoproteins, and recent advances in glyco-engineering facilitate customized N-glycosylation of plant-derived glycoproteins. 33139572 8 34 gly heterogeneity 1392:1404 arg1 glycans glycans Finally, based on the vast heterogeneity of glycans, we constructed a core glyco-synthesis map to delineate the glycosylation pathway responsible for the glycan diversity during the PFC development. 32663509 8 6 part_of B3GNT2 1727:1732 arg1 no disposition form of B3GNT2 no disposition PUBTATOR Site form of B3GNT2 Q9NY97 position The presence of a sink for UDP-GlcNAc in the form of B3GNT2 with no disposition may have also elevated the intracellular levels of this nucleotide as well as its downstream product, CMP-Neu5Ac. 26040437 2 31 part_of melittin 400:407 arg1 a melittin signal peptide melittin a melittin signal peptide PUBTATOR Site melittin 406130 peptide Biosynthesis, glycosylation and secretion of the HA1 proteins, with natural or a melittin signal peptide at the N-terminus and a six-histidine (6xHis) tag at the C-terminus, were examined in insect cells. 26040437 2 43 part_of proteins 372:379 arg1 a melittin signal peptide HA1 proteins a melittin signal peptide PUBTATOR Site HA1 proteins 23526 peptide Biosynthesis, glycosylation and secretion of the HA1 proteins, with natural or a melittin signal peptide at the N-terminus and a six-histidine (6xHis) tag at the C-terminus, were examined in insect cells. 31879931 6 17 gly glycosylation 931:943 arg2 a predetermined glycosylation site a predetermined glycosylation site site The first step is to prepare the GlcNAc peptide through automated solid-phase peptide synthesis (SPPS) by incorporating an Asn-linked GlcNAc moiety at a predetermined glycosylation site; and the second step is to transfer an N-glycan from the corresponding N-glycan oxazoline en bloc to the GlcNAc peptide by an endoglycosidase or its efficient glycosynthase mutant. 31879931 6 48 gly Asn-linked 887:896 arg1 an Asn-linked GlcNAc moiety Asn an Asn-linked GlcNAc moiety Asn The first step is to prepare the GlcNAc peptide through automated solid-phase peptide synthesis (SPPS) by incorporating an Asn-linked GlcNAc moiety at a predetermined glycosylation site; and the second step is to transfer an N-glycan from the corresponding N-glycan oxazoline en bloc to the GlcNAc peptide by an endoglycosidase or its efficient glycosynthase mutant. 30169771 2 20 gly repeats 317:323 arg1 the Notch receptors receptors repeats Fterm receptors One of the O-linked glycans added to epidermal growth factor-like (EGF) repeats in animal proteins including the Notch receptors is the xylose-xylose-glucose-O oligosaccharide. 30169771 2 20 gly repeats 317:323 arg1 animal proteins proteins repeats Fterm proteins One of the O-linked glycans added to epidermal growth factor-like (EGF) repeats in animal proteins including the Notch receptors is the xylose-xylose-glucose-O oligosaccharide. 31341641 1 32 gly glycoprotein 238:249 arg1 the surface envelope glycoprotein (gp120) the surface envelope glycoprotein (gp120) Fterm glycoprotein The transmission fitness and pathogenesis of HIV-1 is disproportionately influenced by evolution in the five variable regions (V1-V5) of the surface envelope glycoprotein (gp120). 30243592 3 56 part_of Btk 625:627 arg1 the Btk kinase domain Btk the Btk kinase domain PUBTATOR Site Btk 695 domain Starting from a fragment, we discovered a novel series of potent covalent irreversible Btk inhibitors that bear N-linked groups occupying the solvent accessible pocket (SAP) of the active site of the Btk kinase domain. 31164864 5 45 part_of residues 910:917 arg1 target proteins proteins residues Fterm Site proteins residues O-GlcNAcylation of proteins is controlled by two enzymes: the O-GlcNAc transferase (OGT), which transfers a monosaccharide to serine/threonine residues on target proteins, and the O-GlcNAcase (OGA), which removes it. 32535395 10 16 gly fucosylated 1495:1505 arg1 fewer fucosylated termini fewer fucosylated termini termini Glycosylation changed dramatically in pregnancy in the luminal and superficial gland epithelium, with fewer fucosylated termini, more N-acetyl galactosamine residues, together with an overall reduction in sialic acid and several other sugar structures. 31604106 8 14 gly O-glycosylation 1517:1531 arg1 intracellular proteins intracellular proteins Fterm proteins The LC-MS/MS analysis and Phaseolus vulgaris leucoagglutinin (PHA-L) lectin blot analysis showed that Ugp2 overexpression significantly increased the total galactosylation levels of intracellular proteins and the O-glycosylation of recombinant hCG protein. 30697857 8 55 gly N-glycosylated 1179:1192 arg1 N-glycosylated proteins N-glycosylated proteins Fterm proteins Strikingly, we observe a positive E-R correlation among N-glycosylated proteins. 33092920 0 55 gly glycoproteins 28:40 arg1 the goat milk glycoproteins the goat milk glycoproteins Fterm glycoproteins Alteration of the goat milk glycoproteins N/O-glycome at different lactation stages. 31194940 4 34 gly N88 730:732 arg1 a conserved N-linked glycan N88 a conserved N-linked glycan N88 We show that ACS202 CDRH3 forms a "β strand" interaction with the exposed hydrophobic FP and recognizes a continuous region of gp120, including a conserved N-linked glycan at N88. 31892091 2 64 gly used 428:431 arg2 The O126-glycopeptide The O126-glycopeptide O126-glycopeptide The O126-glycopeptide of rhEPO was used to optimize the methodology given its importance in quality control of biopharmaceuticals and doping analysis. 31892091 2 40 gly O126-glycopeptide 397:413 arg2 The O126-glycopeptide rhEPO O126-glycopeptide OGER rhEPO P29676 O126-glycopeptide The O126-glycopeptide of rhEPO was used to optimize the methodology given its importance in quality control of biopharmaceuticals and doping analysis. 31337705 7 16 gly sialylated 1086:1095 arg1 no sialylated Lewis A no sialylated Lewis A MS and immunohistochemistry analyses indicated that suLeA motifs were present predominantly on O-linked glycans initiated by GalNAc residues, but no sialylated Lewis A was detected. 31516400 1 13 gly glycoprotein 146:157 arg1 BACKGROUND N-linked glycoprotein BACKGROUND N-linked glycoprotein Fterm glycoprotein BACKGROUND N-linked glycoprotein is a highly interesting class of proteins for clinical and biological research. 33677548 1 48 gly glycosylation 304:316 arg2 glycosylation sites glycosylation sites sites Recent years have seen great advances in the development of glycoproteomics protocols and methods resulting in a sustainable increase in the reporting proteins, their attached glycans and glycosylation sites. 30838579 2 11 gly glycoprotein 243:254 arg1 N-linked glycoprotein N-linked glycoprotein Fterm glycoprotein One category of NCPs is termed the SIBLING (small integrin-binding ligand, N-linked glycoprotein) family, which includes osteopontin (OPN), bone sialoprotein (BSP), dentin matrix protein 1 (DMP1), dentin sialophosphoprotein (DSPP), etc. 34888356 9 22 gly terminus 1907:1914 arg1 α2,3-sialic acid terminus α2,3-sialic acid terminus In particular, it was confirmed that α2,3-sialic acid at the terminus of biantennary N-glycan was the epitope associated with BD. 31194940 1 4 part_of glycoprotein 156:167 arg1 The fusion peptide glycoprotein The fusion peptide Fterm Site glycoprotein peptide The fusion peptide (FP) of HIV-1 envelope glycoprotein (Env) is essential for mediating viral entry. 33435207 1 52 gly protein 233:239 arg1 the four N-linked glycans protein the four N-linked glycans Fterm protein The structures of the four N-linked glycans from the prototype chlorovirus PBCV-1 major capsid protein do not resemble any other glycans in the three domains of life. 30982611 3 55 part_of protein 525:531 arg1 the protein 51 amino acid residues protein the protein 51 amino acid residues Fterm Site protein residues This variant, located in the final exon of GPC4, results in premature termination of the protein 51 amino acid residues prior to the stop codon, and in concomitant loss of functionally important N-linked glycosylation (Asn514) and glycosylphosphatidylinositol (GPI) anchor (Ser529) sites. 28591079 7 69 part_of sequences 967:975 arg1 predicted-N-linked-glycosylation sites sequences predicted-N-linked-glycosylation sites sites The frequencies of sequences with predicted-N-linked-glycosylation sites and C-X-C chemokine receptor type 4 were comparable in aqueous humor and plasma of all five patients. 30158294 8 94 part_of site 1100:1103 arg1 SERINC5 SERINC5 site PUBTATOR Site SERINC5 256987 site Our results demonstrate that N294 is the major site of N-glycosylation in SERINC5. 29273674 7 39 part_of tail 1073:1076 arg1 Alg2 Alg2 tail PUBTATOR Site Alg2 852815 tail The conserved C-terminal EX7E motif, N-terminal cytosolic tail, and 3 G-rich loop motifs in Alg2 play crucial roles for these activities, both in vitro and in vivo. 29273674 7 68 part_of motif 1045:1049 arg1 Alg2 Alg2 motif PUBTATOR Site Alg2 852815 motif The conserved C-terminal EX7E motif, N-terminal cytosolic tail, and 3 G-rich loop motifs in Alg2 play crucial roles for these activities, both in vitro and in vivo. 29273674 7 72 part_of motifs 1097:1102 arg1 Alg2 Alg2 motifs PUBTATOR Site Alg2 852815 motifs The conserved C-terminal EX7E motif, N-terminal cytosolic tail, and 3 G-rich loop motifs in Alg2 play crucial roles for these activities, both in vitro and in vivo. 28057501 5 85 part_of had 879:881 arg1 The protein AND the four functional domains The protein the four functional domains Fterm Site protein domains The protein deduced from the PYC gene had no signal peptide, was a homotetramer (4), and had the four functional domains. 28057501 5 55 part_of had 828:830 arg1 The protein AND no signal peptide The protein no signal peptide Fterm Site protein peptide The protein deduced from the PYC gene had no signal peptide, was a homotetramer (4), and had the four functional domains. 29590630 5 39 part_of FG-Nup214 942:950 arg1 the FG-Nup214 sequence Nup214 the FG-Nup214 sequence PUBTATOR Site Nup214 46091 sequence Unexpectedly, this behavior appears not to be encoded selectively into CRM1 but rather into the FG-Nup214 sequence. 34813786 7 50 gly glycoproteins 1283:1295 arg1 glycoproteins glycoproteins Fterm glycoproteins These results could imply that an ancestral tunicate ST3Gal-I in C. savignyi would prefer O-glycan onto glycoproteins as its sialic acid acceptor than vertebrate enzymes. 29969454 3 63 gly glycosylation 606:618 arg2 two potential N-linked glycosylation sites two potential N-linked glycosylation sites sites Our findings showed that 16 residues that changed antigenicity, two potential N-linked glycosylation sites, and one amino acid in the receptor binding site of the HA protein changed significantly from 2011-2014. 32409993 5 31 gly occupied 716:723 arg2 all 14 potential N-glycosylation sites all 14 potential N-glycosylation sites sites We found that all 14 potential N-glycosylation sites on BRI1 were occupied with oligosaccharides. 32409993 5 62 gly N-glycosylation 681:695 arg2 all 14 potential N-glycosylation sites all 14 potential N-glycosylation sites sites We found that all 14 potential N-glycosylation sites on BRI1 were occupied with oligosaccharides. 29793953 6 34 gly glycosylation 1227:1239 arg2 sites sites sites Tagged NTCP introduced to both HepG2 and HepaRG cells was glycosylated, with N5 and N11 being sites of N-linked glycosylation. 33026663 9 46 gly glycoproteins 1329:1341 arg1 glycoproteins glycoproteins Fterm glycoproteins These data underline the importance of analysis of glycan structures attached to glycoproteins, demonstrate different impact of N-glycans on the surface charge and enzyme stability in regard to particular reaction environment, and provide a platform for improvement of yield of industrial enzymatic synthesis by chromatographic selection of glycoforms on monolithic supports. 33026663 9 74 gly attached 1317:1324 arg2 glycoproteins AND glycan structures glycoproteins glycan structures Fterm glycoproteins These data underline the importance of analysis of glycan structures attached to glycoproteins, demonstrate different impact of N-glycans on the surface charge and enzyme stability in regard to particular reaction environment, and provide a platform for improvement of yield of industrial enzymatic synthesis by chromatographic selection of glycoforms on monolithic supports. 29350927 5 52 part_of hmGlu3 1142:1147 arg1 the amino terminal domain mGlu3 the amino terminal domain PUBTATOR Site mGlu3 108069 domain Crystallization of 8p with the amino terminal domain of hmGlu3 revealed critical binding interactions for this ligand with residues adjacent to the glutamate binding site, while pharmacokinetic assessment of 8p combined with its effect in an mGlu2 receptor-dependent behavioral model provides estimates for doses of this compound that would be expected to selectively engage and activate central mGlu3 receptors in vivo. 34869209 10 10 gly N-glycosites 1244:1255 arg2 N-glycosites N-glycosites N-glycosites Comparison of the whole cell-derived WA1 and D614G spike proteins revealed that N-glycosites local to the mutation site appeared to be more readily detected, hinting that these sites are more exposed to glycosylation machinery. 32627435 6 65 gly fucosylated 1246:1256 arg1 fucosylated structures fucosylated structures Specifically, terminal galactose on afucosylated IgG1 mAbs enhanced ADCC activity with impact coefficients (ADCC%/Gal%) more than 20, but had minimal influence on ADCC activity on fucosylated structures with impact coefficient in the range of 0.1-0.2. 28734139 10 2 part_of N-linked 1539:1546 arg1 N-linked glycosylation sites strain N-linked glycosylation sites Fterm Site strain sites Both substitutions carried by this strain were located on antigenic sites and caused losses of N-linked glycosylation sites of the virus, which could potentially affect viral antigenicity. 34520098 1 24 gly sialylated 125:134 arg1 a fully sialylated tetraantennary N-glycan a fully sialylated tetraantennary N-glycan The chemical synthesis of a fully sialylated tetraantennary N-glycan has been achieved for the first time by using the diacetyl strategy, in which NHAc is protected as NAc2 to improve reactivity by preventing intermolecular hydrogen bonds. 29093093 2 56 gly glycoprotein 288:299 arg1 the spike (S) glycoprotein the spike (S) glycoprotein Fterm glycoprotein They utilize the spike (S) glycoprotein anchored in the viral envelope to mediate host attachment and fusion of the viral and cellular membranes to initiate infection. 32965048 9 71 gly N-glycosites 1849:1860 arg2 200 N-glycosites 200 N-glycosites N-glycosites Next, 146 linkage structures and 200 N-glycosites were confirmed with structure-diagnostic and GlcNAc-containing site-determining product ions, respectively. 33004438 1 65 gly Asn-linked 147:156 arg1 Mammalian Asn-linked glycans Asn Mammalian Asn-linked glycans Asn Mammalian Asn-linked glycans are extensively processed as they transit the secretory pathway to generate diverse glycans on cell surface and secreted glycoproteins. 33004438 1 81 gly glycoproteins 287:299 arg1 secreted glycoproteins secreted glycoproteins Fterm glycoproteins Mammalian Asn-linked glycans are extensively processed as they transit the secretory pathway to generate diverse glycans on cell surface and secreted glycoproteins. 31696430 3 50 gly glycosylation 659:671 arg2 putative N-linked glycosylation sites putative N-linked glycosylation sites sites The structural profile of 5-HTHdh displayed key features of G protein-coupled receptors, including seven hydrophobic transmembrane domains, putative N-linked glycosylation sites, and several phosphorylation consensus motifs. 29622560 4 70 part_of ADAMTS-5 622:629 arg1 the catalytic domain ADAMTS-5 the catalytic domain OGER Site ADAMTS-5 Q9UNA0 domain APPROACH AND RESULTS A model of aortic dilatation by AngII (angiotensin II) infusion was adopted in mice lacking the catalytic domain of ADAMTS-5 (Adamts5Δcat). 33270232 8 33 gly glycoprotein 957:968 arg1 anti-Ub glycoprotein antibodies anti-Ub glycoprotein antibodies Fterm glycoprotein Conversely, anti-Ub glycoprotein antibodies are well maintained in circulation. 31176190 4 6 gly glycoproteins 612:624 arg1 glycoproteins glycoproteins Fterm glycoproteins This is not often the case with glycopeptides or glycoproteins as these may reveal increased complexity in terms of heterogeneity in protein-glycan stoichiometry and restricted enzyme accessibility. 31176190 4 36 gly glycopeptides 595:607 arg2 glycopeptides glycopeptides glycopeptides This is not often the case with glycopeptides or glycoproteins as these may reveal increased complexity in terms of heterogeneity in protein-glycan stoichiometry and restricted enzyme accessibility. 30242111 5 53 gly glycosites 903:912 arg2 1733 N-linked glycosites 1733 N-linked glycosites glycosites A total of 2946 proteins, 1733 N-linked glycosites and 4100 phosphosites were identified and quantified in this study, disclosing overrepresented processes related to oxidative stress, protein folding and regulation of apoptosis in past-infected placentas Moreover, AKT and ERK signaling pathways activation, together with clinical data, were further correlated to an increased apoptosis in past-infected placentas. 30587575 1 3 gly serine 181:186 arg1 O-GlcNAcylation serine O-GlcNAcylation serine O-GlcNAcylation is a post-translational modification of a protein serine or threonine residue catalyzed by O-GlcNAc transferase (OGT) in the nucleus and cytoplasm. 30587575 1 20 gly residue 201:207 arg1 O-GlcNAcylation threonine residue O-GlcNAcylation threonine residue O-GlcNAcylation is a post-translational modification of a protein serine or threonine residue catalyzed by O-GlcNAc transferase (OGT) in the nucleus and cytoplasm. 33177111 6 30 part_of had 772:774 arg1 CD55 AND one N-linked glycosylation site CD55 one N-linked glycosylation site OGER Site CD55 P08174 site CD55 had one N-linked glycosylation site in addition to a Ser/Thr-rich domain, which was expected to be heavily O-glycosylated. 29997173 6 0 part_of immunoreceptor 1258:1271 arg1 the intracellular immunoreceptor tyrosine-based inhibitory motif receptor the intracellular immunoreceptor tyrosine-based inhibitory motif Fterm Site receptor motif Thus, soluble CD52 exerts a concerted immunosuppressive effect by first sequestering HMGB1 to nullify its proinflammatory Box B, followed by binding to the inhibitory Siglec-10 receptor, triggering recruitment of SHP1 to the intracellular immunoreceptor tyrosine-based inhibitory motif of Siglec-10 and its interaction with the TCR. 29997173 6 16 part_of Siglec-10 1308:1316 arg1 the intracellular immunoreceptor tyrosine-based inhibitory motif Siglec-10 the intracellular immunoreceptor tyrosine-based inhibitory motif OGER Site Siglec-10 Q96LC7 motif Thus, soluble CD52 exerts a concerted immunosuppressive effect by first sequestering HMGB1 to nullify its proinflammatory Box B, followed by binding to the inhibitory Siglec-10 receptor, triggering recruitment of SHP1 to the intracellular immunoreceptor tyrosine-based inhibitory motif of Siglec-10 and its interaction with the TCR. 33377107 4 28 gly glycoproteins 538:550 arg1 N- and/or O-linked glycoproteins N- and/or O-linked glycoproteins Fterm glycoproteins This procedure can be modified and applied to a variety of N- and/or O-linked glycoproteins. 34343291 6 55 gly ectodomain 963:972 arg1 leucine-rich repeat L1 domain ectodomain leucine-rich repeat L1 domain ectodomain We studied the effects of removal of sialic acid on the glycan, as well as on the dynamics of leucine-rich repeat L1 domain of the IR ectodomain. 34343291 6 76 gly leucine-rich 923:934 arg1 leucine-rich repeat L1 domain leucine leucine-rich repeat L1 domain leucine We studied the effects of removal of sialic acid on the glycan, as well as on the dynamics of leucine-rich repeat L1 domain of the IR ectodomain. 31281932 7 33 gly glycoprotein 959:970 arg1 glycoprotein substrates glycoprotein substrates Fterm glycoprotein sialyltransferase using glycoprotein substrates in a 96-well microtiter-plate-based assay. 33167210 6 64 gly glycopeptides 1009:1021 arg2 Forty-four glycopeptides Forty-four glycopeptides glycopeptides Forty-four glycopeptides were quantified in all samples, showing mainly complex-type glycans with high levels of fucosylation and sialylation. 33030205 0 60 gly glycopeptide 43:54 arg2 a proline-specific glycopeptide recognition domain a proline-specific glycopeptide recognition domain glycopeptide Structural evidence for a proline-specific glycopeptide recognition domain in an O-glycopeptidase. 30566493 3 53 gly glycosylation 804:816 arg2 four potential N-linked glycosylation sites four potential N-linked glycosylation sites sites Isolated envelope sequences were analyzed by deep-sequencing showing a small number of dominant changes, including the loss of four potential N-linked glycosylation sites and disruption of the V1/V2 loop. 34279906 2 11 gly glycosylation 566:578 arg2 glycosylation sites glycosylation sites sites Native mass spectrometry has transformed our ability to study glycoproteins, and despite advances in high-resolution instrumentation, there are comparatively a few studies demonstrating its potential with data largely limited to an overall measure of monosaccharide composition for all glycans across glycosylation sites for a given protein. 34279906 2 24 gly glycoproteins 327:339 arg1 glycoproteins glycoproteins Fterm glycoproteins Native mass spectrometry has transformed our ability to study glycoproteins, and despite advances in high-resolution instrumentation, there are comparatively a few studies demonstrating its potential with data largely limited to an overall measure of monosaccharide composition for all glycans across glycosylation sites for a given protein. 31333671 2 16 part_of IgE 230:232 arg1 IgE sequences IgE IgE sequences PUBTATOR Site IgE P01854 sequences Although numerous studies have investigated IgE sequences in allergic patients, little information is available on the healthy IgE repertoire. 31600726 3 18 gly N-glycans 330:338 arg1 the FSHβ subunit subunit N-glycans Fterm subunit Differences in the number of N-glycans on the FSHβ subunit result in distinct glycoforms: hypo-glycosylated (FSH21/18, glycans absent on either Asn24 or Asn7, respectively) or fully-glycosylated (FSH24, glycans present on both Asn7 and Asn24). 31600726 3 82 gly present 512:518 arg1 Asn7 AND glycans Asn7 and Asn24 glycans Asn7 and Asn24 Differences in the number of N-glycans on the FSHβ subunit result in distinct glycoforms: hypo-glycosylated (FSH21/18, glycans absent on either Asn24 or Asn7, respectively) or fully-glycosylated (FSH24, glycans present on both Asn7 and Asn24). 28734139 10 30 gly glycosylation 1548:1560 arg2 N-linked glycosylation sites N-linked glycosylation sites sites Both substitutions carried by this strain were located on antigenic sites and caused losses of N-linked glycosylation sites of the virus, which could potentially affect viral antigenicity. 31821735 6 50 gly glycosylation 1163:1175 arg1 sites sites sites We employ a well-established experimental system that uses N-linked glycosylation of sites within the protein as a measure to assess the extent of membrane insertion and the topology it assumes when inserted into the ER membrane. 35026558 4 19 gly residues 855:862 arg1 the saccharide primers residues in the saccharide primers residues in The amounts of glycosylated products were dependent on the amino acid residues in the saccharide primers. 30980499 8 69 gly glycoproteins 1018:1030 arg1 biglycan transforming growth factor beta 1 biglycan PUBTATOR transforming growth factor beta 1 7040 Collagens, proteoglycans, small integrin-binding ligand N-linked glycoproteins (SIBLINGs), and growth factors, such as COL1A1, biglycan, dentin sialoprotein, and transforming growth factor beta 1, were identified. 30980499 8 69 gly glycoproteins 1018:1030 arg1 biglycan COL1A1 biglycan PUBTATOR COL1A1 1277 Collagens, proteoglycans, small integrin-binding ligand N-linked glycoproteins (SIBLINGs), and growth factors, such as COL1A1, biglycan, dentin sialoprotein, and transforming growth factor beta 1, were identified. 30980499 8 69 gly glycoproteins 1018:1030 arg1 biglycan glycoproteins biglycan Fterm glycoproteins Collagens, proteoglycans, small integrin-binding ligand N-linked glycoproteins (SIBLINGs), and growth factors, such as COL1A1, biglycan, dentin sialoprotein, and transforming growth factor beta 1, were identified. 30980499 8 69 gly glycoproteins 1018:1030 arg1 dentin sialoprotein dentin sialoprotein biglycan PUBTATOR dentin sialoprotein 1834 Collagens, proteoglycans, small integrin-binding ligand N-linked glycoproteins (SIBLINGs), and growth factors, such as COL1A1, biglycan, dentin sialoprotein, and transforming growth factor beta 1, were identified. 31826991 1 94 part_of hemagglutinin 183:195 arg1 Seasonal influenza carrying key hemagglutinin (HA) head region glycosylation sites hemagglutinin Seasonal influenza carrying key hemagglutinin (HA) head region glycosylation sites Fterm Site hemagglutinin sites Seasonal influenza carrying key hemagglutinin (HA) head region glycosylation sites can be removed from the lung by pulmonary surfactant protein D (SP-D). 31067000 0 46 part_of Variable 24:31 arg1 the Variable Domain Variable the Variable Domain Cterm Variable N-Linked Glycans in the Variable Domain of IgG Anti-Citrullinated Protein Antibodies Predict the Development of Rheumatoid Arthritis. 32384234 4 51 gly glycopeptides 962:974 arg2 glycopeptides glycopeptides glycopeptides Consistent with previous reports by others, we found that sulfation and sialylation drastically alter the MS2 fragmentation pattern of glycopeptides in negative mode and the characteristic features identified can be utilized to program the most informative MS3 on the glycan moiety itself. 32364434 2 33 gly glycoproteins 393:405 arg1 therapeutic glycoproteins therapeutic glycoproteins Fterm glycoproteins The stability, serum half-life, immunogenicity, and biological activity of therapeutic glycoproteins, including antibodies, vaccines, and biomarkers, are regulated by their glycosylation profile. 31498587 6 55 part_of MUC1 926:929 arg1 MUC1 glycopeptides MUC1 MUC1 glycopeptides PUBTATOR Site MUC1 17829 glycopeptides The IgG antibodies recognized a wide range of MUC1 glycopeptides bearing diverse glycans. 34631661 1 53 gly glycosylated 269:280 arg1 the extensively glycosylated spike (S) protein the extensively glycosylated spike (S) protein Fterm protein The severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) virus utilizes the extensively glycosylated spike (S) protein protruding from the viral envelope to bind to angiotensin-converting enzyme-related carboxypeptidase (ACE2) as its primary receptor to mediate host-cell entry. 31067000 13 88 gly glycosylation 1868:1880 arg1 the IgG ACPA V domain the IgG ACPA V domain domain Based on these findings, we propose that glycosylation of the IgG ACPA V domain represents a predictive marker for RA development in ACPA-positive individuals and may serve to better target prevention measures. 32817340 4 42 gly modifications 735:747 arg1 S-layer protein protein modifications Fterm protein Here we describe the structural characterization of the N-linked glycan modifications on the archaellins and S-layer protein of Methanothermococcus thermolithotrophicus, a methanogen that grows optimally at 65 °C. SDS-PAGE and MS analysis revealed that the sheared archaella are composed principally of two of the four predicted archaellins, FlaB1 and FlaB3, which are modified with a branched, heptameric glycan at all N-linked sequons except for the site closest to the N termini of both proteins. 32817340 4 65 gly sequons 1092:1098 arg1 a branched, heptameric glycan a branched, heptameric glycan Here we describe the structural characterization of the N-linked glycan modifications on the archaellins and S-layer protein of Methanothermococcus thermolithotrophicus, a methanogen that grows optimally at 65 °C. SDS-PAGE and MS analysis revealed that the sheared archaella are composed principally of two of the four predicted archaellins, FlaB1 and FlaB3, which are modified with a branched, heptameric glycan at all N-linked sequons except for the site closest to the N termini of both proteins. 31722217 7 3 gly glycans 1129:1135 arg1 these sites these sites these sites Site sites Our work shows the combinatorial and context-dependent roles of GlcNAc-fucose-O glycans on these sites in Drosophila Notch-ligand interactions. 29920571 5 17 gly glycopeptides 939:951 arg2 glycopeptides glycopeptides glycopeptides Furthermore, it also achieved outstanding performance in enriching glycopeptides from complex biological samples. 36303733 1 49 part_of protein 181:187 arg1 composition S) protein composition OGER Site S) protein P04004 position Background: The N-glycan structure and composition of the spike (S) protein of SARS-CoV-2 are pertinent to vaccine development and efficacy. 30023808 5 19 gly glycoproteins 1243:1255 arg1 323 different glycoproteins 323 different glycoproteins Fterm glycoproteins Moreover, Fe3O4-PEI-pMaltose NPs were further utilized to selectively enrich glycopeptides from human renal mesangial cell (HRMC, 200 μg) tryptic digest, and 449 N-linked glycopeptides, representing 323 different glycoproteins and 476 glycosylation sites, were identified. 30023808 5 38 gly glycopeptides 1107:1119 arg2 glycopeptides glycopeptides glycopeptides Moreover, Fe3O4-PEI-pMaltose NPs were further utilized to selectively enrich glycopeptides from human renal mesangial cell (HRMC, 200 μg) tryptic digest, and 449 N-linked glycopeptides, representing 323 different glycoproteins and 476 glycosylation sites, were identified. 30023808 5 74 gly glycopeptides 1201:1213 arg2 449 N-linked glycopeptides 449 N-linked glycopeptides glycopeptides Moreover, Fe3O4-PEI-pMaltose NPs were further utilized to selectively enrich glycopeptides from human renal mesangial cell (HRMC, 200 μg) tryptic digest, and 449 N-linked glycopeptides, representing 323 different glycoproteins and 476 glycosylation sites, were identified. 30023808 5 86 gly glycosylation 1265:1277 arg2 476 glycosylation sites 476 glycosylation sites sites Moreover, Fe3O4-PEI-pMaltose NPs were further utilized to selectively enrich glycopeptides from human renal mesangial cell (HRMC, 200 μg) tryptic digest, and 449 N-linked glycopeptides, representing 323 different glycoproteins and 476 glycosylation sites, were identified. 33525794 1 12 gly glycoproteins 340:352 arg1 complex glycoproteins complex glycoproteins Fterm glycoproteins The demonstration more than a decade ago that glycoproteins could be produced in Escherichia coli cells equipped with the N-linked protein glycosylation machinery from Campylobacter jejuni opened the door to using simple bacteria for the expression and engineering of complex glycoproteins. 33525794 1 34 gly glycoproteins 110:122 arg1 glycoproteins glycoproteins Fterm glycoproteins The demonstration more than a decade ago that glycoproteins could be produced in Escherichia coli cells equipped with the N-linked protein glycosylation machinery from Campylobacter jejuni opened the door to using simple bacteria for the expression and engineering of complex glycoproteins. 31696430 3 62 part_of receptors 579:587 arg1 putative N-linked glycosylation sites receptors putative N-linked glycosylation sites Fterm Site receptors sites The structural profile of 5-HTHdh displayed key features of G protein-coupled receptors, including seven hydrophobic transmembrane domains, putative N-linked glycosylation sites, and several phosphorylation consensus motifs. 31696430 3 62 part_of receptors 579:587 arg1 seven hydrophobic transmembrane domains receptors seven hydrophobic transmembrane domains Fterm Site receptors domains The structural profile of 5-HTHdh displayed key features of G protein-coupled receptors, including seven hydrophobic transmembrane domains, putative N-linked glycosylation sites, and several phosphorylation consensus motifs. 31696430 3 62 part_of receptors 579:587 arg1 several phosphorylation consensus motifs receptors several phosphorylation consensus motifs Fterm Site receptors motifs The structural profile of 5-HTHdh displayed key features of G protein-coupled receptors, including seven hydrophobic transmembrane domains, putative N-linked glycosylation sites, and several phosphorylation consensus motifs. 34780171 7 8 part_of glycoproteins 1605:1617 arg1 2434 N-glycosites glycoproteins 2434 N-glycosites Fterm Site glycoproteins N-glycosites To the best of our knowledge, the result with 2742 sialoglycopeptides among 7367 unique glycopeptides and 166 glycans from 2434 N-glycosites of 1118 glycoproteins (Byonic score > 100) provides one of the deepest glycoproteomic profiles in single-cell type. 31337704 7 95 gly glycoproteins 1759:1771 arg1 specific glycoproteins specific glycoproteins Fterm glycoproteins We observed that MAGT1-dependent glycosylation is sensitive to Mg2+ levels and that reduced Mg2+ impairs immune-cell function via the loss of specific glycoproteins. 34450331 0 57 gly glycoprotein 25:36 arg1 glycoprotein conformational changes glycoprotein conformational changes Fterm glycoprotein Systems-wide analysis of glycoprotein conformational changes by limited deglycosylation assay. 32168410 1 8 gly glycoprotein 189:200 arg1 The protective/inhibitory B subunits The protective/inhibitory B subunits Fterm subunits BACKGROUND The protective/inhibitory B subunits of coagulation factor XIII (FXIII-B) is a ~80 kDa glycoprotein containing two N-glycosylation sites. 32168410 1 8 gly glycoprotein 189:200 arg1 a ~80 kDa glycoprotein a ~80 kDa glycoprotein Fterm glycoprotein BACKGROUND The protective/inhibitory B subunits of coagulation factor XIII (FXIII-B) is a ~80 kDa glycoprotein containing two N-glycosylation sites. 32168410 1 59 gly N-glycosylation 217:231 arg2 two N-glycosylation sites two N-glycosylation sites sites BACKGROUND The protective/inhibitory B subunits of coagulation factor XIII (FXIII-B) is a ~80 kDa glycoprotein containing two N-glycosylation sites. 32258897 7 33 gly arm 1183:1185 arg1 outer arm fucose outer arm fucose N-glycans consisted of a mixture of bi-, tri-, and tetra-antennary glycans, some with N-acetyllactosamine extensions, but neither outer arm fucose nor α-galactose was detected. 34232571 4 24 part_of glycoproteins 633:645 arg1 intact glycopeptides glycoproteins intact glycopeptides Fterm Site glycoproteins glycopeptides In this protocol, we detail a workflow for comprehensive analyses of intact glycopeptides (IGPs), glycosylation sites, and glycans from N-linked glycoproteins. 34232571 4 24 part_of glycoproteins 633:645 arg1 glycosylation sites glycoproteins glycosylation sites Fterm Site glycoproteins sites In this protocol, we detail a workflow for comprehensive analyses of intact glycopeptides (IGPs), glycosylation sites, and glycans from N-linked glycoproteins. 31516400 7 26 part_of N-glycoproteins 1305:1319 arg1 more than 30,000 glycosite-containing peptides N-glycoproteins more than 30,000 glycosite-containing peptides Fterm Site N-glycoproteins peptides RESULTS The N-GlycositeAtlas database contains more than 30,000 glycosite-containing peptides (representing > 14,000 N-glycosylation sites) from more than 7200 N-glycoproteins from different biological sources including human-derived tissues, body fluids and cell lines from over 100 studies. 31516400 7 26 part_of N-glycoproteins 1305:1319 arg1 representing > 14,000 N-glycosylation sites N-glycoproteins representing > 14,000 N-glycosylation sites Fterm Site N-glycoproteins sites RESULTS The N-GlycositeAtlas database contains more than 30,000 glycosite-containing peptides (representing > 14,000 N-glycosylation sites) from more than 7200 N-glycoproteins from different biological sources including human-derived tissues, body fluids and cell lines from over 100 studies. 31516400 7 17 part_of contains 1183:1190 arg1 The N-GlycositeAtlas database AND more than 30,000 glycosite-containing peptides The N-GlycositeAtlas database more than 30,000 glycosite-containing peptides Fterm Site database peptides RESULTS The N-GlycositeAtlas database contains more than 30,000 glycosite-containing peptides (representing > 14,000 N-glycosylation sites) from more than 7200 N-glycoproteins from different biological sources including human-derived tissues, body fluids and cell lines from over 100 studies. 31516400 7 17 part_of contains 1183:1190 arg1 The N-GlycositeAtlas database AND representing > 14,000 N-glycosylation sites The N-GlycositeAtlas database representing > 14,000 N-glycosylation sites Fterm Site database sites RESULTS The N-GlycositeAtlas database contains more than 30,000 glycosite-containing peptides (representing > 14,000 N-glycosylation sites) from more than 7200 N-glycoproteins from different biological sources including human-derived tissues, body fluids and cell lines from over 100 studies. 33629527 7 83 gly N-glycosylation 1269:1283 arg2 N-glycosylation sites N-glycosylation sites sites Detailed analysis of the HA N-glycan microheterogeneity showed an increasing variability and a higher complexity for N-glycosylation sites located closer to the head region of the molecule. 32764711 4 46 gly linked 599:604 arg2 the E protein AND N-glycans the E protein N-glycans Fterm protein In this regard, the main purpose of our study was to investigate the profile of N-glycans linked to the E protein of TBEV when grown in human neuronal cells and compare it to the profile of virus grown in tick cells. 30956133 5 15 gly proteins 642:649 arg1 hypersialylation proteins hypersialylation Fterm proteins 6480 Functional ST6Gal-I in exomeres can be transferred to cells, resulting in hypersialylation of recipient cell-surface proteins including β1-integrin. 30956133 5 50 gly hypersialylation 599:614 arg1 recipient cell-surface proteins recipient cell-surface proteins Fterm proteins 6480 Functional ST6Gal-I in exomeres can be transferred to cells, resulting in hypersialylation of recipient cell-surface proteins including β1-integrin. 29920571 6 33 gly glycopeptides 998:1010 arg2 273 glycopeptides 273 glycopeptides glycopeptides In all, 273 glycopeptides corresponding to 94 glycoproteins were identified from only 2 μL human serum. 29920571 6 35 gly glycoproteins 1032:1044 arg1 94 glycoproteins 94 glycoproteins Fterm glycoproteins In all, 273 glycopeptides corresponding to 94 glycoproteins were identified from only 2 μL human serum. 31168022 12 63 part_of contain 1705:1711 arg1 both proteins AND N-glycosylation sites both proteins N-glycosylation sites Fterm Site proteins sites N-glycosidase F digestion of the 110 kDa GP and desmocollin suggested that although both proteins contain N-glycosylation sites, they are not identical. 34192331 3 36 gly attached 433:440 arg1 the IgG-Fc region AND the N-glycan structures the IgG-Fc region the N-glycan structures region While the N-glycan structures attached to the IgG-Fc region are generally heterogenous, IgGs engineered to be homogenously glycosylated with functional N-glycans may improve the efficacy of antibodies. 31628985 5 34 part_of OGT-TPR 862:868 arg1 the OGT-TPR domain OGT the OGT-TPR domain PUBTATOR Site OGT 8473 domain By extended steered and equilibrium atomistic simulations, we show that the OGT-TPR domain acts as an elastic nanospring, and that each of the ID-related local mutations substantially affect the global dynamics of the TPR domain. 31628985 5 45 part_of TPR 1004:1006 arg1 the TPR domain TPR the TPR domain OGER Site TPR P12270 domain By extended steered and equilibrium atomistic simulations, we show that the OGT-TPR domain acts as an elastic nanospring, and that each of the ID-related local mutations substantially affect the global dynamics of the TPR domain. 28303575 2 37 gly glycosylation 321:333 arg2 its N-linked glycosylation site its N-linked glycosylation site site Human monocyte populations express Dectin-1 isoforms A and B, which differ by the presence of a stalk region and its N-linked glycosylation site. 29997173 3 61 part_of HMGB1 589:593 arg1 the proinflammatory Box B domain HMGB1 the proinflammatory Box B domain OGER Site HMGB1 P09429 domain CD52-Fc bound specifically to the proinflammatory Box B domain of HMGB1, and this in turn promoted binding of the CD52 N-linked glycan, in α-2,3 sialic acid linkage with galactose, to Siglec-10. 29045410 6 29 gly glycosylation 1260:1272 arg2 predicted N-linked glycosylation sites predicted N-linked glycosylation sites sites As previously reported for men, time to peak diversity in env-gp120 in women was positively associated with time to CD4+ cell count below 200 (P = 0.017), and the number of predicted N-linked glycosylation sites generally increased over time, followed by a plateau or decline, with the majority of changes localized to the V1-V2 region. 29917166 2 18 gly glycoproteins 261:273 arg1 small integrin‑binding ligand N‑linked glycoproteins small integrin‑binding ligand N‑linked glycoproteins Fterm glycoproteins Studies have demonstrated that small integrin‑binding ligand N‑linked glycoproteins (SIBLINGs), particularly bone sialoprotein (BSP) and osteopontin (OPN), are involved in neoplastic growth and metastasis. 32441515 3 27 gly glycoproteins 523:535 arg1 glycoproteins glycoproteins Fterm glycoproteins Mass spectrometry (MS) is one of the most efficient tools used in the current studies of glycoproteins and structure of their glycoforms. 34128680 9 21 gly glycosylation 1975:1987 arg1 peptide self-assembly peptide self-assembly peptide These observations add to the understanding of the effect of glycosylation on peptide self-assembly and should guide future efforts to develop biomaterials from synthetic β-sheet fibrillizing glycopeptides. 34128680 9 32 gly glycopeptides 2106:2118 arg2 synthetic β-sheet fibrillizing glycopeptides synthetic β-sheet fibrillizing glycopeptides glycopeptides These observations add to the understanding of the effect of glycosylation on peptide self-assembly and should guide future efforts to develop biomaterials from synthetic β-sheet fibrillizing glycopeptides. 30032777 7 17 gly glycopeptides 1291:1303 arg2 low-abundance N-linked glycopeptides low-abundance N-linked glycopeptides glycopeptides Therefore, this hydrophilic MOP-coated adsorbent would be applied in the enrichment and identification of low-abundance N-linked glycopeptides in complicated biological samples. 30991145 0 23 part_of sites 23:27 arg1 G protein G protein sites OGER Site G protein sites N-linked glycosylation sites in G protein of infectious hematopoietic necrosis virus (IHNV) affect its virulence and immunogenicity in rainbow trout. 30296064 1 32 gly proteins 132:139 arg1 O-GlcNAc proteins O-GlcNAc Fterm proteins The modification of proteins with O-linked N-acetylglucosamine ( O-GlcNAc) by the enzyme O-GlcNAc transferase (OGT) has emerged as an important regulator of cellular physiology. 30296064 1 32 gly proteins 132:139 arg1 O-linked N-acetylglucosamine proteins O-linked N-acetylglucosamine Fterm proteins The modification of proteins with O-linked N-acetylglucosamine ( O-GlcNAc) by the enzyme O-GlcNAc transferase (OGT) has emerged as an important regulator of cellular physiology. 34450331 5 108 gly glycoprotein 921:932 arg1 glycoprotein extracts glycoprotein extracts Fterm glycoprotein The method was then applied to glycoprotein extracts from LLC-MK2 epithelial cells upon treatment with dithiothreitol to induce endoplasmic reticulum stress and promote protein misfolding. 28939828 7 14 gly glycoprotein 1403:1414 arg1 glycoprotein substrates glycoprotein substrates Fterm glycoprotein These findings provide structural insights into the working mechanism whereby UGGT operates as a folding-sensor against a variety of glycoprotein substrates through its flexible modular structure possessing extended hydrophobic surfaces for the recognition of unfolded substrates. 29869806 1 19 gly glycosylation 262:274 arg1 proteins proteins Fterm proteins Congenital disorders of glycosylation (CDG) are rare autosomal genetic diseases affecting the glycosylation of proteins and lipids. 31306420 1 114 part_of protein 208:214 arg1 amino acid position 154-156 protein amino acid position 154-156 Fterm Site protein position 154 The N-linked glycosylation motif at amino acid position 154-156 of the envelope (E) protein of West Nile virus (WNV) is linked to enhanced murine neuroinvasiveness, avian pathogenicity and vector competence. 30487799 3 32 gly glycosylation 473:485 arg2 each glycosylation site each glycosylation site site In order to characterize these site-specific N-glycans, we conducted the first study of the N-glycans of each glycosylation site of the grass carp serum IgM. 30487799 3 52 gly site 487:490 arg1 the N-glycans site the N-glycans site In order to characterize these site-specific N-glycans, we conducted the first study of the N-glycans of each glycosylation site of the grass carp serum IgM. 33629527 8 32 gly N-glycosylated 1386:1399 arg2 site N73 NA N73 Cterm NA 4758 N73 In contrast, NA was found to be exclusively N-glycosylated at site N73. 31516400 7 33 gly N-glycoproteins 1305:1319 arg1 more than 7200 N-glycoproteins more than 7200 N-glycoproteins Fterm N-glycoproteins RESULTS The N-GlycositeAtlas database contains more than 30,000 glycosite-containing peptides (representing > 14,000 N-glycosylation sites) from more than 7200 N-glycoproteins from different biological sources including human-derived tissues, body fluids and cell lines from over 100 studies. 31516400 7 50 gly N-glycosylation 1262:1276 arg2 more than 30,000 glycosite-containing peptides more than 30,000 glycosite-containing peptides peptides RESULTS The N-GlycositeAtlas database contains more than 30,000 glycosite-containing peptides (representing > 14,000 N-glycosylation sites) from more than 7200 N-glycoproteins from different biological sources including human-derived tissues, body fluids and cell lines from over 100 studies. 31516400 7 50 gly N-glycosylation 1262:1276 arg2 representing > 14,000 N-glycosylation sites representing > 14,000 N-glycosylation sites sites RESULTS The N-GlycositeAtlas database contains more than 30,000 glycosite-containing peptides (representing > 14,000 N-glycosylation sites) from more than 7200 N-glycoproteins from different biological sources including human-derived tissues, body fluids and cell lines from over 100 studies. 31281932 2 51 gly glycosylation 322:334 arg1 the protein the protein Fterm protein Therapeutic efficacy and serum half-life are particularly important, and these properties rely heavily on the glycosylation state of the protein. 29531238 6 18 gly glycoproteins 1081:1093 arg1 40 glycoproteins 40 glycoproteins Fterm glycoproteins nsSNVs causing loss of 24 NLGs on 23 glycoproteins and nsSNVs creating 41 NLGs on 40 glycoproteins are identified in three or more cancers. 29531238 6 52 gly glycoproteins 1033:1045 arg1 23 glycoproteins 23 glycoproteins Fterm glycoproteins nsSNVs causing loss of 24 NLGs on 23 glycoproteins and nsSNVs creating 41 NLGs on 40 glycoproteins are identified in three or more cancers. 34229070 7 4 part_of domain 1216:1221 arg1 the region domain the region region We found a dense cluster of truncated O-glycans on the region nearby beginning of E2 domain and high abundance of sialylated O-glycans on the region close to β-cleavage site. 34229070 7 45 part_of region 1273:1278 arg1 E2 domain region E2 domain domain We found a dense cluster of truncated O-glycans on the region nearby beginning of E2 domain and high abundance of sialylated O-glycans on the region close to β-cleavage site. 30535277 10 39 gly fucosylated 1759:1769 arg1 fucosylated N/O-glycans fucosylated N/O-glycans This study could facilitate the discovery of biomarkers for HC and HCC based on precise alterations of fucosylated N/O-glycans in saliva. 33177111 8 47 gly nonsialylated 1193:1205 arg1 nonsialylated core 1 nonsialylated core 1 The O-glycan profile of CD55 demonstrated a shift in abundance to nonsialylated core 1 and monosialylated core 2 at the expense of the disialylated core 2 structure after ST3GAL1 silencing. 33177111 8 52 gly monosialylated 1218:1231 arg1 monosialylated core 2 monosialylated core 2 The O-glycan profile of CD55 demonstrated a shift in abundance to nonsialylated core 1 and monosialylated core 2 at the expense of the disialylated core 2 structure after ST3GAL1 silencing. 33177111 8 61 gly disialylated 1262:1273 arg1 the disialylated core 2 structure the disialylated core 2 structure The O-glycan profile of CD55 demonstrated a shift in abundance to nonsialylated core 1 and monosialylated core 2 at the expense of the disialylated core 2 structure after ST3GAL1 silencing. 33030205 2 24 gly glycans 382:388 arg1 their active sites their active sites their active sites Site sites A class of peptidases, referred to as glycopeptidases or O-glycopeptidases, circumvent the protective effect of glycans against proteolysis by accommodating the glycans in their active sites as specific features of substrate recognition. 32171833 7 76 gly composition 1281:1291 arg1 the six legume polysaccharides position the six legume polysaccharides position Composition analysis indicated that the six legume polysaccharides were obviously different in moisture, ash, neutral sugar, uronic acid, total phenolic content, total flavonoid content, amino acid composition and monosaccharide composition. 32842538 2 43 gly N-glycosylated 290:303 arg1 envelope (E) protein envelope (E) protein Fterm protein Two Zika virus (ZIKV) structural proteins, the pre-membrane (prM) and envelope (E) protein are N-glycosylated. 32842538 2 43 gly N-glycosylated 290:303 arg1 Two Zika virus (ZIKV) structural proteins Two Zika virus (ZIKV) structural proteins Fterm proteins Two Zika virus (ZIKV) structural proteins, the pre-membrane (prM) and envelope (E) protein are N-glycosylated. 28528272 9 19 gly glycosylated 1282:1293 arg1 glycosylated prolegumain glycosylated prolegumain Fterm prolegumain While glycosylated prolegumain was able to autoactivate, the unglycosylated form was not, and addition of glycosaminoglycans did not facilitate autoactivation of unglycosylated prolegumain. 28528272 9 51 gly unglycosylated 1438:1451 arg1 unglycosylated prolegumain unglycosylated prolegumain Fterm prolegumain While glycosylated prolegumain was able to autoactivate, the unglycosylated form was not, and addition of glycosaminoglycans did not facilitate autoactivation of unglycosylated prolegumain. 32469948 9 55 gly glycoproteins 1416:1428 arg1 human glycoproteins human glycoproteins Fterm glycoproteins This study lays a cornerstone of glycosylation engineering in K. marxianus toward producing human glycoproteins. 32965048 6 59 gly peptide 1302:1308 arg1 the GlcNAc-containing site-determining peptide backbone the GlcNAc-containing site-determining peptide backbone For this, we used b/y product ion pairs from the GlcNAc-containing site-determining peptide backbone and structure-diagnostic product ions from the N-glycan moieties, respectively. 29782851 5 42 part_of C1q 805:807 arg1 the C1q domain C1q the C1q domain PUBTATOR Site C1q 12259 domain These mutations did not influence subunit composition of Cbln trimeric complexes (mediated through the C1q domain) nor their assembly into hexamers (mediated by the N-terminal region). 31333671 8 13 gly glycosylation 1000:1012 arg2 N-linked glycosylation motifs N-linked glycosylation motifs motifs Many IgE sequences contained N-linked glycosylation motifs. 32915505 0 17 gly Glycans 40:46 arg1 the Receptor Binding Domain Domain Glycans Fterm Domain Structural Characterization of N-Linked Glycans in the Receptor Binding Domain of the SARS-CoV-2 Spike Protein and their Interactions with Human Lectins. 30852271 2 14 part_of protein 327:333 arg1 the N-terminal ectodomain M protein the N-terminal ectodomain OGER Site M protein P54296 ectodomain Previous studies show that the N-terminal ectodomain of M protein is modified by glycosylation, but its precise functions are yet to be thoroughly investigated. 28778927 6 23 gly glycosylation 1144:1156 arg2 N-linked glycosylation sites N-linked glycosylation sites sites Most of the identified sequences contain predicted secretion leader sequences, N-linked glycosylation sites, and a putative site of tyrosine sulfation. 31308178 5 20 gly sialylated 1110:1119 arg1 sialylated N-glycans sialylated N-glycans We provide evidence that cell surface-associated VEGFR2 displays sialylated N-glycans at Asn-247 and, in contrast, that the nearby sites Asn-145 and Asn-160 contain lower levels of sialylated N-glycans and higher levels of high-mannose N-glycans, respectively. 31308178 5 52 gly sialylated 994:1003 arg1 sialylated N-glycans sialylated N-glycans We provide evidence that cell surface-associated VEGFR2 displays sialylated N-glycans at Asn-247 and, in contrast, that the nearby sites Asn-145 and Asn-160 contain lower levels of sialylated N-glycans and higher levels of high-mannose N-glycans, respectively. 32364434 10 51 gly glycoprotein 2038:2049 arg1 glycoprotein therapeutics glycoprotein therapeutics Fterm glycoprotein This approach can automate the high-throughput screening of glycosylation on large sample sets of glycoproteins, including clinical glycan biomarkers and glycoprotein therapeutics. 32364434 10 99 gly glycoproteins 1982:1994 arg1 clinical glycan biomarkers glycoproteins clinical glycan biomarkers Fterm glycoproteins This approach can automate the high-throughput screening of glycosylation on large sample sets of glycoproteins, including clinical glycan biomarkers and glycoprotein therapeutics. 32364434 10 99 gly glycoproteins 1982:1994 arg1 glycoproteins glycoproteins clinical glycan biomarkers Fterm glycoproteins This approach can automate the high-throughput screening of glycosylation on large sample sets of glycoproteins, including clinical glycan biomarkers and glycoprotein therapeutics. 32364434 10 99 gly glycoproteins 1982:1994 arg1 glycoproteins glycoproteins clinical glycan biomarkers Fterm glycoproteins This approach can automate the high-throughput screening of glycosylation on large sample sets of glycoproteins, including clinical glycan biomarkers and glycoprotein therapeutics. 31067000 13 8 part_of IgG 1889:1891 arg1 the IgG ACPA V domain IgG the IgG ACPA V domain Cterm Site IgG domain Based on these findings, we propose that glycosylation of the IgG ACPA V domain represents a predictive marker for RA development in ACPA-positive individuals and may serve to better target prevention measures. 32915505 5 52 gly glycoprotein 904:915 arg1 the glycoprotein perspective the glycoprotein perspective Fterm glycoprotein Complementary experiments from the glycoprotein perspective or from the lectin's point of view have permitted to disentangle the specific interacting epitopes in each case. 33273015 5 28 gly Asn355/Asn391-glycosylation 574:600 arg2 Asn355/Asn391-glycosylation sites Asn355/Asn391-glycosylation sites sites Occlusion of the Asn355/Asn391-glycosylation sites and the Asn323-/Asn483-glycans, located in the MPO dimerisation zone, was found to affect the local glycan processing, thereby providing a molecular basis of the site-specific nMPO glycosylation. 31879931 4 11 gly N-glycopeptides 691:705 arg2 large complex N-glycopeptides large complex N-glycopeptides N-glycopeptides Among them, the chemoenzymatic method based on an endoglycosidase-catalyzed ligation of free N-glycans and GlcNAc-tagged peptides is emerging as a highly efficient method for constructing large complex N-glycopeptides. 30712865 3 7 gly glycoproteins 592:604 arg1 the SARS-CoV and MERS-CoV S glycoproteins the SARS-CoV and MERS-CoV S glycoproteins Fterm glycoproteins To understand the humoral immune response elicited upon natural infections with coronaviruses, we structurally characterized the SARS-CoV and MERS-CoV S glycoproteins in complex with neutralizing antibodies isolated from human survivors. 33577335 4 14 gly glycoproteins 688:700 arg1 The obtained homogeneous glycoproteins The obtained homogeneous glycoproteins Fterm glycoproteins The obtained homogeneous glycoproteins allow for the demonstration of the stabilizing role of N-glycans during the folding step. 31371405 2 8 part_of contains 333:340 arg1 DDR-2 AND a discoidin domain DDR-2 a discoidin domain PUBTATOR Site DDR-2 180622 domain In Caenorhabditis elegans, axon regeneration is regulated by DDR-2, a receptor tyrosine kinase (RTK) that contains a discoidin domain and modulates the Met-like SVH-2 RTK-JNK MAP kinase signaling pathway. 31371405 2 8 part_of contains 333:340 arg1 a receptor tyrosine kinase AND a discoidin domain a receptor tyrosine kinase a discoidin domain Fterm Site kinase domain In Caenorhabditis elegans, axon regeneration is regulated by DDR-2, a receptor tyrosine kinase (RTK) that contains a discoidin domain and modulates the Met-like SVH-2 RTK-JNK MAP kinase signaling pathway. 31783892 3 37 gly glycosylated 508:519 arg1 the glycosylated residue the glycosylated residue residue in Considering that the codon of Asparagine is aac or aat, we wondered if the adenine base editor (ABE), which induces a·t to g·c conversion at specific site, could be used to reduce PD-1 suppression by changing the glycosylated residue in CAR-T cells. 32699088 10 44 gly glycosylation 1903:1915 arg2 N-linked glycosylation sites N-linked glycosylation sites sites Sequence analyses of the influenza A virus (IAV) surface antigen neuraminidase (NA or N) showed that the conservation of N-linked glycosylation sites on the NA enzymatic head domain differs by IAV subtype (H1N1 versus H3N2) and species of origin, with human-derived IAVs possessing the most variability. 28970495 4 7 part_of CD22 557:560 arg1 The CD22 ectodomain CD22 The CD22 ectodomain PUBTATOR Site CD22 933 ectodomain The CD22 ectodomain adopts an extended conformation that facilitates concomitant CD22 nanocluster formation on B cells and binding to trans ligands to avert autoimmunity in mammals. 31041386 7 38 gly O-GlcNAc 1006:1013 arg1 chromatin-associated proteins proteins O-GlcNAc Fterm proteins Analysis of resulting next-generation DNA sequencing data revealed that O-GlcNAc on chromatin-associated proteins at most genomic loci is processed with a half-life in hours. 29772801 6 36 part_of lamin 651:655 arg1 residues 385⁻646 lamin A residues 385⁻646 PUBTATOR Site lamin A 4000 residues In vitro assays with purified O-GlcNAc transferase (OGT) enzyme showed robust O-GlcNAcylation of recombinant mature lamin A tails (residues 385⁻646), with no detectable modification of lamin B1, lamin C, or 'progerin' (Δ50) tails. 29772801 6 36 part_of lamin 651:655 arg1 recombinant mature lamin A tails lamin A recombinant mature lamin A tails PUBTATOR Site lamin A 4000 tails In vitro assays with purified O-GlcNAc transferase (OGT) enzyme showed robust O-GlcNAcylation of recombinant mature lamin A tails (residues 385⁻646), with no detectable modification of lamin B1, lamin C, or 'progerin' (Δ50) tails. 29772801 6 41 part_of A 657:657 arg1 residues 385⁻646 lamin A residues 385⁻646 PUBTATOR Site lamin A 4000 residues In vitro assays with purified O-GlcNAc transferase (OGT) enzyme showed robust O-GlcNAcylation of recombinant mature lamin A tails (residues 385⁻646), with no detectable modification of lamin B1, lamin C, or 'progerin' (Δ50) tails. 29772801 6 41 part_of A 657:657 arg1 recombinant mature lamin A tails lamin A recombinant mature lamin A tails PUBTATOR Site lamin A 4000 tails In vitro assays with purified O-GlcNAc transferase (OGT) enzyme showed robust O-GlcNAcylation of recombinant mature lamin A tails (residues 385⁻646), with no detectable modification of lamin B1, lamin C, or 'progerin' (Δ50) tails. 34717971 2 17 gly glycoprotein 489:500 arg1 the glycoprotein the glycoprotein Fterm glycoprotein The low yields of the soluble form of the trimeric spike (S) glycoprotein from SARS-CoV-2 has prompted advances in protein engineering that have greatly enhanced the stability and yields of the glycoprotein. 34717971 2 31 gly glycoprotein 356:367 arg1 the trimeric spike (S) glycoprotein the trimeric spike (S) glycoprotein Fterm glycoprotein The low yields of the soluble form of the trimeric spike (S) glycoprotein from SARS-CoV-2 has prompted advances in protein engineering that have greatly enhanced the stability and yields of the glycoprotein. 31616924 9 91 gly disialylated 1526:1537 arg1 the branched disialylated structure the branched disialylated structure Modeling suggested that C-terminal glycosylation, particularly the branched disialylated structure, could interact across domains including the receptor-binding domain. 30250045 10 69 part_of HEG1 1524:1527 arg1 the specific region HEG1 the specific region PUBTATOR Site HEG1 Q9ULI3 region The specific detection of mesothelioma with SKM9-2 can thus be performed by the recognition of sialylated glycan modification in the specific region of HEG1. 28542923 5 40 part_of PSA-mimicking 1137:1149 arg1 the PSA-mimicking peptide PSA the PSA-mimicking peptide OGER Site PSA P07288 peptide Idarubicin and irinotecan compete with the PSA-mimicking peptide and colominic acid, the bacterial analog of PSA, for binding to the PSA-specific monoclonal antibody 735. 28542923 5 74 part_of PSA 1203:1205 arg1 the PSA-mimicking peptide PSA the PSA-mimicking peptide OGER Site PSA P07288 peptide Idarubicin and irinotecan compete with the PSA-mimicking peptide and colominic acid, the bacterial analog of PSA, for binding to the PSA-specific monoclonal antibody 735. 32326134 5 46 part_of BSM 1404:1406 arg1 the four domains BSM the four domains PUBTATOR Site BSM 100140959 domains O-glycosylation sites were identified using O-glycopeptides (bold underlined; 56SGETRTSVI, 259SHSSSGRSRTI, 272GSPSSVSSAEQI, 307RPSYGAL, 625QTLGPL, 728TMTTRTSVVV, and 1080RPEDNTAVA) obtained from proteolytic BSM; these sites are in the four domains of BSM. 32038294 0 85 gly Increase 6:13 arg1 O-GlcNAc Increase O-GlcNAc Fterm Increase Acute Increase in O-GlcNAc Improves Survival in Mice With LPS-Induced Systemic Inflammatory Response Syndrome. 33377107 2 7 gly glycoproteins 352:364 arg1 glycoproteins glycoproteins Fterm glycoproteins Glycoproteomics analyzes intact glycopeptides to examine site-specific microheterogeneity of glycoproteins. 33377107 2 13 gly microheterogeneity 330:347 arg1 glycoproteins glycoproteins Fterm glycoproteins Glycoproteomics analyzes intact glycopeptides to examine site-specific microheterogeneity of glycoproteins. 33377107 2 23 gly glycopeptides 291:303 arg2 intact glycopeptides intact glycopeptides glycopeptides Glycoproteomics analyzes intact glycopeptides to examine site-specific microheterogeneity of glycoproteins. 31142619 3 23 gly glycoproteins 602:614 arg1 intracellular parasite glycoproteins intracellular parasite glycoproteins Fterm glycoproteins The cyst wall is known to have abundant O-linked N-acetylgalactosamine glycans, but the existing metabolic labeling methods do not allow selective labeling of intracellular parasite glycoproteins without labeling of host glycans. 31800099 6 19 gly glycosylation 998:1010 arg1 human lipoprotein homeostasis human lipoprotein homeostasis Fterm lipoprotein Our study provides insight into the role of protein glycosylation in human lipoprotein homeostasis. 31019513 5 71 gly glycosylation 1061:1073 arg2 12 N-linked glycosylation sites 12 N-linked glycosylation sites sites CD22 is highly glycosylated, containing 12 N-linked glycosylation sites on its extracellular domain, the function of which remain to be resolved. 34495528 7 10 gly glycoproteins 1008:1020 arg1 some glycoproteins some glycoproteins Fterm glycoproteins Despite the N-glycan-dependent folding process, some glycoproteins do not fold correctly, and these misfolded glycoproteins are destined to degradation by proteasomes in the cytosol. 34495528 7 58 gly glycoproteins 1065:1077 arg1 these misfolded glycoproteins these misfolded glycoproteins Fterm glycoproteins Despite the N-glycan-dependent folding process, some glycoproteins do not fold correctly, and these misfolded glycoproteins are destined to degradation by proteasomes in the cytosol. 33993882 4 30 gly glycoproteins 715:727 arg1 glycoproteins' functions glycoproteins' functions Fterm glycoproteins Changes in N-glycosylation can ultimately affect glycoproteins' functions, which will have an impact on cell machinery. 29718541 2 15 gly nonglycoprotein 337:351 arg1 the bona fide nonglycoprotein Nox5 the bona fide nonglycoprotein Nox5 Fterm nonglycoprotein Here, we show that the bona fide nonglycoprotein Nox5, a transmembrane superoxide-producing NADPH oxidase, is transported to the cell surface in a manner resistant to co-expression of Sar1 (H79G), a GTP-fixed mutant of the small GTPase Sar1, which blocks COPII vesicle fission from the ER. 28591079 7 35 gly predicted-N-linked-glycosylation 982:1013 arg2 predicted-N-linked-glycosylation sites predicted-N-linked-glycosylation sites sites The frequencies of sequences with predicted-N-linked-glycosylation sites and C-X-C chemokine receptor type 4 were comparable in aqueous humor and plasma of all five patients. 32384234 3 94 gly glycopeptides 777:789 arg2 intact glycopeptides intact glycopeptides glycopeptides To address these issues, we explored the use of negative-mode MS2/MS3 fragmentation to supplement current nanoLC-MS2-based sequencing and identification of intact glycopeptides largely performed in positive mode. 28657654 5 9 gly peptide 1092:1098 arg1 O-GlcNAc peptide abundance O-GlcNAc peptide abundance Moreover, alteration of O-GlcNAc peptide abundance could be attributed more to O-GlcNAcylation level than to protein level changes. 28924042 5 90 part_of Gbb 724:726 arg1 the Gbb prodomain Gbb the Gbb prodomain PUBTATOR Site Gbb 37778 prodomain We hypothesized that the Gbb prodomain is involved not only in regulating the production of specific ligands but also their signaling output. 30368301 3 76 part_of has 422:424 arg1 hCG AND 8 potential glycosylation sites hCG 8 potential glycosylation sites OGER Site hCG sites hCG has 8 potential glycosylation sites leading to a high number of isoforms (including glycoforms and other post-translational modifications) that we are interesting to characterize. 33030205 0 14 part_of domain 68:73 arg1 an O-glycopeptidase O-glycopeptidase domain Fterm Site O-glycopeptidase domain Structural evidence for a proline-specific glycopeptide recognition domain in an O-glycopeptidase. 34869209 13 35 gly O-glycosites 1852:1863 arg2 O-glycosites O-glycosites O-glycosites Concerning O-glycosylation, our analyses revealed that HEK293 recombinant proteins possessed a range of O-glycosites with compositions consistent with Core type 1 and 2 glycans. 32441515 5 55 gly glycoforms 900:909 arg1 proteins proteins Fterm proteins Here we report the utility of CE modulation for qualitative and quantitative analysis of site- and structure-specific glycoforms of proteins. 32825463 3 23 gly fucosylated 285:295 arg1 fucosylated glycans fucosylated glycans For detection and functional modulation of fucosylated glycans, chemical biology approaches using fucose (Fuc) analogs are useful. 30991145 0 41 gly glycosylation 9:21 arg2 N-linked glycosylation sites N-linked glycosylation sites sites N-linked glycosylation sites in G protein of infectious hematopoietic necrosis virus (IHNV) affect its virulence and immunogenicity in rainbow trout. 33462887 6 16 gly glycosylation 1133:1145 arg2 glycosylation sites glycosylation sites sites We find that rather than the mass or length of glycoprotein modifications, the stability of DC-SIGN is better correlated with the number of glycosylation sites. 33462887 6 35 gly glycoprotein 1040:1051 arg1 glycoprotein modifications glycoprotein modifications Fterm glycoprotein We find that rather than the mass or length of glycoprotein modifications, the stability of DC-SIGN is better correlated with the number of glycosylation sites. 33908012 1 13 gly glycosylated 222:233 arg1 glycosylated therapeutic proteins glycosylated therapeutic proteins Fterm proteins The presence of sialic acids is one characteristic of glycosylated therapeutic proteins. 29339807 3 59 gly glycoprotein 543:554 arg1 glycoprotein fucosylation glycoprotein fucosylation While the relationship between the abnormal expression of FUT8 and glycoprotein fucosylation in different prostate cancer cells has been demonstrated, there is no evidence that shows dysregulated fucosylation might be involved in prostate cancer progression from androgen-dependent to castration-resistant prostate cancer. 28778927 6 63 part_of contain 1089:1095 arg1 the identified sequences AND predicted secretion leader sequences the identified sequences predicted secretion leader sequences sequences Most of the identified sequences contain predicted secretion leader sequences, N-linked glycosylation sites, and a putative site of tyrosine sulfation. 28778927 6 63 part_of contain 1089:1095 arg1 the identified sequences AND a putative site the identified sequences a putative site site Most of the identified sequences contain predicted secretion leader sequences, N-linked glycosylation sites, and a putative site of tyrosine sulfation. 28778927 6 63 part_of contain 1089:1095 arg1 the identified sequences AND N-linked glycosylation sites the identified sequences N-linked glycosylation sites sites Most of the identified sequences contain predicted secretion leader sequences, N-linked glycosylation sites, and a putative site of tyrosine sulfation. 34343291 6 70 part_of IR 960:961 arg1 the IR ectodomain IR the IR ectodomain PUBTATOR Site IR 3643 ectodomain We studied the effects of removal of sialic acid on the glycan, as well as on the dynamics of leucine-rich repeat L1 domain of the IR ectodomain. 29339411 0 8 gly Fragment 145:152 arg1 Rhamnose Fragment Rearrangement Rhamnose Fragment Rearrangement Flagellin Glycoproteomics of the Periodontitis Associated Pathogen Selenomonas sputigena Reveals Previously Not Described O-glycans and Rhamnose Fragment Rearrangement Occurring on the Glycopeptides. 31455637 3 55 part_of AGF 552:554 arg1 5 available AGF genome sequences AGF 5 available AGF genome sequences OGER Site AGF Q8NI99 sequences We sequenced 21 AGF transcriptomes and combined them with 5 available AGF genome sequences to explore their evolutionary relationships, time their divergence, and characterize gene gain/loss patterns associated with their evolution. 29237830 0 55 gly Glycosylation 74:86 arg1 Dystroglycan Dystroglycan Axl Can Serve as Entry Factor for Lassa Virus Depending on the Functional Glycosylation of Dystroglycan. 28614667 8 57 gly N130 1586:1589 arg1 a single GlcNAc residue N130 a single GlcNAc residue N130 Characterization of peptide-binding affinities of purified N → Q CTR ECD glycan site mutants combined with PNGase F and Endo H treatment strategies and mass spectrometry to define the glycan species indicated that a single GlcNAc residue at CTR N130 was responsible for the peptide affinity enhancement. 33116178 6 32 gly motifs 1052:1057 arg1 core fucosylation core fucosylation All enzymes were localized in the plant Golgi apparatus, which allowed us to identify the SmFucTs involved in core fucosylation and the synthesis of complex antennary glycan motifs. 33116178 6 35 gly fucosylation 993:1004 arg1 complex antennary glycan motifs complex antennary glycan motifs All enzymes were localized in the plant Golgi apparatus, which allowed us to identify the SmFucTs involved in core fucosylation and the synthesis of complex antennary glycan motifs. 31067000 11 78 gly glycosylation 1622:1634 arg1 the IgG ACPA V domain the IgG ACPA V domain domain CONCLUSION Extensive glycosylation of the IgG ACPA V domain is present in a subset of predisposed FDRs of Indigenous North American RA patients. 28614667 6 11 gly removal 1058:1064 arg2 N-glycans AND N73 N73, N125, and N130 N-glycans N73, N125, and N130 PNGase F-catalyzed removal of N-glycans at N73, N125, and N130 in the CTR ECD decreased peptide affinity ∼10-fold, whereas Endo H-catalyzed trimming of the N-glycans to single GlcNAc residues had no effect on peptide binding. 28614667 6 11 gly removal 1058:1064 arg3 N-glycans AND N125 N73, N125, and N130 N-glycans N73, N125, and N130 PNGase F-catalyzed removal of N-glycans at N73, N125, and N130 in the CTR ECD decreased peptide affinity ∼10-fold, whereas Endo H-catalyzed trimming of the N-glycans to single GlcNAc residues had no effect on peptide binding. 28614667 6 11 gly removal 1058:1064 arg3 N-glycans AND N125 N73, N125, and N130 N-glycans N73, N125, and N130 PNGase F-catalyzed removal of N-glycans at N73, N125, and N130 in the CTR ECD decreased peptide affinity ∼10-fold, whereas Endo H-catalyzed trimming of the N-glycans to single GlcNAc residues had no effect on peptide binding. 29465311 5 49 gly glycoproteins 849:861 arg1 N-linked glycoproteins N-linked glycoproteins Fterm glycoproteins We found that p32 interacts with endoplasmic reticulum-anchored enzyme mannosyl-oligosaccharide glucosidase I (GCS1), an ER lumen-anchored glucosidase that is essential for the processing of N-linked glycoproteins, and reduces GCS1 in a lysosome-dependent manner. 30305738 3 92 part_of IRE1α-XBP1 508:517 arg1 the IRE1α-XBP1 arm IRE1 the IRE1α-XBP1 arm OGER IRE1 O75460 Here we report that ovarian cancer-an aggressive malignancy that is refractory to standard treatments and current immunotherapies5-8-induces endoplasmic reticulum stress and activates the IRE1α-XBP1 arm of the unfolded protein response9,10 in T cells to control their mitochondrial respiration and anti-tumour function. 30550897 1 7 part_of protein 296:302 arg1 threonine protein threonine Fterm AminoAcid protein threonine O-linked N-acetylglucosamine transferase (OGT) is an essential enzyme that catalyzes the covalent bonding of N-acetylglucosamine (GlcNAc) to the hydroxyl group of a serine or threonine in the target protein. 30550897 1 7 part_of protein 296:302 arg1 serine protein serine Fterm AminoAcid protein serine O-linked N-acetylglucosamine transferase (OGT) is an essential enzyme that catalyzes the covalent bonding of N-acetylglucosamine (GlcNAc) to the hydroxyl group of a serine or threonine in the target protein. 30550897 1 27 part_of threonine 272:280 arg1 the target protein protein threonine Fterm AminoAcid protein threonine O-linked N-acetylglucosamine transferase (OGT) is an essential enzyme that catalyzes the covalent bonding of N-acetylglucosamine (GlcNAc) to the hydroxyl group of a serine or threonine in the target protein. 30550897 1 37 part_of serine 262:267 arg1 the target protein protein serine Fterm AminoAcid protein serine O-linked N-acetylglucosamine transferase (OGT) is an essential enzyme that catalyzes the covalent bonding of N-acetylglucosamine (GlcNAc) to the hydroxyl group of a serine or threonine in the target protein. 29045410 7 68 gly system 1512:1517 arg1 composition composition position These findings strongly suggest that the sex differences in HIV-1 disease progression attributed to immune system composition and sensitivities are not revealed by, nor do they impact, global patterns of viral evolution, the latter of which proceeds similarly in women and men. 33453284 3 1 gly enzyme 508:513 arg1 antennae synthesis enzyme antennae synthesis Fterm enzyme Two new papers present a detailed structural and mechanistic investigation of β1-3-N-acetylgucosaminyltransferase 2, a key enzyme in antennae synthesis. 34110173 5 0 gly glycopeptide 1120:1131 arg2 the glycopeptide level the glycopeptide level glycopeptide The site-specificity of N-glycans was revealed at the glycopeptide level by pGlyco software using different proteases. 33263330 2 58 gly glycoproteins 267:279 arg1 Most glycoproteins Most glycoproteins Fterm glycoproteins Most glycoproteins contain N-linked glycosylation, a key post-translation modification that critically affects protein folding and stability and the binding kinetics underlying protein interactions. 30919021 4 42 gly glycosylation 470:482 arg1 N113 N113 N113 Our studies show that glycosylation of N259, but not N113, by STT3B and magnesium transporter 1 (MAGT1) is augmented by VC. 30919021 4 42 gly glycosylation 470:482 arg1 N259 N259 N259 Our studies show that glycosylation of N259, but not N113, by STT3B and magnesium transporter 1 (MAGT1) is augmented by VC. 34343291 4 58 gly glycan-glycoprotein 637:655 arg1 glycan-glycoprotein glycan-glycoprotein How such modifications affect the glycan-glycoprotein dynamics, and ultimately their function is not clearly understood to date. 30834446 9 54 gly glycoprotein 1728:1739 arg1 the IHNV glycoprotein the IHNV glycoprotein Fterm glycoprotein To gain structural insight into the inhibitory effect of these galectins on IHNV attachment to the zebrafish epithelial cells, we modeled Drgal3-L1 based on human galectin-3, as well as, the ectodomain of the IHNV glycoprotein. 34279906 4 30 gly glycoprotein 894:905 arg1 remarkable glycoprotein structural details remarkable glycoprotein structural details Fterm glycoprotein To address this deficiency, we developed a new approach that joins native mass spectrometry with glycan exoglycosidase sequencing, the combination of which provides remarkable glycoprotein structural details. 30364948 2 30 gly di-glycosylated 333:347 arg1 an unusually di-glycosylated bacteriocin an unusually di-glycosylated bacteriocin Fterm bacteriocin Glycocin F (GccF) is an unusually di-glycosylated bacteriocin produced in a lactic acid bacterium, Lactobacillus plantarum KW30 that has been shown to be resistant to extreme conditions. 28474196 3 82 gly glycosylation 708:720 arg2 one N-linked glycosylation site one N-linked glycosylation site site Sequence alignment and phylogenetic analysis revealed a high degree of conservation (76-96%) among most fish and other vertebrates, retaining one N-linked glycosylation site, one N-terminal acetylation site, 13 phosphorylation sites, one fructose-1,6-bisphosphatase (FBPase) active site, five metal-binding sites, four substrate-binding sites, and several AMP-binding sites. 30250045 6 61 gly O-glycosylated 762:775 arg1 an O-glycosylated region an O-glycosylated region region The epitope of SKM9-2 was identified as an O-glycosylated region, 893-SKSPSLVSLPT-903, in HEG1. 30250045 6 61 gly O-glycosylated 762:775 arg1 The epitope The epitope epitope The epitope of SKM9-2 was identified as an O-glycosylated region, 893-SKSPSLVSLPT-903, in HEG1. 31362688 8 23 part_of threonine 994:1002 arg1 target proteins proteins threonine Fterm AminoAcid proteins threonine residue RESULT GALNT14 catalyses the initial reaction in O-linked oligosaccharide biosynthesis, the transfer of an N-acetyl-D- galactosamine residue to a serine or threonine residue on target proteins especially Mucins. 31362688 8 61 part_of serine 984:989 arg1 target proteins proteins serine Fterm AminoAcid proteins serine RESULT GALNT14 catalyses the initial reaction in O-linked oligosaccharide biosynthesis, the transfer of an N-acetyl-D- galactosamine residue to a serine or threonine residue on target proteins especially Mucins. 34278967 7 59 gly lectin 1469:1474 arg1 the carbohydrate specificity lectin the carbohydrate specificity Fterm lectin Using structural information and determined N-glycan profile of S trimer, taking together with the carbohydrate specificity of lentil lectin, we provide a basis for the observed broad spectrum anti-SARS-CoV-2 activity. 29745666 4 18 gly glycoproteins 664:676 arg1 N-glycans glycoproteins N-glycans Fterm glycoproteins Herein, we evaluated the use of sodium deoxycholate (SDC) acidic labile detergent to release N-glycans of glycoproteins derived from biological samples such as cancer cell lines. 32298658 4 56 gly contain 673:679 arg1 avian-origin AND predominately complex-type glycans avian-origin predominately complex-type glycans Fterm avian-origin HAs 103990076 By contrast, poorly adapted avian-origin HAs contain predominately complex-type glycans, which have greater structural diversity. 30335141 6 26 gly glycoprotein 1060:1071 arg1 a co-transfected secretory membrane glycoprotein glycoprotein Fterm glycoprotein In transfected Chinese hamster ovary AP-1 cells, the Leu515Phe mutant protein was correctly targeted to the TGN/post-Golgi vesicles, but its N-linked oligosaccharide maturation as well as that of a co-transfected secretory membrane glycoprotein, vesicular stomatitis virus G (VSVG) glycoprotein, was reduced compared to cells co-expressing SLC9A7 wild-type and VSVG. 30335141 6 91 gly glycoprotein 1010:1021 arg1 a co-transfected secretory membrane glycoprotein glycoprotein Fterm glycoprotein In transfected Chinese hamster ovary AP-1 cells, the Leu515Phe mutant protein was correctly targeted to the TGN/post-Golgi vesicles, but its N-linked oligosaccharide maturation as well as that of a co-transfected secretory membrane glycoprotein, vesicular stomatitis virus G (VSVG) glycoprotein, was reduced compared to cells co-expressing SLC9A7 wild-type and VSVG. 30178920 3 8 gly glycopeptides 861:873 arg2 only four and three glycopeptides only four and three glycopeptides glycopeptides With IgG and horse radish peroxidase as the model glycoproteins, 28 and 17 glycopeptides could be identified respectively after enrichment with the monolith, only four and three glycopeptides could be obtained for direct analysis. 30178920 3 13 gly glycoproteins 733:745 arg1 the model glycoproteins the model glycoproteins Fterm glycoproteins With IgG and horse radish peroxidase as the model glycoproteins, 28 and 17 glycopeptides could be identified respectively after enrichment with the monolith, only four and three glycopeptides could be obtained for direct analysis. 30178920 3 59 gly glycopeptides 758:770 arg2 17 glycopeptides 17 glycopeptides glycopeptides With IgG and horse radish peroxidase as the model glycoproteins, 28 and 17 glycopeptides could be identified respectively after enrichment with the monolith, only four and three glycopeptides could be obtained for direct analysis. 31129958 6 3 gly glycopeptide 997:1008 arg2 glycopeptide glycopeptide glycopeptide We demonstrate the tool's efficiency by applying it to a set of 80 glycopeptide targets. 32681150 1 16 gly glycosylated 118:129 arg1 glycosylated proteins glycosylated proteins Fterm proteins The glycocalyx comprises glycosylated proteins and lipids and fcorms the outermost layer of cells. 34110173 3 79 part_of erythropoietin 620:633 arg1 enriched glycopeptides erythropoietin enriched glycopeptides PUBTATOR Site erythropoietin 2056 glycopeptides Permethylated N-glycans, peptides, and enriched glycopeptides of erythropoietin were analyzed by nanoLC-MS/MS, and de-N-glycosylated erythropoietin was measured by LC-MS, enabling the qualitative and quantitative analysis of glycosylation and different glycan modifications (e.g., phosphorylation and O-acetylation). 34110173 3 79 part_of erythropoietin 620:633 arg1 peptides erythropoietin peptides PUBTATOR Site erythropoietin 2056 peptides Permethylated N-glycans, peptides, and enriched glycopeptides of erythropoietin were analyzed by nanoLC-MS/MS, and de-N-glycosylated erythropoietin was measured by LC-MS, enabling the qualitative and quantitative analysis of glycosylation and different glycan modifications (e.g., phosphorylation and O-acetylation). 30487799 5 16 gly Asn-565 861:867 arg1 no glycan occupancy Asn-565 no glycan occupancy Asn-565 A striking decrease in the level of occupancy at the Asn-565 glycosite was observed in dimeric IgM compared to that in monomeric IgM, and no glycan occupancy of Asn-565 was observed in tetrameric IgM. 30487799 5 17 gly occupancy 848:856 arg2 Asn-565 Asn-565 Asn-565 A striking decrease in the level of occupancy at the Asn-565 glycosite was observed in dimeric IgM compared to that in monomeric IgM, and no glycan occupancy of Asn-565 was observed in tetrameric IgM. 30487799 5 46 gly glycosite 761:769 arg2 the Asn-565 glycosite the Asn-565 glycosite Asn-565 glycosite A striking decrease in the level of occupancy at the Asn-565 glycosite was observed in dimeric IgM compared to that in monomeric IgM, and no glycan occupancy of Asn-565 was observed in tetrameric IgM. 32809822 5 21 gly core-fucosylated 997:1012 arg1 core-fucosylated N-glycans core-fucosylated N-glycans Routinely, over 75 N-glycan species can be detected from one microliter of serum in less than 6.5 h. Additionally, endoglycosidase F3 was applied to this workflow to identify core-fucosylated N-glycans and displayed the adaptability of this method for the determination of structural information. 33347638 7 72 gly O-glycosylated 1395:1408 arg1 O-glycosylated proteins O-glycosylated proteins Fterm proteins RESULTS Lectin microarray analyses revealed that sera from patients with prostate cancer had a higher affinity for Jacalin, Amaranthus caudatus (ACA) lectin, and Maclura pomifera (MPA) lectin, compared with that from patients with benign prostatic diseases and normal subjects, suggesting that O-glycosylated proteins are more abundant in sera from patients with prostate cancer. 32938717 7 33 part_of 15-residue 1471:1480 arg1 a 15-residue peptide a 15 a 15-residue peptide OGER Site a 15 P41732 peptide The isolation of the mutated OSTs also enabled us to identify different enzymatic properties in OST complexes containing either the Ost3 or Ost6 subunit and to find a 15-residue peptide as a better-quality substrate than shorter peptides. 32452486 5 50 gly glycoprotein 847:858 arg1 glycoprotein solution glycoprotein solution Fterm glycoprotein With one drop (1 μL) of glycoprotein solution, our lectin-SERS assay can detect as low as 10 ng IgG within two hours with high glycan specificity. 31498587 6 87 gly glycopeptides 931:943 arg2 MUC1 glycopeptides MUC1 glycopeptides glycopeptides The IgG antibodies recognized a wide range of MUC1 glycopeptides bearing diverse glycans. 30320380 3 85 gly glycoproteins 608:620 arg1 the small integrin‑binding N‑linked glycoproteins family the small integrin‑binding N‑linked glycoproteins family Fterm glycoproteins Dentin sialophosphoprotein (DSPP), which is a member of the small integrin‑binding N‑linked glycoproteins family, has been implicated in malignant transformation and invasion of oral squamous cell carcinoma (OSCC). 33121334 2 13 gly glycosylation 391:403 arg2 more N-linked glycosylation sequons more N-linked glycosylation sequons Some lead clinical candidates, including antibodies CAP256-VRC26.25, N6, PGT121, and VRC07-523, have one or more N-linked glycosylation sequons in their variable domains (Fvs) from somatic hypermutation, and these glycans increase chemical heterogeneity, complicating the manufacture of these antibodies as products. 33171078 2 58 gly origin 277:282 arg1 galactose-alpha-1,3-galactose origin galactose-alpha-1,3-galactose Fterm origin In particular, glycans of nonhuman origin, such as galactose-alpha-1,3-galactose (gal-α-gal) and N-glycolylneuraminic acid (NGNA), in the Fc region of therapeutic mAbs produced from murine cell lines carry a risk of immunogenicity. 33171078 2 58 gly origin 277:282 arg1 N-glycolylneuraminic acid origin N-glycolylneuraminic acid Fterm origin In particular, glycans of nonhuman origin, such as galactose-alpha-1,3-galactose (gal-α-gal) and N-glycolylneuraminic acid (NGNA), in the Fc region of therapeutic mAbs produced from murine cell lines carry a risk of immunogenicity. 33171078 2 58 gly origin 277:282 arg1 glycans origin glycans Fterm origin In particular, glycans of nonhuman origin, such as galactose-alpha-1,3-galactose (gal-α-gal) and N-glycolylneuraminic acid (NGNA), in the Fc region of therapeutic mAbs produced from murine cell lines carry a risk of immunogenicity. 33171078 2 72 gly glycans 257:263 arg1 the Fc region the Fc region the Fc region Site region In particular, glycans of nonhuman origin, such as galactose-alpha-1,3-galactose (gal-α-gal) and N-glycolylneuraminic acid (NGNA), in the Fc region of therapeutic mAbs produced from murine cell lines carry a risk of immunogenicity. 33600485 4 2 gly occupancy 657:665 arg2 two glycosylation sites two glycosylation sites sites Strains are biochemically distinguished by a characteristic three-band immunoblot pattern, defined by differences in the occupancy of two glycosylation sites on the prion protein (PrP). 33600485 4 15 gly glycosylation 674:686 arg2 two glycosylation sites two glycosylation sites sites Strains are biochemically distinguished by a characteristic three-band immunoblot pattern, defined by differences in the occupancy of two glycosylation sites on the prion protein (PrP). 31425910 5 66 part_of kinase 1379:1384 arg1 the lipid binding site p38 mitogen activated protein kinase the lipid binding site PUBTATOR Site p38 mitogen activated protein kinase 1432 site The lipid tail has been then readily tailored by incorporating polyfluoroalkyl segments of varied lengths in view of favouring binding to the lipid binding site of the master p38 mitogen activated protein kinase (p38 MAPK), thereby polarizing the immune response in a cell-context dependent manner. 28366604 8 4 gly domain 1308:1313 arg1 a determinant domain a determinant domain Thus, we identified a determinant of the CD4i domain that might affect vaccine-elicited anti-V2 Ab and ADCC responses to SIVmac239. 28528272 14 15 gly glycosylation 2023:2035 arg1 prolegumain prolegumain Fterm prolegumain In conclusion, glycosylation of prolegumain is necessary for correct processing to active forms and internalization, whereas the inhibitory property of cystatin E/M is independent of the glycosylation status. 34401920 8 5 gly found 1070:1074 arg1 serum glycoproteins AND The N-glycan structures serum glycoproteins The N-glycan structures Fterm glycoproteins The N-glycan structures found in serum glycoproteins were mainly Man2FucGlcNAc2 (67.9%). 34401920 8 5 gly found 1070:1074 arg2 serum glycoproteins AND Man2FucGlcNAc2 serum glycoproteins Man2FucGlcNAc2 Fterm glycoproteins The N-glycan structures found in serum glycoproteins were mainly Man2FucGlcNAc2 (67.9%). 34401920 8 29 gly glycoproteins 1085:1097 arg1 serum glycoproteins serum glycoproteins Fterm glycoproteins The N-glycan structures found in serum glycoproteins were mainly Man2FucGlcNAc2 (67.9%). 30962950 10 10 gly core-fucosylated 1663:1678 arg1 its core-fucosylated glycan its core-fucosylated glycan Our study suggests that serum cf-QSOX1-S and tumor QSOX1 levels are helpful for predicting recurrence in HCC patients, and its core-fucosylated glycan at Asn-130 is critical for the inhibitory effects of QSOX1-S on invasion and metastasis of HCC. 30962950 10 41 gly Asn-130 1690:1696 arg1 its core-fucosylated glycan Asn-130 its core-fucosylated glycan Asn-130 Our study suggests that serum cf-QSOX1-S and tumor QSOX1 levels are helpful for predicting recurrence in HCC patients, and its core-fucosylated glycan at Asn-130 is critical for the inhibitory effects of QSOX1-S on invasion and metastasis of HCC. 31237748 1 4 gly proteins 181:188 arg1 Protein O-linked N-acetylglucosamine proteins Protein O-linked N-acetylglucosamine Fterm proteins Protein O-linked N-acetylglucosamine (O-GlcNAc) is a post-translational modification of intracellular proteins that regulates several physiological and pathophysiological process, including response to various stressors. 33167210 0 52 gly glycopeptide 16:27 arg2 High-throughput glycopeptide profiling High-throughput glycopeptide profiling glycopeptide High-throughput glycopeptide profiling of prostate-specific antigen from seminal plasma by MALDI-MS. 30980499 7 49 gly N-glycoproteins 896:910 arg1 N-glycoproteins N-glycoproteins Fterm N-glycoproteins In total, 708 proteins were identified by mass spectrometry in human TDM, of which 208 were N-glycoproteins with 318 identified glycosylation sites. 30980499 7 68 gly glycosylation 932:944 arg2 318 identified glycosylation sites 318 identified glycosylation sites sites In total, 708 proteins were identified by mass spectrometry in human TDM, of which 208 were N-glycoproteins with 318 identified glycosylation sites. 34128680 4 10 gly glycosylation 794:806 arg2 a site site site Here, using transmission electron microscopy, fluorescence microscopy, and thioflavin T spectroscopy, we show that glycosylation at a site external to the fibrillization domain can alter the self-assembly pathway of a synthetic fibrillizing peptide, NSGSGQQKFQFQFEQQ (NQ11). 30864180 5 26 part_of phosphosites 678:689 arg1 708 proteins proteins phosphosites Fterm Site proteins phosphosites A total of 68 unique phosphohistidine sites are detected on 63 proteins among 1076 unique phosphosites on 708 proteins. 31881804 3 0 part_of NSL3 513:516 arg1 the specific modification site NSL3 the specific modification site PUBTATOR Site NSL3 55683 site However, the specific modification site of NSL3 and its molecular mechanism of protein stability remain unknown. 28657654 0 0 gly proteins 105:112 arg1 altered O-GlcNAcylation proteins altered O-GlcNAcylation Fterm proteins Quantitative proteomics identifies altered O-GlcNAcylation of structural, synaptic and memory-associated proteins in Alzheimer's disease. 30481169 7 2 part_of LAPTM4A 1426:1432 arg1 the second luminal domain LAPTM4A the second luminal domain PUBTATOR Site LAPTM4A 9741 domain This requirement of LAPTM4A for Gb3 synthesis is not shared by its homolog lysosomal-associated protein transmembrane 4 beta (LAPTM4B), and switching the domains between them determined that the second luminal domain of LAPTM4A is required, potentially acting as a specific "activator" for the GT that synthesizes Gb3. 32028604 5 47 part_of AGX1/UAP1 1209:1217 arg1 the binding sites AGX1 the binding sites PUBTATOR Site AGX1 6675 sites The computational docking studies supported the interaction of GAL-012 to the binding sites of GALT at Trp190 and Ser192, UGP2 at Gly116 and Lys127, and AGX1/UAP1 at Asn327 and Lys407, respectively. 32028604 5 76 part_of GALT 1151:1154 arg1 the binding sites GALT the binding sites PUBTATOR Site GALT 2592 sites The computational docking studies supported the interaction of GAL-012 to the binding sites of GALT at Trp190 and Ser192, UGP2 at Gly116 and Lys127, and AGX1/UAP1 at Asn327 and Lys407, respectively. 32028604 5 86 part_of UGP2 1178:1181 arg1 the binding sites UGP2 the binding sites PUBTATOR Site UGP2 7360 sites The computational docking studies supported the interaction of GAL-012 to the binding sites of GALT at Trp190 and Ser192, UGP2 at Gly116 and Lys127, and AGX1/UAP1 at Asn327 and Lys407, respectively. 32172531 1 17 gly glycosylation 188:200 arg1 The human ether-a-go-go related gene (hERG)-encoded channel hERG hERG position 598, PUBTATOR hERG 2078 position 598, The human ether-a-go-go related gene (hERG)-encoded channel hERG undergoes N-linked glycosylation at position 598, which is located in the unusually long S5-pore linker of the channel. 27728760 3 28 gly glycoproteins 626:638 arg1 93 N-linked glycoproteins 93 N-linked glycoproteins Fterm glycoproteins These glycoprotein identities and functionalities are compared with 93 N-linked glycoproteins identified on the surface of the parental cells. 27728760 3 61 gly glycoprotein 552:563 arg1 These glycoprotein identities These glycoprotein identities Fterm glycoprotein These glycoprotein identities and functionalities are compared with 93 N-linked glycoproteins identified on the surface of the parental cells. 34944439 5 10 gly residues 820:827 arg1 the T. forsythia  residues in the T. forsythia  residues in Of the two fucose residues in the T. forsythia O-glycan, the fucose linked to the reducing-end galactose was shown by mutational analysis to be l-fucose. 28490633 0 74 gly glycoprotein 61:72 arg1 glycoprotein glucosyltransferase glycoprotein glucosyltransferase Single-particle electron microscopy structure of UDP-glucose:glycoprotein glucosyltransferase suggests a selectivity mechanism for misfolded proteins. 29944994 1 5 part_of proteins 362:369 arg1 threonine proteins threonine Fterm AminoAcid proteins threonine residues The ogt gene encodes O-linked N-acetylglucosamine transferase (O-GlcNAc transferase [OGT]) that catalyzes the transfer of β-N-acetylglucosamine (GlcNAc) from the uridine-diphosphate-GlcNAc to the hydroxyl group of serine or threonine residues of nucleocytoplasmic proteins. 29944994 1 5 part_of proteins 362:369 arg1 serine proteins serine Fterm AminoAcid proteins serine The ogt gene encodes O-linked N-acetylglucosamine transferase (O-GlcNAc transferase [OGT]) that catalyzes the transfer of β-N-acetylglucosamine (GlcNAc) from the uridine-diphosphate-GlcNAc to the hydroxyl group of serine or threonine residues of nucleocytoplasmic proteins. 28254785 2 5 part_of Notch1 312:317 arg1 the extracellular interacting region Notch1 the extracellular interacting region PUBTATOR Site Notch1 4851 region The 2.5-angstrom-resolution crystal structure of the extracellular interacting region of Notch1 complexed with an engineered, high-affinity variant of Jagged1 (Jag1) reveals a binding interface that extends ~120 angstroms along five consecutive domains of each protein. 28254785 2 33 part_of protein 484:490 arg1 five consecutive domains protein five consecutive domains Fterm Site protein domains The 2.5-angstrom-resolution crystal structure of the extracellular interacting region of Notch1 complexed with an engineered, high-affinity variant of Jagged1 (Jag1) reveals a binding interface that extends ~120 angstroms along five consecutive domains of each protein. 31631785 0 15 gly glycoproteins 59:71 arg1 the envelope glycoproteins the envelope glycoproteins Fterm glycoproteins GILT restricts the cellular entry mediated by the envelope glycoproteins of SARS-CoV, Ebola virus and Lassa fever virus. 31875397 8 66 gly glycosylated 1490:1501 arg1 glycosylated neuropeptides glycosylated neuropeptides neuropeptides This hybrid approach, coupling a shotgun method for neuropeptide discovery and targeted strategy for glycosylation characterization, enables the first report on glycosylated neuropeptides in crustaceans and the discovery of additional neuropeptides simultaneously. 30147262 8 33 gly glycosylation 1282:1294 arg2 six potential N-linked glycosylation sites six potential N-linked glycosylation sites sites Six of seven sequenced isolates have six potential N-linked glycosylation sites. 30865517 2 37 gly proteins 436:443 arg1 the O-GlcNAc modification proteins the O-GlcNAc modification Fterm proteins Importantly, the O-GlcNAc modification of mitochondrial proteins has been identified as a potential mechanism to modulate metabolism under stress with both potentially beneficial and detrimental effects. 29499461 1 24 gly glycoprotein 213:224 arg1 most glycoprotein based biotherapeutics most glycoprotein based biotherapeutics Fterm glycoprotein The carbohydrate moieties on the polypeptide chains in most glycoprotein based biotherapeutics and their biosimilars play essential roles in such major mechanisms of actions as antibody-dependent cell-mediated cytotoxicity, complement-dependent cytotoxicity, anti-inflammatory functions and serum clearance. 31178836 4 90 part_of Database 939:946 arg1 165 Chinese HIV-1 subtype B env sequences Database 165 Chinese HIV-1 subtype B env sequences Fterm Site Database sequences Viral features were analyzed by comparing Env clones of different time points, as well as 165 Chinese HIV-1 subtype B env sequences from HIV Sequence Database (Chinese B_database). 31178836 4 100 part_of env 907:909 arg1 165 Chinese HIV-1 subtype B env sequences env 165 Chinese HIV-1 subtype B env sequences PUBTATOR Site env 155971 sequences Viral features were analyzed by comparing Env clones of different time points, as well as 165 Chinese HIV-1 subtype B env sequences from HIV Sequence Database (Chinese B_database). 34670086 7 69 gly glycosylation 1103:1115 arg2 several sites several sites sites In contrast, several sites of O-linked glycosylation can be identified when RBD is expressed as a monomer, with T323 being almost completely occupied. 29779369 3 44 gly glycoprotein 720:731 arg1 glycoprotein standards glycoprotein standards Fterm glycoprotein Duplex DiPyrO tags that differ in mass by 45.3 mDa were used to label the glycosylamine moieties of freshly released N-glycosylamines from glycoprotein standards and human serum proteins. 30718403 5 61 gly glycosylation 828:840 arg2 a second N-linked glycosylation site a second N-linked glycosylation site site The most striking differences were observed for three substitutions (Q25R, Q40R, and P68T), with P68T generating a second N-linked glycosylation site (N66) in addition to an invariant N32 encoded by all chimpanzee CD4 alleles. 32764711 7 31 gly glycopeptides 1222:1234 arg2 the glycopeptides the glycopeptides glycopeptides The observed pattern was supported by examination of the glycopeptides, providing additional information about the glycosylation site in the E protein. 32764711 7 70 gly glycosylation 1280:1292 arg2 the glycosylation site the glycosylation site site The observed pattern was supported by examination of the glycopeptides, providing additional information about the glycosylation site in the E protein. 34358619 7 78 part_of forebrain 1466:1474 arg1 three functional regions forebrain three functional regions Fterm Site forebrain regions Additionally, the cell membrane N-glycome of three functional regions of the forebrain and hindbrain, the cerebral cortex, hippocampus, and cerebellum, was characterized. 34358619 7 94 part_of hindbrain 1480:1488 arg1 three functional regions hindbrain three functional regions Fterm Site hindbrain regions Additionally, the cell membrane N-glycome of three functional regions of the forebrain and hindbrain, the cerebral cortex, hippocampus, and cerebellum, was characterized. 31336250 2 71 part_of Fc 488:489 arg1 the aglycosylated Fc region Fc the aglycosylated Fc region Cterm Site Fc region Despite abrogated Fc gamma receptor (FcγR) binding and therapeutic effector function in the absence of N-linked glycosylation at Asn297, the aglycosylated Fc region of IgG antibodies has bioprocessing advantages such as the absence of glycan heterogeneity and simple bacterial antibody production. 30028870 2 88 part_of subunit 413:419 arg1 the subunit composition subunit the subunit composition Fterm Site subunit position Formed by the pentameric arrangement of five identical or homologous subunits, GABAA receptor subtypes are defined by the subunit composition that shape ion channel properties. 27912985 7 22 gly N-glycosylation 1289:1303 arg2 all N-glycosylation sites all N-glycosylation sites sites Mosquito membrane feeding assays also revealed improved functional immunogenicity of SYN Pfs48/45 (N-glycosylation sites intact) as compared to MUT1 or MUT2 Pfs48/45 DNA plasmids (all N-glycosylation sites mutated). 27912985 7 30 gly N-glycosylation 1204:1218 arg2 N-glycosylation sites intact N-glycosylation sites intact sites Mosquito membrane feeding assays also revealed improved functional immunogenicity of SYN Pfs48/45 (N-glycosylation sites intact) as compared to MUT1 or MUT2 Pfs48/45 DNA plasmids (all N-glycosylation sites mutated). 27912985 7 76 gly plasmids 1275:1282 arg1 all N-glycosylation sites all N-glycosylation sites sites Mosquito membrane feeding assays also revealed improved functional immunogenicity of SYN Pfs48/45 (N-glycosylation sites intact) as compared to MUT1 or MUT2 Pfs48/45 DNA plasmids (all N-glycosylation sites mutated). 30881698 11 4 gly sialylated 1572:1581 arg1 more sialylated glycans more sialylated glycans The immobilized enzyme released a higher abundance of neutral glycans from whey proteins, while the free enzyme released more sialylated glycans, determined by nano-LC Chip Q-ToF MS. 31913636 7 37 gly glycoproteins 1534:1546 arg1 re-engineering therapeutic glycoproteins re-engineering therapeutic glycoproteins Fterm glycoproteins This reaction suggests that under certain experimental conditions, some glycoproteins can organize self-glycan addition, highlighting a remarkable self-assembly principle that may prove useful for re-engineering therapeutic glycoproteins such as influenza HA or HIV Env, where glycan sequence and structure can markedly affect bioactivity and vaccine efficacy. 31913636 7 66 gly glycoproteins 1382:1394 arg1 some glycoproteins some glycoproteins Fterm glycoproteins This reaction suggests that under certain experimental conditions, some glycoproteins can organize self-glycan addition, highlighting a remarkable self-assembly principle that may prove useful for re-engineering therapeutic glycoproteins such as influenza HA or HIV Env, where glycan sequence and structure can markedly affect bioactivity and vaccine efficacy. 29093093 4 0 gly glycoprotein 654:665 arg1 the S glycoprotein trimer the S glycoprotein trimer Fterm glycoprotein We report here the 3.5-Å-resolution cryo-electron microscopy structure of the S glycoprotein trimer from the pathogenic porcine deltacoronavirus (PDCoV), which belongs to the recently identified Deltacoronavirus genus. 30355496 3 51 part_of Env 518:520 arg1 individual Env sequences Env individual Env sequences PUBTATOR Site Env 155971 sequences To understand the interplay between glycan holes and neutralization breadth in HIV-1 infection, we developed a sequence- and structure-based approach to identify glycan holes for individual Env sequences that are shielded in most M-group viruses. 30476078 2 27 gly fucosylated 418:428 arg1 the fucosylated Lewisx antigen the fucosylated Lewisx antigen Specifically, in colorectal cancer cells, increased levels of the fucosylated Lewisx antigen are attributed to the deregulated expression of pertinent fucosyltransferases, like fucosyltransferase 4 (FUT4) and fucosyltransferase 9 (FUT9). 32569746 5 27 gly found 874:878 arg2 cell envelope surface-layer proteins AND N-glycans cell envelope surface-layer proteins N-glycans Fterm proteins In archaea, N-glycans are mainly found on cell envelope surface-layer proteins, archaeal flagellins and pili. 33998969 2 49 gly glycosylation 348:360 arg2 additional N-linked glycosylation site additional N-linked glycosylation site site Introduction of additional N-linked glycosylation site into proposed location in the protein causes to its hyper-glycosylation and can enhance the protein characteristics to provide promising prospects in treatment. 30054538 9 65 gly sialylation 1661:1671 arg1 PrPSc N-linked glycans PrPSc N-linked glycans To test whether the microglial response is mediated by carbohydrate epitopes on PrPSc surface, the levels of sialylation of PrPSc N-linked glycans was altered by treatment of purified PrPSc with neuraminidase. 32384234 2 14 gly glycopeptides 460:472 arg2 single glycopeptides single glycopeptides glycopeptides Among these, the ability to efficiently sequence the peptide backbone for de novo identification, delineating multiple N- and O-glycosylation sites on single glycopeptides, and deriving more glycan structure information to discriminate isomeric glycoforms are well acknowledged practical problems to be tackled. 32384234 2 23 gly O-glycosylation 428:442 arg2 multiple N- and O-glycosylation sites multiple N- and O-glycosylation sites sites Among these, the ability to efficiently sequence the peptide backbone for de novo identification, delineating multiple N- and O-glycosylation sites on single glycopeptides, and deriving more glycan structure information to discriminate isomeric glycoforms are well acknowledged practical problems to be tackled. 33664361 4 44 gly N-glycosylation 701:715 arg2 both potential N-glycosylation sites both potential N-glycosylation sites sites The viral non-structural protein 1 (NS1) was glycosylated exclusively with high-mannose structures on both potential N-glycosylation sites. 33664361 4 12 gly glycosylated 629:640 arg1 both potential N-glycosylation sites protein 1 sites Fterm protein 1 sites The viral non-structural protein 1 (NS1) was glycosylated exclusively with high-mannose structures on both potential N-glycosylation sites. 33664361 4 12 gly glycosylated 629:640 arg2 both potential N-glycosylation sites protein 1 sites Fterm protein 1 sites The viral non-structural protein 1 (NS1) was glycosylated exclusively with high-mannose structures on both potential N-glycosylation sites. 33664361 4 12 gly glycosylated 629:640 arg1 NS1 NS1 sites PUBTATOR NS1 5781 sites The viral non-structural protein 1 (NS1) was glycosylated exclusively with high-mannose structures on both potential N-glycosylation sites. 33664361 4 12 gly glycosylated 629:640 arg2 both potential N-glycosylation sites sites sites The viral non-structural protein 1 (NS1) was glycosylated exclusively with high-mannose structures on both potential N-glycosylation sites. 33664361 4 12 gly glycosylated 629:640 arg2 both potential N-glycosylation sites NS1 sites PUBTATOR NS1 5781 sites The viral non-structural protein 1 (NS1) was glycosylated exclusively with high-mannose structures on both potential N-glycosylation sites. 28614667 0 100 gly N-Glycosylation 0:14 arg1 Asparagine 130 Asparagine 130 Asparagine 130 N-Glycosylation of Asparagine 130 in the Extracellular Domain of the Human Calcitonin Receptor Significantly Increases Peptide Hormone Affinity. 27912985 7 83 part_of SYN 1190:1192 arg1 N-glycosylation sites intact SYN N-glycosylation sites intact OGER Site SYN sites Mosquito membrane feeding assays also revealed improved functional immunogenicity of SYN Pfs48/45 (N-glycosylation sites intact) as compared to MUT1 or MUT2 Pfs48/45 DNA plasmids (all N-glycosylation sites mutated). 29530984 1 5 part_of sn-1 264:267 arg1 the sn-1 position sn-1 the sn-1 position OGER Site sn-1 Q99624 position Plasmalogens are phospholipids critical for cell function and signaling that contain a vinyl ether linkage at the sn-1 position and are highly enriched in arachidonic acid (AA) at the sn-2 position. 29530984 1 7 part_of sn-2 334:337 arg1 the sn-2 position sn-2 the sn-2 position OGER Site sn-2 Q8WUX1 position Plasmalogens are phospholipids critical for cell function and signaling that contain a vinyl ether linkage at the sn-1 position and are highly enriched in arachidonic acid (AA) at the sn-2 position. 31516400 5 44 gly glycoproteins 969:981 arg1 glycoproteins glycoproteins Fterm glycoproteins A database resource termed N-GlycositeAtlas was created and further used for the distribution analyses of glycoproteins among different human cells, tissues and body fluids. 29427717 7 10 part_of proteasome-interacting 840:861 arg1 C-terminal proteasome-interacting thioredoxin domain proteasome C-terminal proteasome-interacting thioredoxin domain OGER Site proteasome domain It possesses an N-terminal active thioredoxin domain and C-terminal proteasome-interacting thioredoxin domain (PITH) of ShTXNL1 which is a component of 26S proteasome and binds to the matrix or cell. 29427717 7 35 part_of thioredoxin 806:816 arg1 an N-terminal active thioredoxin domain thioredoxin an N-terminal active thioredoxin domain OGER Site thioredoxin P10599 domain It possesses an N-terminal active thioredoxin domain and C-terminal proteasome-interacting thioredoxin domain (PITH) of ShTXNL1 which is a component of 26S proteasome and binds to the matrix or cell. 29427717 7 66 part_of thioredoxin 863:873 arg1 C-terminal proteasome-interacting thioredoxin domain thioredoxin C-terminal proteasome-interacting thioredoxin domain OGER Site thioredoxin P10599 domain It possesses an N-terminal active thioredoxin domain and C-terminal proteasome-interacting thioredoxin domain (PITH) of ShTXNL1 which is a component of 26S proteasome and binds to the matrix or cell. 29427717 7 54 part_of ShTXNL1 892:898 arg1 an N-terminal active thioredoxin domain TXNL1 domain OGER Site TXNL1 domain It possesses an N-terminal active thioredoxin domain and C-terminal proteasome-interacting thioredoxin domain (PITH) of ShTXNL1 which is a component of 26S proteasome and binds to the matrix or cell. 33295603 0 81 gly O-glycosylation 78:92 arg2 the clustered O-glycosylation sites IgA1 sites PUBTATOR IgA1 P01876 sites Quantitative assessment of successive carbohydrate additions to the clustered O-glycosylation sites of IgA1 by glycosyltransferases. 30535277 6 53 gly glycoproteins 1052:1064 arg1 the isolated glycoproteins the isolated glycoproteins Fterm glycoproteins Then, N/O- glycans were released from the isolated glycoproteins with PNGase F and NaClO, and were identified by MALDI-TOF-MS, respectively. 30535277 6 82 gly released 1025:1032 arg2 the isolated glycoproteins AND N/O- glycans the isolated glycoproteins N/O- glycans Fterm glycoproteins Then, N/O- glycans were released from the isolated glycoproteins with PNGase F and NaClO, and were identified by MALDI-TOF-MS, respectively. 30733333 1 47 part_of proteins 270:277 arg1 Ser/Thr residues proteins Ser/Thr residues Fterm Site proteins residues Diabetes promotes the posttranslational modification of proteins by O-linked addition of GlcNAc (O-GlcNAcylation) to Ser/Thr residues of proteins and thereby contributes to diabetic complications. 32022078 2 3 gly O-glycopeptides 207:221 arg2 O-glycopeptides O-glycopeptides O-glycopeptides Mass spectrometric analysis of O-glycopeptides may reveal the identity of the peptide, the composition of the glycan and even the connection between certain sugar units, but usually only the combination of different MS/MS techniques provides sufficient information for reliable assignment. 30712865 2 41 gly glycoprotein 341:352 arg1 The trimeric spike transmembrane glycoprotein The trimeric spike transmembrane glycoprotein Fterm glycoprotein S The trimeric spike transmembrane glycoprotein S mediates entry into host cells and is the major target of neutralizing antibodies. 33116178 9 57 gly glycoproteins 1473:1485 arg1 helminth glycoproteins helminth glycoproteins Fterm glycoproteins Furthermore, this plant expression system will fuel the development of helminth glycoproteins for pharmaceutical applications or novel anti-helminth vaccines. 34631661 10 134 gly glycosite 1944:1952 arg2 the most abundant glycosite the most abundant glycosite glycosite The N74 site represents the most abundant glycosite on both spike proteins. 30790257 2 57 gly glycosylation 465:477 arg1 proteins proteins Fterm proteins While flippases and floppases establish membrane asymmetry, scramblases randomize the lipid distribution and play pivotal roles during blood clotting, apoptosis, and in processes such as N-linked glycosylation of proteins. 30144161 0 3 gly Peptide 81:87 arg1 O-GlcNAcylation O-GlcNAcylation Distinct Effects of O-GlcNAcylation and Phosphorylation of a Tau-Derived Amyloid Peptide on Aggregation of the Native Peptide. 28369504 9 99 gly sialoglycoproteins 1672:1689 arg1 high molecular weight O-linked sialoglycoproteins high molecular weight O-linked sialoglycoproteins Fterm sialoglycoproteins Siglec-8 and Siglec-9 ligands in airways appear to be high molecular weight O-linked sialoglycoproteins. 34101390 1 14 gly glycoproteins 256:268 arg1 glycoproteins glycoproteins Fterm glycoproteins Mucin-type O-glycosylation (O-glycans, O-glycome) is among the most biologically important post-translational modification in glycoproteins but O-glycan structural diversity and expression are poorly understood due to the inadequacy of current analytical methods. 31913371 3 24 gly glycoprotein 618:629 arg1 glycoprotein biopharmaceuticals glycoprotein biopharmaceuticals Fterm glycoprotein Due to the crucial role glycans play in modulating protein function, glycosylation analysis could lead to the discovery of novel biomarkers and is of prime importance in controlling the quality of glycoprotein biopharmaceuticals. 30487799 8 44 gly glycosite 1390:1398 arg2 the Asn-565 glycosite the Asn-565 glycosite Asn-565 glycosite Unlike IgMs in other species, only traces of complex-type and no high-mannose glycans were found at the Asn-565 glycosite. 29899104 9 19 part_of protein 1559:1565 arg1 position 156 envelope protein position 156 PUBTATOR Site envelope protein 64006 position 156 We demonstrate that the envelope protein of TMUV and its amino acid (S) at position 156 is responsible for tissue tropism and transmission in ducks. 29899104 9 75 part_of position 1601:1608 arg1 the envelope protein envelope protein position PUBTATOR Site envelope protein 64006 position 156 We demonstrate that the envelope protein of TMUV and its amino acid (S) at position 156 is responsible for tissue tropism and transmission in ducks. 34232571 3 85 gly glycoproteins 342:354 arg1 glycoproteins glycoproteins Fterm glycoproteins High-throughput and comprehensive characterization of glycoproteins is crucial for structural and functional studies of altered glycosylation in biological, physiological, and pathological processes. 30355725 6 10 gly glycosylation 865:877 arg2 individual Sog glycosylation sites individual Sog glycosylation sites sites We identify conserved N-glycosylated sites and describe the effect of mutating these residues on BMP pathway activity in Drosophila Functional analysis reveals that loss of individual Sog glycosylation sites enhances BMP antagonism and/or increases the spatial range of Sog effects in the tissue. 30355725 6 32 gly N-glycosylated 699:712 arg1 conserved N-glycosylated sites conserved N-glycosylated sites sites We identify conserved N-glycosylated sites and describe the effect of mutating these residues on BMP pathway activity in Drosophila Functional analysis reveals that loss of individual Sog glycosylation sites enhances BMP antagonism and/or increases the spatial range of Sog effects in the tissue. 26040437 1 50 part_of HA1 160:162 arg1 The hemagglutinin ectodomain HA1 subunit The hemagglutinin ectodomain PUBTATOR Site HA1 subunit 23526 ectodomain The hemagglutinin ectodomain (HA1 subunit) from highly pathogenic avian influenza (HPAI) isolate (A/chicken/Vietnam/14/2005) was cloned and expressed using a baculovirus expression vector. 29875238 14 57 gly glycosylated 2346:2357 arg1 appropriately glycosylated α-dystroglycan receptor appropriately glycosylated α-dystroglycan Fterm receptor Here, we demonstrate that LASV pseudovirions can utilize the PtdSer receptor TIM-1 but only in the absence of appropriately glycosylated α-dystroglycan (αDG), the high-affinity cell surface receptor for LASV. 30479582 5 38 gly glycopeptides 892:904 arg2 native IgG glycopeptides native IgG glycopeptides glycopeptides The combined model is capable of accurately predicting the retention of native IgG glycopeptides on 2 completely different liquid chromatography-mass spectrometry systems. 29772801 6 53 gly tails 659:663 arg1 robust O-GlcNAcylation tails robust O-GlcNAcylation tails In vitro assays with purified O-GlcNAc transferase (OGT) enzyme showed robust O-GlcNAcylation of recombinant mature lamin A tails (residues 385⁻646), with no detectable modification of lamin B1, lamin C, or 'progerin' (Δ50) tails. 34089345 0 11 gly glycoproteins 60:72 arg1 glycoproteins glycoproteins Fterm glycoproteins Tumor cells express pauci- and oligomannosidic N-glycans in glycoproteins recognized by the mannose receptor (CD206). 34089345 0 18 gly N-glycans 47:55 arg1 glycoproteins glycoproteins N-glycans Fterm glycoproteins Tumor cells express pauci- and oligomannosidic N-glycans in glycoproteins recognized by the mannose receptor (CD206). 32462590 5 32 gly N-glycopeptide 1085:1098 arg2 an unbiased high confidence N-glycopeptide profile an unbiased high confidence N-glycopeptide profile N-glycopeptide Here we describe a detailed analytical procedure employing hydrophilic interaction chromatography enrichment, high-resolution tandem mass spectrometry employing complementary fragmentation techniques (higher-energy collisional dissociation and electron-transfer dissociation) and a data analytics workflow to produce an unbiased high confidence N-glycopeptide profile from plant samples. 28497210 7 85 gly glycosylation 1049:1061 arg2 the N-linked glycosylation motif the N-linked glycosylation motif motif Amino acid variations in HA and NA gene resulted in changes in the N-linked glycosylation motif which may lead to immune evasion. 32817340 4 66 part_of proteins 1153:1160 arg1 the N termini proteins the N termini Fterm Site proteins termini Here we describe the structural characterization of the N-linked glycan modifications on the archaellins and S-layer protein of Methanothermococcus thermolithotrophicus, a methanogen that grows optimally at 65 °C. SDS-PAGE and MS analysis revealed that the sheared archaella are composed principally of two of the four predicted archaellins, FlaB1 and FlaB3, which are modified with a branched, heptameric glycan at all N-linked sequons except for the site closest to the N termini of both proteins. 30086619 6 38 gly glycosylation 1072:1084 arg2 the five potential N-linked glycosylation sites the five potential N-linked glycosylation sites sites Finally, mutagenesis analysis revealed that among the five potential N-linked glycosylation sites, only three contributed to significant inhibition of hyaluronic activity. 31067000 3 41 gly N-glycosylation 358:372 arg2 The corresponding N-glycosylation sites The corresponding N-glycosylation sites sites The corresponding N-glycosylation sites in ACPA V-region sequences result from somatic hypermutation, a T cell-dependent process. 31019513 6 4 gly glycosylation 1187:1199 arg2 these glycosylation sites these glycosylation sites sites We were interested in how these glycosylation sites mediate homotypic vs. heterotypic interactions. 31702909 3 40 part_of epitopes 461:468 arg1 CD19 CD19 epitopes OGER Site CD19 P15391 epitopes To identify the antibody-binding epitopes on CD19, we screened a comprehensive single-site saturation mutation library of the human CD19 extracellular domain to identify mutations detrimental to binding FMC63-the dominant CD19 antibody used in chimeric antigen receptor development-as well as 4G7-2E3 and 3B10, which have been used in various types of CD19 research and development. 31702909 3 54 part_of CD19 560:563 arg1 the human CD19 extracellular domain CD19 the human CD19 extracellular domain OGER Site CD19 P15391 domain To identify the antibody-binding epitopes on CD19, we screened a comprehensive single-site saturation mutation library of the human CD19 extracellular domain to identify mutations detrimental to binding FMC63-the dominant CD19 antibody used in chimeric antigen receptor development-as well as 4G7-2E3 and 3B10, which have been used in various types of CD19 research and development. 30592403 5 59 part_of deposited 753:761 arg1 NPs NPs deposited OGER Site NPs P0C0P6 deposited Meanwhile, a simple protocol based on dopamine polymerization was employed to generate a polydopamine (PDA) layer deposited on the tanshinone IIA (TIIA) nanoparticles (NPs) formed from spontaneous hydrophobic self-assembly. 30881698 4 28 gly glycoprotein 656:667 arg1 a model glycoprotein a model glycoprotein Fterm glycoprotein Ribonuclease B was used as a model glycoprotein to compare N-glycans released by the free and immobilized enzyme. 30713024 1 28 part_of proteins 224:231 arg1 Ser proteins Ser Fterm AminoAcid proteins Ser O-Linked N-acetylglucosamine (O-GlcNAc) is an abundant posttranslationalmonosaccaride-modification found on Ser or Thr residues of intracellular proteins in most eukaryotes. 30713024 1 28 part_of proteins 224:231 arg1 Thr proteins Thr Fterm AminoAcid proteins Thr residues O-Linked N-acetylglucosamine (O-GlcNAc) is an abundant posttranslationalmonosaccaride-modification found on Ser or Thr residues of intracellular proteins in most eukaryotes. 34343291 2 42 gly glycoproteins 332:344 arg1 glycoproteins glycoproteins Fterm glycoproteins Modifications of sugar composition in glycoproteins profoundly impact the overall physiology of the organism. 30991145 5 57 gly glycosylation 1349:1361 arg2 all four asparagines all four asparagines asparagines Our results confirmed that all four asparagines are sites of N-linked glycosylation, and Western blot confirmed that mutation of each predicted N-glycosylation sited impaired glycosylation. 30991145 5 57 gly glycosylation 1349:1361 arg2 sites sites sites Our results confirmed that all four asparagines are sites of N-linked glycosylation, and Western blot confirmed that mutation of each predicted N-glycosylation sited impaired glycosylation. 31733946 7 23 part_of found 1252:1256 arg1 the Hu-Av CO HA AND the Ser-Ala residues the Hu-Av CO HA the Ser-Ala residues Cterm Site HA residues When the Asn-Thr pair at position 155-156 in the Hu-CO HA was converted to the Ser-Ala residues found in the Hu-Av CO HA, the elicited antibodies lost HAI activity against clade 2.3.2.1 H5Nx viruses, such as A/Hubei/01/2010. 34401920 6 10 part_of glycoproteins 801:813 arg1 at least one glycosylation site glycoproteins at least one glycosylation site Fterm Site glycoproteins site 82 N-linked glycoproteins with at least one glycosylation site were identified. 33026663 0 20 gly N-glycoforms 81:92 arg1 yeast invertase yeast invertase Fterm invertase Increased yield of enzymatic synthesis by chromatographic selection of different N-glycoforms of yeast invertase. 28232487 2 12 gly proteins 323:330 arg1 increased O-GlcNAcylation proteins increased O-GlcNAcylation Fterm proteins Cellular stress, including oxidative stress, results in increased O-GlcNAcylation of numerous proteins, and this increase is thought to promote cell survival. 29784879 6 18 part_of EDEM3 1134:1138 arg1 the EDEM3 α-mannosidase domain EDEM3 the EDEM3 α-mannosidase domain PUBTATOR Site EDEM3 80267 domain This interaction, which depended on the redox activity of ERp46, involved formation of a disulfide bond between the cysteine residues of the ERp46 redox-active sites and the EDEM3 α-mannosidase domain. 29784879 6 42 part_of α-mannosidase 1140:1152 arg1 the EDEM3 α-mannosidase domain mannosidase the EDEM3 α-mannosidase domain Fterm Site mannosidase domain This interaction, which depended on the redox activity of ERp46, involved formation of a disulfide bond between the cysteine residues of the ERp46 redox-active sites and the EDEM3 α-mannosidase domain. 29784879 6 78 part_of ERp46 1101:1105 arg1 the ERp46 redox-active sites ERp46 the ERp46 redox-active sites PUBTATOR Site ERp46 81567 sites This interaction, which depended on the redox activity of ERp46, involved formation of a disulfide bond between the cysteine residues of the ERp46 redox-active sites and the EDEM3 α-mannosidase domain. 31336250 4 67 part_of Fc 932:933 arg1 aglycosylated Fc regions Fc aglycosylated Fc regions Cterm Site Fc regions In this work, we constructed a huge library of Fc variants with combinations of 25 beneficial mutations that were previously identified to improve binding of glycosylated or aglycosylated Fc regions to human FcγRs in previous studies. 34869209 9 84 gly N-glycosites 1138:1149 arg2 N-glycosites N-glycosites N-glycosites Those found in the HEK293-derived RBD were highly similar to those in HEK293 S1 where N-glycosites were shared. 34331854 3 54 gly glycoproteins 548:560 arg1 N-acetylglucosamine (GlcNAc) residues glycoproteins N-acetylglucosamine (GlcNAc) residues Fterm glycoproteins Here we describe the metabolic introduction of a diazirine photo-cross-linker onto N-acetylglucosamine (GlcNAc) residues of N-linked glycoproteins on cell surfaces. 32326134 3 47 part_of sites 503:507 arg1 BSM BSM sites PUBTATOR Site BSM 100140959 sites This study investigates the structural and quantitative characteristics of O-glycans and identifies O-glycosylation sites in BSM using liquid chromatography-tandem mass spectrometry. 31054469 7 29 part_of lignin 1280:1285 arg1 deposition lignin deposition Fterm Site lignin position Raman spectroscopy showed that the change in lignin in the transgenic events was embodied in the deposition and concentration of lignin in the secondary cell wall. 30384195 10 88 part_of protease 1485:1492 arg1 protease cleavage sites protease protease cleavage sites Fterm Site protease sites Proteomic identification of protease cleavage sites (PICS) and hydrolysation of various synthetic substrates showed that CT448 is a chymotrypsin-like elastase. 33664361 7 9 part_of protein 1094:1100 arg1 this site protein this site Fterm Site protein site This confirmed that this site of the ZIKV E protein is highly N-glycosylated but with very high micro-heterogeneity. 33581334 0 78 gly O-glycoproteins 50:64 arg1 Experimentally Characterized O-glycoproteins Experimentally Characterized O-glycoproteins Fterm O-glycoproteins OGP: A Repository of Experimentally Characterized O-glycoproteins to Facilitate Studies on O-glycosylation. 31168022 0 65 gly glycoprotein 107:118 arg1 a 110 kDa glycoprotein a 110 kDa glycoprotein Fterm glycoprotein MLS128 antibody-induced suppression of colon cancer cell growth is mediated by a desmocollin and a 110 kDa glycoprotein. 27666939 7 14 gly fucosylated 1269:1279 arg1 either primarily fucosylated or fully afucosylated glycan profiles either primarily fucosylated or fully afucosylated glycan profiles Here, we report generation and use of a FX knockout (FXKO) CHO host cell line that is capable of expressing antibody molecules with either primarily fucosylated or fully afucosylated glycan profiles with otherwise similar product quality attributes, depending on addition of fucose to the cell culture media. 27666939 7 57 gly afucosylated 1290:1301 arg1 either primarily fucosylated or fully afucosylated glycan profiles either primarily fucosylated or fully afucosylated glycan profiles Here, we report generation and use of a FX knockout (FXKO) CHO host cell line that is capable of expressing antibody molecules with either primarily fucosylated or fully afucosylated glycan profiles with otherwise similar product quality attributes, depending on addition of fucose to the cell culture media. 31094416 8 73 part_of epitopes 1759:1766 arg1 the cell receptor receptor epitopes Fterm Site receptor epitopes Overall, our findings indicate that Gal-3 binding to CD146 is more involved than simple interactions with β-galactoside epitopes on the cell receptor, and that there is a direct role for the lectin's CRD F-face in the CD146 binding process. 32109505 2 73 part_of protein 312:318 arg1 its residues protein its residues Fterm Site protein residues TRPM8 is a large tetrameric protein with more than 70% of its residues located in the cytoplasm. 31622635 1 50 gly glycoprotein 123:134 arg1 a glycoprotein a glycoprotein Fterm glycoprotein Bile-salt stimulate lipase (BSSL) is a glycoprotein found in human milk and blood that can potently bind DC-SIGN. 31131693 11 16 gly kinase 1717:1722 arg1 O-GlcNAcylation kinase A O-GlcNAcylation Fterm kinase A O-GlcNAcylation of protein kinase A catalytic subunit, a kinase for phospholamban, decreased with OGTKO. 29402915 7 58 gly glycosylation 1340:1352 arg1 cubilin protein cubilin protein residues PUBTATOR cubilin protein 8029 residues Quantitative mass spectrometry and mutagenesis demonstrated that N-linked glycosylation of at least 4 residues of cubilin protein was required for its surface targeting. 33462887 4 48 part_of protein 727:733 arg1 extracellular domains protein extracellular domains Fterm Site protein domains We first quantify the Core 1 and 2 O-glycan structures on the carbohydrate recognition and extracellular domains of the protein using sequential exoglycosidase sequencing. 29671116 1 34 gly glycoproteins 226:238 arg1 secretory glycoproteins secretory glycoproteins Fterm glycoproteins N-linked glycosylation (NLG) is a co-translational modification that is essential for the folding, stability, and trafficking of transmembrane (TM) and secretory glycoproteins. 32535395 3 89 gly glycoproteins 487:499 arg1 uterine glycoproteins glycoproteins glycan composition Fterm glycoproteins In this study, lectin histochemistry was used to characterise the distribution and glycan composition of uterine glycoproteins destined for secretion, and to ascertain the local effect of an embryo on glycosylation in the endometrium. 31913636 6 59 gly glycoprotein 1242:1253 arg1 the glycoprotein the glycoprotein Fterm glycoprotein Rather, N-glycanation relied on a noncovalent assembly between protein and glycan, formed in the presence of the amidase, where linearization of the glycoprotein prevented this retention and subsequent N-glycanation. 31498587 5 57 part_of MUC1-Tf 659:665 arg1 MUC1-Tf and -STn glycopeptides MUC1 MUC1-Tf and -STn glycopeptides PUBTATOR Site MUC1 4582 glycopeptides The conjugates of MUC1-Tf and -STn glycopeptides with Qβ were utilized to immunize immune-tolerant human MUC1 transgenic (MUC1.Tg) mice, which elicited superior levels of anti-MUC1 IgG antibodies with titers reaching over 2 million units. 31498587 5 59 part_of -STn 671:674 arg1 MUC1-Tf and -STn glycopeptides STn MUC1-Tf and -STn glycopeptides OGER Site STn P62631 glycopeptides The conjugates of MUC1-Tf and -STn glycopeptides with Qβ were utilized to immunize immune-tolerant human MUC1 transgenic (MUC1.Tg) mice, which elicited superior levels of anti-MUC1 IgG antibodies with titers reaching over 2 million units. 30852271 3 30 gly glycosylation 470:482 arg2 two predicted sites two predicted sites sites In this study, we confirm that N-linked glycosylation occurs at two predicted sites in the M protein ectodomain of infectious bronchitis coronavirus (IBV). 31101650 8 26 gly glycoproteins 1729:1741 arg1 some glycoproteins some glycoproteins Fterm glycoproteins These results provide new insight into CDG pathogenesis and highlight how the surface abundance of some glycoproteins can be dually impacted by abnormal glycosylation. 30289687 5 45 gly mannosylated 875:886 arg1 mannosylated glycoproteins mannosylated glycoproteins Fterm glycoproteins Of particular interest are the FimH and PapG fimbriae, which bind to mannosylated glycoproteins and glycolipids of the galabiose series, respectively. 30289687 5 141 gly glycoproteins 888:900 arg1 mannosylated glycoproteins mannosylated glycoproteins Fterm glycoproteins Of particular interest are the FimH and PapG fimbriae, which bind to mannosylated glycoproteins and glycolipids of the galabiose series, respectively. 32965048 11 55 gly N-glycopeptide 2108:2121 arg2 urinary intact N-glycopeptide oxonium ions urinary intact N-glycopeptide oxonium ions N-glycopeptide The elution-abundance patterns of urinary intact N-glycopeptide oxonium ions (m/z 138 and 204) of the same subject were temporally stable during the day and over 6 months. 31665542 5 42 gly N-glycosylation 797:811 arg2 Four N-glycosylation sites Four N-glycosylation sites sites Four N-glycosylation sites were identified on Mpsy_1486, which exhibited different glycosylation profiles, with N94 only found in cells cultured at 30 °C. 32693290 4 17 gly present 831:837 arg1 the activation peptide AND the two N-linked glycans the activation peptide the two N-linked glycans peptide For N9-GP, the mono GlycoPEGylation is directed toward one of the two N-linked glycans present at Asn157 and Asn167 in the activation peptide in a one to one ratio. 32693290 4 17 gly present 831:837 arg2 Asn167 AND the two N-linked glycans Asn157 and Asn167 the two N-linked glycans Asn157 and Asn167 For N9-GP, the mono GlycoPEGylation is directed toward one of the two N-linked glycans present at Asn157 and Asn167 in the activation peptide in a one to one ratio. 31266804 9 0 gly N-glycosylation 1750:1764 arg2 the two TRPC6 N-glycosylation sites the two TRPC6 N-glycosylation sites sites However, mutating the two TRPC6 N-glycosylation sites abrogated the cytotoxicity of mutant TRPC6 and reduced its surface expression. 34089345 9 68 gly glycoproteins 1367:1379 arg1 All enriched glycoproteins All enriched glycoproteins Fterm glycoproteins All enriched glycoproteins, of which 42 were identified, contained pauci- or oligomannose N-glycans, confirming the microarray results. 34089345 9 1 gly contained 1411:1419 arg1 All enriched glycoproteins AND oligomannose N-glycans All enriched glycoproteins oligomannose N-glycans Fterm glycoproteins All enriched glycoproteins, of which 42 were identified, contained pauci- or oligomannose N-glycans, confirming the microarray results. 30002126 5 4 gly sialylation 952:962 arg1 glycan sites glycan sites Lectin and mass spectrometry analysis of total N-linked glycans revealed differences in high-mannose glycans, sialylation, and the occupancy of glycan sites. 28614667 4 61 part_of amylin 650:655 arg1 purified calcitonin and amylin receptor extracellular domain amylin purified calcitonin and amylin receptor extracellular domain PUBTATOR Site amylin 3375 domain Here, we define the role of CTR N-glycosylation in hormone binding using purified calcitonin and amylin receptor extracellular domain (ECD) glycoforms and fluorescence polarization/anisotropy and isothermal titration calorimetry peptide-binding assays. 28614667 4 72 part_of calcitonin 635:644 arg1 purified calcitonin and amylin receptor extracellular domain calcitonin purified calcitonin and amylin receptor extracellular domain PUBTATOR Site calcitonin 796 domain Here, we define the role of CTR N-glycosylation in hormone binding using purified calcitonin and amylin receptor extracellular domain (ECD) glycoforms and fluorescence polarization/anisotropy and isothermal titration calorimetry peptide-binding assays. 31094416 3 94 gly glycosylation 759:771 arg2 glycosylation sites glycosylation sites sites Binding of Gal-3 and its carbohydrate recognition domain (CRD) to CD146 D1-D4 is greatly reduced vis-à-vis CD146 eFL, supporting the proposal of a larger number of glycosylation sites on D5. 34212152 3 15 gly sites 750:754 arg1 N-glycans sites N-glycans sites As predicted by an analysis of the accessibility of the N-glycans for their processing enzymes derived from the MD simulations, N-glycans at different glycosylation sites showed different kinetic properties for the processing enzymes. 34212152 3 25 gly glycosylation 736:748 arg2 different glycosylation sites different glycosylation sites sites As predicted by an analysis of the accessibility of the N-glycans for their processing enzymes derived from the MD simulations, N-glycans at different glycosylation sites showed different kinetic properties for the processing enzymes. 34192331 7 51 gly N-glycans 1065:1073 arg1 the Fc region the Fc region the Fc region Site region In this study, IgGs with multibranched N-glycans on the Fc region were prepared by using a combination of the glycosynthase/oxazoline substrate-based N-glycan remodeling technique and successive reactions with glycosyltransferases. 30392906 6 33 gly glycosylation 705:717 arg2 a unique glycosylation site a unique glycosylation site site Unexpectedly, we found Asn50 is a unique glycosylation site and the glycosylation mediates its interaction with ConA. 30392906 6 33 gly glycosylation 705:717 arg2 Asn50 Asn50 Asn50 Unexpectedly, we found Asn50 is a unique glycosylation site and the glycosylation mediates its interaction with ConA. 31302509 5 33 part_of receptor-critical 853:869 arg1 a shared, previously unrecognized receptor-critical site receptor a shared, previously unrecognized receptor-critical site Fterm Site receptor site Mutation of the cow and hamster XPR1 genes identified a shared, previously unrecognized receptor-critical site. 29030255 8 24 part_of CA 1073:1074 arg1 the pufferfish CA VI sequence CA VI the pufferfish CA VI sequence PUBTATOR Site CA VI 765 sequence An NH2-terminal signal peptide of 18 amino acids in length was predicted in the pufferfish CA VI sequence. 28511131 9 3 gly glycosylation 1676:1688 arg2 a glycosylation site a glycosylation site site Another novel GP5 amino acid mutation (44N→44D) was found in a single subgroup 1 Henan isolate (HeNan-A9) in a glycosylation site that is known to be crucial for PRRSV infectivity. 31879931 3 69 gly O-glycopeptides 472:486 arg2 O-glycopeptides O-glycopeptides O-glycopeptides Various chemical and chemoenzymatic methods have been reported so far for synthesizing different N- and O-glycopeptides. 28490633 1 29 gly glycoproteins 242:254 arg1 glycoproteins glycoproteins Fterm glycoproteins The enzyme UDP-glucose:glycoprotein glucosyltransferase (UGGT) mediates quality control of glycoproteins in the endoplasmic reticulum by attaching glucose to N-linked glycan of misfolded proteins. 28490633 1 44 gly proteins 338:345 arg1 N-linked glycan proteins N-linked glycan Fterm proteins The enzyme UDP-glucose:glycoprotein glucosyltransferase (UGGT) mediates quality control of glycoproteins in the endoplasmic reticulum by attaching glucose to N-linked glycan of misfolded proteins. 28490633 1 51 gly glycoprotein 174:185 arg1 glycoprotein glucosyltransferase glycoprotein glucosyltransferase The enzyme UDP-glucose:glycoprotein glucosyltransferase (UGGT) mediates quality control of glycoproteins in the endoplasmic reticulum by attaching glucose to N-linked glycan of misfolded proteins. 31266872 5 84 gly glycosylation 1018:1030 arg2 a conserved N-linked glycosylation site a conserved N-linked glycosylation site site Whereas a substitution in a conserved N-linked glycosylation site (N171Q) eliminates sensitivity to ADCC, a lysine-to-serine substitution in this region (K180S) increases ADCC and renders the virus susceptible to neutralization. 32915358 4 81 gly N-deglycosylation 843:859 arg1 glycoproteins glycoproteins Fterm glycoproteins Since most derivatization techniques are notoriously time-consuming, some commercial analytical kits have been developed to speed up N-deglycosylation and N-glycan labelling of glycoproteins of pharmaceutical and biological interest such as monoclonal antibodies (mAbs). 32915358 4 43 gly glycoproteins 887:899 arg1 N-glycan labelling glycoproteins N-glycan labelling Fterm glycoproteins Since most derivatization techniques are notoriously time-consuming, some commercial analytical kits have been developed to speed up N-deglycosylation and N-glycan labelling of glycoproteins of pharmaceutical and biological interest such as monoclonal antibodies (mAbs). 29609090 1 25 gly glycosylates 265:276 arg1 polypeptides polypeptides polypeptides N-Glycosyltransferase (NGT) is an inverting glycosyltransferase for an unusual pathway of N-linked protein glycosylation and glycosylates polypeptides in the consensus sequon (N-(X≠P)-T/S) with hexose monosaccharides. 29609090 1 58 gly sequon 308:313 arg1 hexose monosaccharides sequon hexose monosaccharides sequon N-Glycosyltransferase (NGT) is an inverting glycosyltransferase for an unusual pathway of N-linked protein glycosylation and glycosylates polypeptides in the consensus sequon (N-(X≠P)-T/S) with hexose monosaccharides. 34232571 9 33 gly glycoproteins 1133:1145 arg1 glycoproteins glycoproteins Fterm glycoproteins Basic Protocol 1: Enzymatic digestion of glycoproteins using C4-tips Basic Protocol 2: Intact glycopeptide analysis using C18/MAX-tips Basic Protocol 3: Glycan and glycosite analysis. 34232571 9 43 gly glycopeptide 1186:1197 arg2 Intact glycopeptide analysis Intact glycopeptide analysis glycopeptide Basic Protocol 1: Enzymatic digestion of glycoproteins using C4-tips Basic Protocol 2: Intact glycopeptide analysis using C18/MAX-tips Basic Protocol 3: Glycan and glycosite analysis. 34232571 9 53 gly glycosite 1256:1264 arg2 glycosite glycosite glycosite Basic Protocol 1: Enzymatic digestion of glycoproteins using C4-tips Basic Protocol 2: Intact glycopeptide analysis using C18/MAX-tips Basic Protocol 3: Glycan and glycosite analysis. 31826991 12 50 gly glycosites 1698:1707 arg2 some glycosites some glycosites glycosites Our results also demonstrate that glycan subtype can be predicted at some glycosites based on sequence comparisons and three-dimensional structural analysis.IMPORTANCE Low-pathogenicity avian influenza virus (LPAIV) subtypes can reassort with circulating human strains and pandemic viruses can emerge in human populations, as was seen in the 1957 pandemic, in which an H2 virus reassorted with the circulating H1N1 to create a novel H2N2 genotype. 28017896 3 104 gly proteins 558:565 arg1 O-linked β-N-acetylglucosamine proteins O-linked β-N-acetylglucosamine Fterm proteins O-linked β-N-acetylglucosamine (O-GlcNAc) is a post-translational regulatory modification of intracellular proteins and governs the function of numerous proteins, both cytosolic and nuclear. 30735356 1 7 gly glycoproteins 216:228 arg1 the viral envelope glycoproteins the viral envelope glycoproteins Fterm glycoproteins Mucin-like regions, characterized by a local high density of O-linked glycosylation, are found on the viral envelope glycoproteins of many viruses. 31604106 3 64 part_of subunit 439:445 arg1 polypeptides subunit polypeptides Fterm Site subunit polypeptides Previous studies have found that the translation of mRNA to polypeptides of the β subunit was a severely limiting step for the expression of recombinant hCG protein in Chinese hamster ovary (CHO) cells. 31616924 5 79 gly sites 876:880 arg1 several sites several sites sites APOE is O-glycosylated at several sites: Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296. 31616924 5 3 gly O-glycosylated 850:863 arg2 Thr18 APOE Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296 PUBTATOR APOE 348 Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296 APOE is O-glycosylated at several sites: Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296. 31616924 5 3 gly O-glycosylated 850:863 arg2 Thr289 APOE Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296 PUBTATOR APOE 348 Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296 APOE is O-glycosylated at several sites: Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296. 31616924 5 3 gly O-glycosylated 850:863 arg2 several sites APOE sites PUBTATOR APOE 348 sites APOE is O-glycosylated at several sites: Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296. 31616924 5 3 gly O-glycosylated 850:863 arg2 Ser290 APOE Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296 PUBTATOR APOE 348 Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296 APOE is O-glycosylated at several sites: Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296. 31616924 5 3 gly O-glycosylated 850:863 arg2 Ser197 APOE Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296 PUBTATOR APOE 348 Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296 APOE is O-glycosylated at several sites: Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296. 31616924 5 3 gly O-glycosylated 850:863 arg2 Ser296 APOE Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296 PUBTATOR APOE 348 Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296 APOE is O-glycosylated at several sites: Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296. 31616924 5 3 gly O-glycosylated 850:863 arg2 Thr289 Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296 Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296 APOE is O-glycosylated at several sites: Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296. 31616924 5 3 gly O-glycosylated 850:863 arg2 Ser290 Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296 Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296 APOE is O-glycosylated at several sites: Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296. 31616924 5 3 gly O-glycosylated 850:863 arg2 Ser197 Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296 Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296 APOE is O-glycosylated at several sites: Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296. 31616924 5 3 gly O-glycosylated 850:863 arg2 Ser296 Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296 Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296 APOE is O-glycosylated at several sites: Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296. 31616924 5 3 gly O-glycosylated 850:863 arg2 Ser290 Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296 Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296 APOE is O-glycosylated at several sites: Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296. 31616924 5 3 gly O-glycosylated 850:863 arg2 Ser197 Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296 Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296 APOE is O-glycosylated at several sites: Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296. 31616924 5 3 gly O-glycosylated 850:863 arg2 Ser296 Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296 Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296 APOE is O-glycosylated at several sites: Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296. 31616924 5 3 gly O-glycosylated 850:863 arg2 Ser197 Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296 Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296 APOE is O-glycosylated at several sites: Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296. 31616924 5 3 gly O-glycosylated 850:863 arg2 Ser296 Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296 Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296 APOE is O-glycosylated at several sites: Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296. 31616924 5 3 gly O-glycosylated 850:863 arg2 Ser296 Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296 Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296 APOE is O-glycosylated at several sites: Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296. 31616924 5 79 gly sites 876:880 arg1 Ser296 Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296 Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296 APOE is O-glycosylated at several sites: Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296. 31616924 5 79 gly sites 876:880 arg1 Thr18 Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296 Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296 APOE is O-glycosylated at several sites: Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296. 31616924 5 79 gly sites 876:880 arg1 Thr289 Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296 Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296 APOE is O-glycosylated at several sites: Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296. 31616924 5 79 gly sites 876:880 arg1 Ser290 Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296 Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296 APOE is O-glycosylated at several sites: Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296. 31616924 5 79 gly sites 876:880 arg1 Thr18 Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296 Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296 APOE is O-glycosylated at several sites: Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296. 31616924 5 79 gly sites 876:880 arg1 Thr289 Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296 Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296 APOE is O-glycosylated at several sites: Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296. 31616924 5 79 gly sites 876:880 arg1 Ser290 Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296 Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296 APOE is O-glycosylated at several sites: Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296. 31616924 5 79 gly sites 876:880 arg1 Thr289 Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296 Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296 APOE is O-glycosylated at several sites: Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296. 31616924 5 79 gly sites 876:880 arg1 Ser290 Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296 Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296 APOE is O-glycosylated at several sites: Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296. 31616924 5 79 gly sites 876:880 arg1 Ser290 Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296 Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296 APOE is O-glycosylated at several sites: Thr8, Thr18, Thr194, Ser197, Thr289, Ser290 and Ser296. 32172531 7 74 gly glycosylated 1062:1073 arg1 normal glycosylated channels normal glycosylated channels Fterm channels Compared with normal glycosylated channels, nonglycosylated hERG channels were also more susceptible to cleavage mediated by CAPN, which was present in the medium of human embryonic kidney cells under normal culture conditions. 29672582 8 131 gly fucosylated 1381:1391 arg1 fucosylated N-glycan (F1 N-glycan) concentrations fucosylated N-glycan (F1 N-glycan) concentrations RESULTS Significant increases of IgG4 G0 N-glycan and IgG4 fucosylated N-glycan (F1 N-glycan) concentrations were observed in IgG4RD compared with healthy controls. 30479582 4 1 gly glycopeptides 777:789 arg1 rabbit IgGs IgGs glycopeptides Cterm IgGs glycopeptides Here, we have devised a unified model to predict the retention behavior of glycopeptides from human IgGs and applied this to the analysis of glycopeptides from rabbit IgGs. 30479582 4 45 gly glycopeptides 711:723 arg2 glycopeptides IgGs glycopeptides Cterm IgGs glycopeptides Here, we have devised a unified model to predict the retention behavior of glycopeptides from human IgGs and applied this to the analysis of glycopeptides from rabbit IgGs. 33462887 1 2 gly glycosylated 180:191 arg1 glycosylated proteins glycosylated proteins Fterm proteins The immune scavenger protein DC-SIGN interacts with glycosylated proteins and has a putative role in facilitating viral infection. 28511131 7 29 part_of motif 1272:1276 arg1 GP5 GP5 motif PUBTATOR Site GP5 2814 motif Analysis of the immunoreceptor tyrosine-based inhibitory motif (ITIM) in GP5 revealed that all but two of the Henan isolates had a highly conserved sequence between amino acids 77 and 82 positions of GP5. 28511131 7 46 part_of GP5 1415:1417 arg1 amino acids 77 and 82 positions GP5 amino acids 77 and 82 positions PUBTATOR Site GP5 2814 positions Analysis of the immunoreceptor tyrosine-based inhibitory motif (ITIM) in GP5 revealed that all but two of the Henan isolates had a highly conserved sequence between amino acids 77 and 82 positions of GP5. 31527085 4 53 gly Ser389 524:529 arg1 O-GlcNAcylation Ser389 O-GlcNAcylation Ser389 Moreover, O-GlcNAcylation of Ser389 in ncOGT (1036 amino acids) affects its nuclear translocation in HeLa cells. 28679762 7 56 part_of AAVR 1474:1477 arg1 the ectodomain AAVR the ectodomain PUBTATOR Site AAVR 79932 ectodomain Using a combination of genetic complementation with deletion constructs and virus overlay assays with individual domains, we find that AAV2 functionally interacts predominantly with the second Ig-like polycystic kidney disease (PKD) repeat domain (PKD2) present in the ectodomain of AAVR. 34631661 4 55 gly linkages 1024:1031 arg1 glycopeptides glycopeptides glycopeptides Site glycopeptides To further evaluate the sialic acid linkages presenting on S protein, a two-step amidation process, employing dimethylamine and ammonium hydroxide reactions in a solid support system, was developed to differentially modify the sialic acid linkages on the glycans and glycopeptides from the S protein. 34631661 4 20 gly glycopeptides 1052:1064 arg2 glycopeptides S protein glycopeptides OGER S protein Q15517 glycopeptides To further evaluate the sialic acid linkages presenting on S protein, a two-step amidation process, employing dimethylamine and ammonium hydroxide reactions in a solid support system, was developed to differentially modify the sialic acid linkages on the glycans and glycopeptides from the S protein. 34857845 7 30 gly fucosylated 1437:1447 arg1 the core fucosylated glycans the core fucosylated glycans In addition, our results show that disease-associated changes in core fucosylation are peptide-dependent and further differ by branching of the core fucosylated glycans. 32681150 7 47 gly glycosylation 1040:1052 arg1 membrane proteins membrane proteins Fterm proteins In addition, we discuss glycoproteomic analysis that yields the site-specific glycosylation of membrane proteins. 34200965 6 15 gly glycopeptides 919:931 arg2 glycopeptides glycopeptides glycopeptides The workflow started with an optimized procedure for the digestion of membrane proteins followed by the lectin-based isolation of glycopeptides. 30190529 4 34 gly glycosylation 850:862 arg2 N-linked glycosylation sites N-linked glycosylation sites sites Amino acid differences between the Jeryl Lynn vaccine strains (genotype A) and genotype G strains were predominantly located in known B-cell epitopes and in N-linked glycosylation sites on the HN protein. 32692906 1 13 gly O-glycosylated 253:266 arg1 the O-glycosylated death receptors the O-glycosylated death receptors Fterm receptors The TNF-related apoptosis-inducing ligand (TRAIL) triggers apoptosis in cells by signaling through the O-glycosylated death receptors (DR4 and DR5), but the sensitivity to TRAIL-induced apoptosis of cells varies, and the attributes of this phenomenon are complex. 33947960 0 79 part_of ErbB2 34:38 arg1 the ectodomain ErbB2 the ectodomain PUBTATOR Site ErbB2 2064 ectodomain ST6Gal1 targets the ectodomain of ErbB2 in a site-specific manner and regulates gastric cancer cell sensitivity to trastuzumab. 29569918 5 76 gly unsialylated 1004:1015 arg1 both sialylated and unsialylated N-glycans both sialylated and unsialylated N-glycans Using tandem labeling with ST6Gal1 to analyze N-glycans in a prostate cancer array, we found striking differences in expression patterns of both sialylated and unsialylated N-glycans between cancerous and healthy samples. 29569918 5 85 gly sialylated 989:998 arg1 both sialylated and unsialylated N-glycans both sialylated and unsialylated N-glycans Using tandem labeling with ST6Gal1 to analyze N-glycans in a prostate cancer array, we found striking differences in expression patterns of both sialylated and unsialylated N-glycans between cancerous and healthy samples. 33676668 8 88 gly glycopeptides 1670:1682 arg2 glycopeptides enrichment glycopeptides enrichment glycopeptides This work exhibits high selectivity, high sensitivity, good stability and operability, indicating its potential for applications of glycopeptides enrichment in post-translational modification proteomics. 29688069 2 34 gly mannosylated 513:524 arg1 D494N D494N We report herein on the preparation of a Kupffer cell targeting type-I interferon, an albumin-IFNα2b fusion protein that contains highly mannosylated N-linked oligosaccharide chains, Man-HSA(D494N)-IFNα2b, attached by combining albumin fusion technology and site-directed mutagenesis. 29688069 2 34 gly mannosylated 513:524 arg1 highly mannosylated N-linked oligosaccharide chains highly mannosylated N-linked oligosaccharide chains We report herein on the preparation of a Kupffer cell targeting type-I interferon, an albumin-IFNα2b fusion protein that contains highly mannosylated N-linked oligosaccharide chains, Man-HSA(D494N)-IFNα2b, attached by combining albumin fusion technology and site-directed mutagenesis. 29688069 2 59 gly contains 497:504 arg1 an albumin-IFNα2b fusion protein AND D494N an albumin-IFNα2b fusion protein D494N Fterm protein We report herein on the preparation of a Kupffer cell targeting type-I interferon, an albumin-IFNα2b fusion protein that contains highly mannosylated N-linked oligosaccharide chains, Man-HSA(D494N)-IFNα2b, attached by combining albumin fusion technology and site-directed mutagenesis. 29688069 2 59 gly contains 497:504 arg1 an albumin-IFNα2b fusion protein AND highly mannosylated N-linked oligosaccharide chains an albumin-IFNα2b fusion protein highly mannosylated N-linked oligosaccharide chains Fterm protein We report herein on the preparation of a Kupffer cell targeting type-I interferon, an albumin-IFNα2b fusion protein that contains highly mannosylated N-linked oligosaccharide chains, Man-HSA(D494N)-IFNα2b, attached by combining albumin fusion technology and site-directed mutagenesis. 31357165 3 6 part_of Gp120 338:342 arg1 Gp120 sequences Gp120 Gp120 sequences PUBTATOR Site Gp120 3700 sequences Gp120 sequences were obtained from 322 subjects; length, potential N-linked glycosylation sites (PNGs), net-charge (NC) and 179-181tripeptide α4β7-binding-motif of V2 were evaluated. 34331854 5 45 gly glycoproteins 872:884 arg1 cell-surface N-linked glycoproteins cell-surface N-linked glycoproteins Fterm glycoproteins We show that diazirine-modified GlcNAc can be used to covalently cross-link two extracellular GBPs, galectin-1 and cholera toxin subunit B, to cell-surface N-linked glycoproteins. 31561469 7 27 gly histidine 783:791 arg1 the Zn2+-complexing histidine residues histidine residues the Zn2+-complexing histidine residues histidine residues Chemical modification of the Zn2+-complexing histidine residues within the active site by using diethylpyrocarbonate (DEPC) inactivates it. 34450331 8 75 gly glycoprotein 1475:1486 arg1 glycoprotein structural changes glycoprotein structural changes Fterm glycoprotein Thus, LDA opens avenues to study glycoprotein structural changes in a range of other physiological and pathophysiological conditions relevant to acute and chronic diseases. 31029427 4 15 part_of sites 782:786 arg1 FOXA1 FOXA1 sites PUBTATOR Site FOXA1 3169 sites However, further investigations are needed to identify the specific mechanism of modification and the specific glycosylation sites on FOXA1. 30850477 8 105 gly N-glycosylation 1129:1143 arg2 an N-glycosylation site an N-glycosylation site site No evidence was found for an overall selection bias against acquiring an N-glycosylation site, except for the CDR3 of the H chain. 28229220 1 59 gly glycoprotein 142:153 arg1 an N-linked glycoprotein an N-linked glycoprotein Fterm glycoprotein PURPOSE HepaCAM, an N-linked glycoprotein that encodes a member of the immunoglobulin superfamily, has been reported to be a tumor suppressor gene that mediates diverse cellular bio-functions. 31406333 6 19 gly glycosylation 1139:1151 arg2 the glycosylation site the glycosylation site site X-ray crystallography showed that the glycosylation site at residue 245 is within a conserved epitope that overlaps the NA active site, explaining why it impacts antibody binding. 31406333 6 19 gly glycosylation 1139:1151 arg2 residue 245 residue 245 residue X-ray crystallography showed that the glycosylation site at residue 245 is within a conserved epitope that overlaps the NA active site, explaining why it impacts antibody binding. 30834446 9 12 part_of glycoprotein 1728:1739 arg1 the ectodomain glycoprotein the ectodomain Fterm Site glycoprotein ectodomain To gain structural insight into the inhibitory effect of these galectins on IHNV attachment to the zebrafish epithelial cells, we modeled Drgal3-L1 based on human galectin-3, as well as, the ectodomain of the IHNV glycoprotein. 30487280 6 102 gly occupancy 1225:1233 arg2 the N241 site the N241 site N241 site The strongest evidence for redirection of the NAb response to neoepitopes, through the opening and closing of glycan holes, was obtained from trimer immunogen groups with the highest occupancy of the N241 site. 28411811 1 8 gly glycosylation 214:226 arg1 nucleocytoplasmic and mitochondrial proteins nucleocytoplasmic and mitochondrial proteins Fterm proteins O-GlcNAcylation is a kind of dynamic O-linked glycosylation of nucleocytoplasmic and mitochondrial proteins. 31101650 6 52 gly glycosylation 1356:1368 arg1 this convertase this convertase Fterm convertase Reduced glycosylation of PCSK5a in STT3A-null cells or cells treated with the oligosaccharyltransferase inhibitor NGI-1 corresponded with failure to rescue receptor processing, implying that alterations in the glycosylation of this convertase have functional consequences. 31336250 6 4 gly aglycosylated 1321:1333 arg1 engineered aglycosylated Fc variants engineered aglycosylated Fc variants Fterm variants All mutations in this aglycosylated Fc variant were derived from previously identified beneficial mutations for engineered aglycosylated Fc variants as opposed to glycosylated variants, suggesting that significantly different sets of beneficial mutations are necessary to improve the effector function of aglycosylated Fc. 31336250 6 8 gly aglycosylated 1220:1232 arg1 this aglycosylated Fc variant this aglycosylated Fc variant Fterm variant All mutations in this aglycosylated Fc variant were derived from previously identified beneficial mutations for engineered aglycosylated Fc variants as opposed to glycosylated variants, suggesting that significantly different sets of beneficial mutations are necessary to improve the effector function of aglycosylated Fc. 31336250 6 26 gly glycosylated 1361:1372 arg1 glycosylated variants glycosylated variants Fterm variants All mutations in this aglycosylated Fc variant were derived from previously identified beneficial mutations for engineered aglycosylated Fc variants as opposed to glycosylated variants, suggesting that significantly different sets of beneficial mutations are necessary to improve the effector function of aglycosylated Fc. 33826885 1 7 gly glycosylation 184:196 arg2 a potential N-linked glycosylation site a potential N-linked glycosylation site site Artificial glycan holes on recombinant Env-based vaccines occur when a potential N-linked glycosylation site (PNGS) is under-occupied, but not on their viral counterparts. 31455637 7 76 part_of AGF 1359:1361 arg1 A third AGF domain AGF A third AGF domain OGER Site AGF Q8NI99 domain A third AGF domain, plant-like polysaccharide lyase, represents a novel gene in fungi that potentially aids AGF to degrade pectin. 31826991 1 130 gly glycosylation 214:226 arg2 Seasonal influenza carrying key hemagglutinin (HA) head region glycosylation sites Seasonal influenza carrying key hemagglutinin (HA) head region glycosylation sites sites Seasonal influenza carrying key hemagglutinin (HA) head region glycosylation sites can be removed from the lung by pulmonary surfactant protein D (SP-D). 30617158 11 22 gly N-glycosylation 2087:2101 arg1 a specific enzyme activity a specific enzyme activity Fterm enzyme We demonstrate for the first time that N-glycosylation is required for a specific enzyme activity (Nap nitrate reductase) that is associated with reduced abundance of the NapAB glycoproteins. 30617158 11 64 gly glycoproteins 2225:2237 arg1 the NapAB glycoproteins the NapAB glycoproteins Fterm glycoproteins We demonstrate for the first time that N-glycosylation is required for a specific enzyme activity (Nap nitrate reductase) that is associated with reduced abundance of the NapAB glycoproteins. 31337704 5 31 gly glycoproteins 1233:1245 arg1 both immune and nonimmune glycoproteins both immune and nonimmune glycoproteins Fterm glycoproteins Using MS-based glycoproteomics, along with CRISPR/Cas9-KO cell lines, natural killer cell-killing assays, and RNA-Seq experiments, we now demonstrate that humans lacking functional MAGT1 have a selective deficiency in both immune and nonimmune glycoproteins, and we identified several critical glycosylation defects in important immune-response proteins and in the expression of genes involved in immunity, particularly CD28. 30479582 5 25 part_of IgG 888:890 arg1 native IgG glycopeptides IgG native IgG glycopeptides Cterm Site IgG glycopeptides The combined model is capable of accurately predicting the retention of native IgG glycopeptides on 2 completely different liquid chromatography-mass spectrometry systems. 30633504 1 57 gly N-glycosylated 255:268 arg1 the archetypal enzyme RNase A. RNase 1 RNase 1 sites PUBTATOR RNase 1 6035 sites Ribonuclease 1 (RNase 1) is the most prevalent human homologue of the archetypal enzyme RNase A. RNase 1 contains sequons for N-linked glycosylation at Asn34, Asn76, and Asn88 and is N-glycosylated at all three sites in vivo. 33578083 2 45 gly glycopeptide 489:500 arg2 glycopeptide glycopeptide glycopeptide Exact structural elucidation of glycans is generally beyond the capability of a single mass spectrometry experiment, so a reasonable level of identification for tandem mass spectrometry, taken by several glycopeptide software tools, is that of peptide sequence and glycan composition, meaning the number of monosaccharides of each distinct mass, e.g., HexNAc(2)Hex(5) rather than man5. 30850477 7 49 gly N-glycosylation 909:923 arg2 N-glycosylation sites N-glycosylation sites sites N-glycosylation sites are clustered around CDRs and the DE loop for both H and L chains, with similar frequencies for healthy donors and patients. 30158294 14 21 gly glycosylated 2296:2307 arg1 a glycosylated protein a glycosylated protein Fterm protein Here we show that SERINC5 is a glycosylated protein and that N-glycosylation is important for its steady state expression. 30838579 3 31 part_of have 411:414 arg1 These proteins AND aspartic acids These proteins aspartic acids Fterm AminoAcid proteins aspartic acids These proteins have abundant phosphoserines, aspartic acids, and glutamic acids. 30838579 3 31 part_of have 411:414 arg1 These proteins AND glutamic acids These proteins glutamic acids Fterm AminoAcid proteins acids These proteins have abundant phosphoserines, aspartic acids, and glutamic acids. 30029404 6 69 gly glycopeptides 1210:1222 arg2 glycopeptides glycopeptides glycopeptides Finally, it was applied to on-column enrichment of glycopeptides from digests of human serum followed by nano-LC-MS/MS analysis. 29454317 2 87 gly sialylated 452:461 arg1 two tumor-associated O-linked carbohydrates two tumor-associated O-linked carbohydrates NMIBC expresses two tumor-associated O-linked carbohydrates: the disaccharide (Galβ1,3GalNAc) Thomsen-Friedenreich (T) antigen, and its sialylated counterpart (Siaα2,3Galβ1,3GalNAc) sialyl-T (sT), synthesized by sialyltransferase ST3GAL1, whose roles in BCG response are unknown. 29454317 2 87 gly sialylated 452:461 arg1 Siaα2,3Galβ1,3GalNAc Siaα2,3Galβ1,3GalNAc NMIBC expresses two tumor-associated O-linked carbohydrates: the disaccharide (Galβ1,3GalNAc) Thomsen-Friedenreich (T) antigen, and its sialylated counterpart (Siaα2,3Galβ1,3GalNAc) sialyl-T (sT), synthesized by sialyltransferase ST3GAL1, whose roles in BCG response are unknown. 30392906 4 11 part_of MPZL1 545:549 arg1 the extracellular domain MPZL1 the extracellular domain PUBTATOR Site MPZL1 9019 domain To elucidate the functional basis, we have determined the crystal structure of the extracellular domain of MPZL1 at 2.7 Å resolution. 29784879 3 26 gly glycoproteins 482:494 arg1 misfolded glycoproteins misfolded glycoproteins Fterm glycoproteins In mammals, mannose trimming from N-glycans is crucial for disposal of misfolded glycoproteins. 31600726 2 44 part_of residues 271:278 arg1 the FSHβ subunit subunit residues Fterm AminoAcid subunit Asn7 and Asn24 residues N-linked glycans are co-translationally attached to the Asn7 and Asn24 residues on the FSHβ subunit. 31281932 8 23 gly proteins 1189:1196 arg1 N-linked glycans proteins N-linked glycans Fterm proteins We demonstrated that the recombinant α2,6-sialyltransferase from H. cetorum is an excellent catalyst for modification of N-linked glycans of different therapeutic proteins. 29531238 2 40 gly glycosylation 588:600 arg2 glycosylation sequon glycosylation sequon sequon In this study, we update the number of human N-linked glycosylation sequons (NLGs), and we investigate cancer-relatedness of glycosylation-impacting somatic nonsynonymous single-nucleotide variation (nsSNV) by mapping human NLGs to cancer variation data and reporting the expected loss or gain of glycosylation sequon. 29531238 2 42 gly glycosylation 345:357 arg2 human N-linked glycosylation sequons human N-linked glycosylation sequons In this study, we update the number of human N-linked glycosylation sequons (NLGs), and we investigate cancer-relatedness of glycosylation-impacting somatic nonsynonymous single-nucleotide variation (nsSNV) by mapping human NLGs to cancer variation data and reporting the expected loss or gain of glycosylation sequon. 33516683 11 17 gly sialylated 1641:1650 arg1 Three sialylated N-glycans Three sialylated N-glycans Three sialylated N-glycans showed common elevation in AS independent of age. 31628985 0 8 part_of TPR 89:91 arg1 a tetratricopeptide (TPR) α-solenoid domain TPR a tetratricopeptide (TPR) α-solenoid domain OGER Site TPR P12270 domain Disease related single point mutations alter the global dynamics of a tetratricopeptide (TPR) α-solenoid domain. 33983715 7 9 gly sialylated 1301:1310 arg1 sialylated N-glycans sialylated N-glycans Changes in the total amount of glycans, increase in the ratio of high-mannose type N-glycans, increase in fOSs, and changes in the ratio of sialylated N-glycans in response to ER stress were shown to be potential descriptors of ER stress. 27343203 0 22 part_of CD23 39:42 arg1 the CD23 stalk region CD23 the CD23 stalk region PUBTATOR Site CD23 2208 region Critical and direct involvement of the CD23 stalk region in IgE binding. 31176190 5 70 gly glycopeptides 813:825 arg2 glycopeptides glycopeptides glycopeptides However, a kinetic analysis of glycan release from glycopeptides could provide information complementary to that of small-molecule substrates, especially if providing kinetic parameters that are immediately comparable. 33629527 3 71 gly N-glycosylation 550:564 arg2 multiple N-glycosylation sites multiple N-glycosylation sites sites The influenza A virus (IAV) proteins hemagglutinin (HA) and neuraminidase (NA) have multiple N-glycosylation sites, and alteration of N-glycan micro- and macroheterogeneity can have strong effects on virulence and immunogenicity. 32553552 9 59 gly doubly-fucosylated 1427:1444 arg1 only the doubly-fucosylated trimannosylchitobiose core Hex3HexNAc2dHex2 only the doubly-fucosylated trimannosylchitobiose core Hex3HexNAc2dHex2 The two most common N-glycan compositions were the complex/hybrid Hex3HexNAc4dHex4 and the paucimannose structure that contains only the doubly-fucosylated trimannosylchitobiose core Hex3HexNAc2dHex2, each appearing in 22 occupied sites (13.8%). 31316108 1 83 gly glycoproteins 251:263 arg1 N-linked glycoproteins N-linked glycoproteins Fterm glycoproteins Glucosidase II (GluII) plays a major role in regulating post-translation modification of N-linked glycoproteins. 30865517 1 44 gly attachment 158:167 arg1 serine AND O-GlcNAc serine and threonine residues O-GlcNAc serine and threonine residues The attachment of O-linked β-N-acetylglucosamine (O-GlcNAc) to the serine and threonine residues of proteins in distinct cellular compartments is increasingly recognized as an important mechanism regulating cellular function. 30865517 1 44 gly attachment 158:167 arg1 serine AND O-linked β-N-acetylglucosamine serine and threonine residues O-linked β-N-acetylglucosamine serine and threonine residues The attachment of O-linked β-N-acetylglucosamine (O-GlcNAc) to the serine and threonine residues of proteins in distinct cellular compartments is increasingly recognized as an important mechanism regulating cellular function. 29753740 10 77 gly N-glycosylation 1531:1545 arg1 proteins proteins Fterm proteins These results suggest that 2DG reduces N-glycosylation of proteins following the increase of phosphorylation of GFAT1 and results in the inhibition of cell growth mediated by ER stress in pancreatic cancer cells. 29673624 6 14 gly glycoform 1045:1053 arg1 complex glycoform complex glycoform At the highest concentration tested, DMJ reduced N-linked complex glycoform and core fucose levels by 15 and 14 fold, respectively, and increased high mannose level by 21 fold. 30683699 1 25 gly deglycosylation 338:352 arg1 the unique Asn297 N-X-(T/S) sequon the unique Asn297 N-X-(T/S) sequon sequon In therapeutic applications in which the Fc of IgG is critically important, the receptor binding and functional properties of the Fc are lost after deglycosylation or removal of the unique Asn297 N-X-(T/S) sequon. 30487389 4 61 gly glycoprotein 519:530 arg1 Moojase Moojase Fterm Moojase Moojase is a glycoprotein with N-linked glycans, molecular mass of 30.3 kDa and acidic character (pI 5.80⁻6.88). 30487389 4 61 gly glycoprotein 519:530 arg1 a glycoprotein glycoprotein N-linked glycans Fterm glycoprotein Moojase is a glycoprotein with N-linked glycans, molecular mass of 30.3 kDa and acidic character (pI 5.80⁻6.88). 33581334 7 26 part_of OGP-based 836:844 arg1 an OGP-based website OGP an OGP-based website PUBTATOR Site OGP 5016 website Moreover, an OGP-based website is already available (https://www.oglyp.org/). 29753740 5 15 gly N-glycoproteins 905:919 arg1 total N-glycoproteins total N-glycoproteins Fterm N-glycoproteins Therefore, we assessed the amounts of total N-glycoproteins. 34885895 8 58 gly glycosylation 1363:1375 arg2 N-Linked glycosylation sites N-Linked glycosylation sites sites These results demonstrate that DeepNGlyPred is a robust computational technique to predict N-Linked glycosylation sites confined to N-X-[S/T] sequon. 30101988 1 4 gly G1 401:402 arg1 [1 [1 G1"[1], we are afraid that some of the important messaging aspects of our paper might not have been articulated adequately to be fully understandable for a wider audience, i.e., not separation scientist By reading the commentary of Bevelacqua and Mortazavi regarding our recently published paper titled as "The effect of simulated space radiation on the N-glycosylation of human immunoglobulin G1"[1], we are afraid that some of the important messaging aspects of our paper might not have been articulated adequately to be fully understandable for a wider audience, i.e., not separation scientists. 30101988 1 28 gly scientists 594:603 arg1 i.e. i.e. G1"[1], we are afraid that some of the important messaging aspects of our paper might not have been articulated adequately to be fully understandable for a wider audience, i.e., not separation scientist By reading the commentary of Bevelacqua and Mortazavi regarding our recently published paper titled as "The effect of simulated space radiation on the N-glycosylation of human immunoglobulin G1"[1], we are afraid that some of the important messaging aspects of our paper might not have been articulated adequately to be fully understandable for a wider audience, i.e., not separation scientists. 30101988 1 61 gly N-glycosylation 361:375 arg1 human immunoglobulin G1 human immunoglobulin G1 G1"[1], we are afraid that some of the important messaging aspects of our paper might not have been articulated adequately to be fully understandable for a wider audience, i.e., not separation scientist By reading the commentary of Bevelacqua and Mortazavi regarding our recently published paper titled as "The effect of simulated space radiation on the N-glycosylation of human immunoglobulin G1"[1], we are afraid that some of the important messaging aspects of our paper might not have been articulated adequately to be fully understandable for a wider audience, i.e., not separation scientists. 33983715 4 78 gly asparagine-linked 574:590 arg1 N-glycans asparagine N-glycans asparagine This study therefore postulates that tracing the biosynthetic pathway of asparagine-linked glycans (N-glycans) would be a reporter for reflecting the state of the ER and serve as a quantitative descriptor of ER stress. 33983715 4 78 gly asparagine-linked 574:590 arg1 asparagine-linked glycans asparagine asparagine-linked glycans asparagine This study therefore postulates that tracing the biosynthetic pathway of asparagine-linked glycans (N-glycans) would be a reporter for reflecting the state of the ER and serve as a quantitative descriptor of ER stress. 30659065 4 50 gly N-glycosylation 852:866 arg2 a single N-glycosylation site a single N-glycosylation site site Although IgGs usually have a single N-glycosylation site and are well studied, other antibody isotypes, e.g. IgA and IgM, that are the first responders in certain diseases, have two to five sites/monomer of antibody, and little is known about their N-glycosylation. 33676668 4 25 gly glycosylated 933:944 arg1 glycosylated peptides glycosylated peptides peptides The introduction of cationic cellulose provides not only a perfect surface charge for the composite but also a greater ability to enrich glycosylated peptides. 34358619 6 67 gly fucosylated 1368:1378 arg1 high mannose, bisecting, and core and antenna fucosylated species high mannose, bisecting, and core and antenna fucosylated species Region-specific glycan maps were obtained with ∼120 N-glycan compositions in each region, revealing significant differences in "brain-type" glycans involving high mannose, bisecting, and core and antenna fucosylated species. 34358619 6 104 gly compositions 1225:1236 arg1 each region each region each region Site region Region-specific glycan maps were obtained with ∼120 N-glycan compositions in each region, revealing significant differences in "brain-type" glycans involving high mannose, bisecting, and core and antenna fucosylated species. 30683699 3 36 gly glycosylation 696:708 arg2 the unique N-linked glycosylation site the unique N-linked glycosylation site site The efficacy of sialylated Fc has generated an incentive to modify the unique N-linked glycosylation site at Asn297, either through chemical and enzymatic methods or by mutagenesis of the Fc, that disrupts the protein-Asn297 carbohydrate interface. 30683699 3 36 gly glycosylation 696:708 arg2 Asn297 Asn297 Asn297 The efficacy of sialylated Fc has generated an incentive to modify the unique N-linked glycosylation site at Asn297, either through chemical and enzymatic methods or by mutagenesis of the Fc, that disrupts the protein-Asn297 carbohydrate interface. 30683699 3 67 gly protein-Asn297 819:832 arg1 the protein-Asn297 carbohydrate interface Asn297 the protein-Asn297 carbohydrate interface Asn297 The efficacy of sialylated Fc has generated an incentive to modify the unique N-linked glycosylation site at Asn297, either through chemical and enzymatic methods or by mutagenesis of the Fc, that disrupts the protein-Asn297 carbohydrate interface. 30581149 3 95 gly N-glycosylation 503:517 arg2 two N-glycosylation sites two N-glycosylation sites sites METHODS One or two N-glycosylation sites were engineered into the N-terminus of the non-allergenic protein horse heart myoglobin (HHM) using synthetic gene technology. 30581149 3 102 gly METHODS 484:490 arg1 two N-glycosylation sites two N-glycosylation sites sites METHODS One or two N-glycosylation sites were engineered into the N-terminus of the non-allergenic protein horse heart myoglobin (HHM) using synthetic gene technology. 34495528 6 54 gly N-glycosylated 753:766 arg1 the N-glycosylated nascent proteins the N-glycosylated nascent proteins Fterm proteins Subsequently, the N-glycosylated nascent proteins enter the folding step, in which N-glycans contribute largely to attaining the correct protein fold by recruiting the lectin-like chaperones, calnexin, and calreticulin. 28652091 11 10 part_of ASA 1553:1555 arg1 the decomposition ASA the decomposition OGER Site ASA P15289 position In conclusion, polypills of ASA and TIC are a viable approach, but the decomposition of ASA should be avoided by eliminating high temperatures and high humidity. 30420690 10 17 gly factors 1469:1475 arg1 O-GlcNAcylation factors O-GlcNAcylation Fterm factors Interfering in O-GlcNAcylation of the GLI transcription factors may be a novel target in controlling cancer progression and drug resistance of breast cancer. 28700571 3 4 gly glycosylation 517:529 arg2 N-linked glycosylation sites N-linked glycosylation sites sites Although Env can tolerate a high degree of mutation in five variable regions (V1-V5), and also at N-linked glycosylation sites that contribute roughly half the mass of Env, the functional sites for recognition of receptor CD4 and co-receptor CXCR4/CCR5 are conserved and essential for viral fitness. 33186014 6 80 gly glycoprotein 1077:1088 arg1 glycoprotein glycoprotein Fterm glycoprotein Here, we screened wild-type versus mutant strains of the gastric pathogen Helicobacter pylori, ultimately permitting the identification of genes involved in glycoprotein and lipopolysaccharide biosynthesis. 34212152 5 60 gly structures 1092:1101 arg1 the same protein protein structures Fterm protein We propose that the observed differential N-glycan reactivities depend on the surrounding protein tertiary structure and lead to different glycan structures in the same protein through kinetically controlled processing pathways. 34864058 8 8 gly glycoproteins 1587:1599 arg1 O-glycosylated intestinal epithelial glycoproteins O-glycosylated intestinal epithelial glycoproteins Fterm glycoproteins Moreover, we show that increased expression of B3GNT7 alone is sufficient to promote increased display of Lex-decorated carbohydrate glycan structures primarily on O-glycosylated intestinal epithelial glycoproteins. 34864058 8 53 gly O-glycosylated 1550:1563 arg1 O-glycosylated intestinal epithelial glycoproteins O-glycosylated intestinal epithelial glycoproteins Fterm glycoproteins Moreover, we show that increased expression of B3GNT7 alone is sufficient to promote increased display of Lex-decorated carbohydrate glycan structures primarily on O-glycosylated intestinal epithelial glycoproteins. 31918287 5 25 gly glycoprotein 661:672 arg1 glycoprotein class glycoprotein class Fterm glycoprotein METHODS The distribution, molecular size and glycoprotein class of Siglec-E ligands on mouse aorta were determined, and the protein carrier of the ligands was identified. 31306674 9 65 gly glycosylated 1458:1469 arg1 some key glycosylated host immune receptors some key glycosylated host immune receptors Fterm receptors 3458 This work demonstrates that iminosugar treatment of primary macrophages affects expression and functionality of some key glycosylated host immune receptors important in the dengue life cycle. 34780171 5 46 gly glycopeptides 1126:1138 arg2 glycopeptides glycopeptides glycopeptides The stepwise elution shows a high glycopeptide fractionation efficiency by a <10% overlap of glycopeptides between adjacent fractions. 34780171 5 80 gly glycopeptide 1067:1078 arg2 a high glycopeptide fractionation efficiency a high glycopeptide fractionation efficiency glycopeptide The stepwise elution shows a high glycopeptide fractionation efficiency by a <10% overlap of glycopeptides between adjacent fractions. 29687407 9 70 gly glycosylation 1733:1745 arg2 putative N-linked glycosylation sites putative N-linked glycosylation sites sites Translated sequences revealed potentially functional differences between brain and non-brain sequences in the location of putative N-linked glycosylation sites (N-sites), V1 length, V3 charge, and the number of V4 N-sites. 29687407 9 70 gly glycosylation 1733:1745 arg2 N-sites N-sites N-sites Translated sequences revealed potentially functional differences between brain and non-brain sequences in the location of putative N-linked glycosylation sites (N-sites), V1 length, V3 charge, and the number of V4 N-sites. 29687407 9 70 gly glycosylation 1733:1745 arg1 V4 N-sites N-sites N-sites Translated sequences revealed potentially functional differences between brain and non-brain sequences in the location of putative N-linked glycosylation sites (N-sites), V1 length, V3 charge, and the number of V4 N-sites. 29687407 9 70 gly glycosylation 1733:1745 arg1 V4 N-sites N-sites N-sites Translated sequences revealed potentially functional differences between brain and non-brain sequences in the location of putative N-linked glycosylation sites (N-sites), V1 length, V3 charge, and the number of V4 N-sites. 33554253 5 20 part_of rRb-IgGs 888:895 arg1 the hinge region IgGs the hinge region Cterm Site IgGs 16059 region Nonrecombinant Rb-IgGs have N- and O-glycans, and the presence of O-glycans close to the hinge region of the rRb-IgGs might affect the susceptibility of these antibodies to SrtA cleavage. 29899104 10 68 gly glycosylation 1728:1740 arg1 the E protein the E protein Fterm protein The mutation S156P results in disruption of N-linked glycosylation at amino acid 154 of the E protein and changes the conformation of "150 loop" of the E protein, which induces limited virus replication in lungs and abrogates transmission between ducks. 31308178 7 45 gly Asn-247 1459:1465 arg1 N-glycans Asn-247 N-glycans Asn-247 We propose that N-glycosylation, specifically the capping of N-glycans at Asn-247 by sialic acid, tunes ligand-dependent activation and signaling of VEGFR2 in endothelial cells. 30623643 9 39 gly glycoproteins 1572:1584 arg1 These "heavy" labeled glycoproteins These "heavy" labeled glycoproteins Fterm glycoproteins These "heavy" labeled glycoproteins represent a valuable tool for probing in vivo activity of host-associated bacterial communities and their interactions with the mucosal barrier. 29780502 2 37 gly O-mannosylation 342:356 arg1 intrinsically disordered regions regions intrinsically disordered regions Site regions O-linked glycans in particular vary widely in extent and chemistry in eukaryotes, with secreted proteins from fungi and yeast commonly exhibiting O-mannosylation in intrinsically disordered regions of proteins, likely for proteolysis protection, among other functions. 31913636 2 50 gly de-N-glycosylated 468:484 arg1 its de-N-glycosylated positions its de-N-glycosylated positions positions We found that following pruning of N-glycan by the amidase PNGase F, the principal influenza vaccine antigen and major viral spike protein hemagglutinin (HA) spontaneously reattached N-glycan to its de-N-glycosylated positions when the amidase was removed from solution. 29304374 10 16 gly fucosylation 1698:1709 arg1 N-glycans N-glycans Importantly, identification of additional affected individuals can be easily achieved through analysis of core fucosylation of N-glycans. 31059811 5 37 part_of Toll/IL-1R 851:860 arg1 cytoplasmic Toll/IL-1R domain IL-1R cytoplasmic Toll/IL-1R domain OGER Site IL-1R P14778 domain The derived amino acids sequence comprised of an extracellular domain including 26 amino acids signal peptide and eleven leucine-rich repeats (LRR), capped with LRRCT and LRRNT followed by transmembrane domain and cytoplasmic Toll/IL-1R domain (TIR). 31012303 4 62 gly used 830:833 arg2 9-histidine-DHP 9-histidine-DHP histidine Two pyrrole-amino acid conjugates, (±)-6,7-dihydro-7-hydroxy-1-hydroxymethyl-5 H-pyrrolizine (DHP)-cysteine (7-cysteine-DHP) and 9-histidine-DHP, were synthesized and used to demonstrate that acidified ethanolic AgNO3 derivatization can cleave both S-linkage and N-linkage of pyrrole-protein adducts. 31516400 2 9 gly glycoproteins 284:296 arg1 N-linked glycoproteins N-linked glycoproteins Fterm glycoproteins The large-scale characterization of N-linked glycoproteins accomplished by mass spectrometry-based glycoproteomics has provided valuable insights into the interdependence of glycoprotein structure and protein function. 31516400 2 80 gly glycoprotein 413:424 arg1 glycoprotein structure glycoprotein structure Fterm glycoprotein The large-scale characterization of N-linked glycoproteins accomplished by mass spectrometry-based glycoproteomics has provided valuable insights into the interdependence of glycoprotein structure and protein function. 30980499 5 52 gly N-glycoproteins 552:566 arg1 N-glycoproteins N-glycoproteins Fterm N-glycoproteins N-glycoproteins were enriched by lectin affinity chromatography and identified by mass spectrometry. 33806155 7 79 gly O-glycosylation 1163:1177 arg2 peptides peptides peptides However, O-glycosylation was primarily found on peptides that were unoccupied by N-glycans, and otherwise had low overall occupancy. 29983388 5 4 gly glycans 932:938 arg1 a specific position a specific position a specific position Site position Finally, we use in silico modeling to show that core fucosylations restrict the degrees of freedom of glycans on the integrin's surface, hence stabilizing glycans on a specific position. 30016717 9 61 part_of protein-protein 1505:1519 arg1 protein-protein interaction domains protein protein-protein interaction domains Fterm Site protein domains In particular, several O-GlcNAc sites were located into protein-protein interaction domains, suggesting that O-GlcNAcylation could be strongly involved in the organization and reorganization of sarcomere and myofibrils. 31168022 12 69 gly N-glycosylation 1713:1727 arg2 N-glycosylation sites N-glycosylation sites sites N-glycosidase F digestion of the 110 kDa GP and desmocollin suggested that although both proteins contain N-glycosylation sites, they are not identical. 34631661 7 5 part_of proteins 1423:1430 arg1 the 22 predicted N-glycosites S proteins the 22 predicted N-glycosites PUBTATOR Site S proteins 43740568 N-glycosites We identified 21 and 19 out of the 22 predicted N-glycosites of the SARS-CoV-2 S proteins produced in CHO and HEK, respectively. 32298669 12 39 gly glycosylation 2128:2140 arg1 therapeutic proteins therapeutic proteins Fterm proteins The elucidation of mechanism of determined changes requires further investigation, but the described analytical approach represent effective platform for determination, screening and evaluation of glycosylation of therapeutic proteins. 28687873 8 60 gly α2,6-sialylated 1541:1555 arg1 α2,6-sialylated receptor α2,6-sialylated receptor Fterm receptor CONCLUSIONS The study provides evidence of optimized therapeutic strategy in oncolytic virotherapy via partly defining α2,6-sialylated receptor as a "cellular marker" for NDV. 30600443 12 38 gly N-glycosylation 1152:1166 arg1 the CaV3.1-T-type Ca2+ channel the CaV3.1-T-type Ca2+ channel Fterm channel These findings suggest that N-glycosylation contributes not only to the cell surface expression of the CaV3.1-T-type Ca2+ channel but to the regulation of the gating properties of the channel when the channel proteins were processed during the folding and trafficking steps in the cell. 29437916 1 40 gly glycosylation 112:124 arg1 alpha-dystroglycan alpha-dystroglycan BACKGROUND Defects in glycosylation of alpha-dystroglycan (α-DG) cause autosomal-recessive disorders with wide clinical and genetic heterogeneity, with phenotypes ranging from congenital muscular dystrophies to milder limb girdle muscular dystrophies. 32890705 6 2 gly glycoproteins 1008:1020 arg1 glycoproteins glycoproteins Fterm glycoproteins RESULTS Our in vitro enzyme assays using various types of substrates including oligosaccharides and glycoproteins revealed that the V354N mutant had dramatically reduced activity for all tested substrates with an altered substrate preference and that K361A had reduced activity for an oligosaccharide with asparagine (Asn), but not a shorter oligosaccharide without the reducing end of GlcNAc and Asn. 31622635 2 38 gly glycosylated 268:279 arg1 O-linked glycosylated 11 amino acid repeats O-linked glycosylated 11 amino acid repeats The BSSL gene is highly polymorphic with a variant number of O-linked glycosylated 11 amino acid repeats at the C-terminus of the protein, encoded in exon 11 of the gene. 27728760 2 39 gly N-glycoproteins 467:481 arg1 21 surface N-glycoproteins 21 surface N-glycoproteins Fterm N-glycoproteins We report successful modification of a surface chemistry method for use with exosomes and identify 21 surface N-glycoproteins on exosomes released by mouse mammary carcinoma-induced MDSCs. 31616924 4 68 gly glycosites 747:756 arg2 all detectable glycosites all detectable glycosites glycosites Detailed LC-MS/MS analyses allowed the identification of the glycosite and the attached glycan and site occupancy for all detectable glycosites on APOE and further three-dimensional modeling of physiological glycoforms of APOE. 31616924 4 16 gly glycosite 675:683 arg1 the attached glycan and site occupancy glycosite the attached glycan and site occupancy glycosite Detailed LC-MS/MS analyses allowed the identification of the glycosite and the attached glycan and site occupancy for all detectable glycosites on APOE and further three-dimensional modeling of physiological glycoforms of APOE. 31616924 4 16 gly glycosite 675:683 arg1 the attached glycan and site occupancy glycosite the attached glycan and site occupancy glycosite Detailed LC-MS/MS analyses allowed the identification of the glycosite and the attached glycan and site occupancy for all detectable glycosites on APOE and further three-dimensional modeling of physiological glycoforms of APOE. 31616924 4 16 gly glycosite 675:683 arg1 the attached glycan and site occupancy glycosite the attached glycan and site occupancy glycosite Detailed LC-MS/MS analyses allowed the identification of the glycosite and the attached glycan and site occupancy for all detectable glycosites on APOE and further three-dimensional modeling of physiological glycoforms of APOE. 31616924 4 73 gly occupancy 718:726 arg2 the glycosite glycosite glycosite Detailed LC-MS/MS analyses allowed the identification of the glycosite and the attached glycan and site occupancy for all detectable glycosites on APOE and further three-dimensional modeling of physiological glycoforms of APOE. 30587575 8 38 gly kinase 1221:1226 arg1 The O-GlcNAcylation levels kinase The O-GlcNAcylation levels Fterm kinase The O-GlcNAcylation levels of paxillin, talin, and focal adhesion kinase were down-regulated in KD cells. 30683699 6 6 gly attached 1335:1342 arg1 the N-terminal Asn221 sequon AND complex sialylated glycans the N-terminal Asn221 sequon complex sialylated glycans Asn221 sequon The IgG1 Fc fragments containing complex sialylated glycans attached to the N-terminal Asn221 sequon bound influenza virus hemagglutinin and disrupted influenza A-mediated agglutination of human erythrocytes. 30683699 6 56 gly sialylated 1316:1325 arg1 complex sialylated glycans complex sialylated glycans The IgG1 Fc fragments containing complex sialylated glycans attached to the N-terminal Asn221 sequon bound influenza virus hemagglutinin and disrupted influenza A-mediated agglutination of human erythrocytes. 30683699 6 71 gly containing 1297:1306 arg1 The IgG1 Fc fragments AND complex sialylated glycans The IgG1 Fc fragments complex sialylated glycans fragments The IgG1 Fc fragments containing complex sialylated glycans attached to the N-terminal Asn221 sequon bound influenza virus hemagglutinin and disrupted influenza A-mediated agglutination of human erythrocytes. 30991145 3 16 gly glycosylation 571:583 arg2 viral glycosylation sites viral glycosylation sites sites Previous studies have demonstrated that changes to viral glycosylation sites may affect replication and immunogenicity, but little is known about the specific contributions of G protein glycosylation to IHNV replication and pathogenicity. 31041386 3 23 gly protein 375:381 arg1 O-Linked N-acetylglucosamine protein O-Linked N-acetylglucosamine Fterm protein O-Linked N-acetylglucosamine (O-GlcNAc) is a reversible protein modification found on many chromatin-associated proteins. 31041386 3 67 gly found 396:400 arg2 many chromatin-associated proteins AND O-Linked N-acetylglucosamine many chromatin-associated proteins O-Linked N-acetylglucosamine Fterm proteins O-Linked N-acetylglucosamine (O-GlcNAc) is a reversible protein modification found on many chromatin-associated proteins. 29070692 9 75 gly glycoproteins 1735:1747 arg1 two glycoproteins two glycoproteins Fterm glycoproteins The M segment of the virus encodes a polyprotein precursor that is cleaved into two glycoproteins, Gn and Gc. 30952089 6 38 gly glycosylation 944:956 arg2 the four potential N-linked glycosylation sites the four potential N-linked glycosylation sites sites Glycosylation modifications of PD-1 could be observed in three of the four potential N-linked glycosylation sites. 31777161 5 67 gly glycoproteins 569:581 arg1 glycoproteins glycoproteins Fterm glycoproteins Recently, N-glycoproteomic analysis performed on glycoproteins secreted by C. reinhardtii demonstrated that the xylosyltransferase A (XTA) was responsible for the addition of the core β(1,2)-xylose. 30735356 2 8 part_of mucin-like 308:317 arg1 a mucin-like region mucin a mucin-like region PUBTATOR Site mucin 100508689 region Herpes simplex virus type 1 (HSV-1), for example, exhibits a mucin-like region on its glycoprotein gC, a viral protein involved in initial recruitment of the virus to the cell surface via interaction with sulfated glycosaminoglycans. 30735356 2 24 part_of region 319:324 arg1 a viral protein protein region Fterm Site protein region Herpes simplex virus type 1 (HSV-1), for example, exhibits a mucin-like region on its glycoprotein gC, a viral protein involved in initial recruitment of the virus to the cell surface via interaction with sulfated glycosaminoglycans. 30735356 2 24 part_of region 319:324 arg1 its glycoprotein gC gC, a region OGER Site gC, a P16066 region Herpes simplex virus type 1 (HSV-1), for example, exhibits a mucin-like region on its glycoprotein gC, a viral protein involved in initial recruitment of the virus to the cell surface via interaction with sulfated glycosaminoglycans. 33347638 8 92 gly glycoproteins 1493:1505 arg1 serum glycoproteins serum glycoproteins Fterm glycoproteins Then, serum glycoproteins preferentially adsorbed onto Jacalin-Agarose as well as biotin-ACA/and biotin-MPA/streptavidin-immobilized magnetic beads were isolated, labeled with iTRAQ, and identified using quantitative mass spectrometry. 30814666 6 38 gly N-glycosylated 836:849 arg1 the sites the sites sites O-glycosylation constituted 83% of the events identified, while 17% of the sites were N-glycosylated. 31616924 7 74 gly glycosylated 1108:1119 arg1 Ser197 CSF Thr194 and Ser197 OGER CSF Thr194 and Ser197 APOE was hinge domain glycosylated (Thr194 and Ser197) in both CSF (27.3%) and plasma (10.3%). 31616924 7 74 gly glycosylated 1108:1119 arg1 Thr194 CSF Thr194 and Ser197 OGER CSF Thr194 and Ser197 APOE was hinge domain glycosylated (Thr194 and Ser197) in both CSF (27.3%) and plasma (10.3%). 31616924 7 74 gly glycosylated 1108:1119 arg1 Ser197 APOE Thr194 and Ser197 PUBTATOR APOE 348 Thr194 and Ser197 APOE was hinge domain glycosylated (Thr194 and Ser197) in both CSF (27.3%) and plasma (10.3%). 31616924 7 74 gly glycosylated 1108:1119 arg1 Thr194 APOE Thr194 and Ser197 PUBTATOR APOE 348 Thr194 and Ser197 APOE was hinge domain glycosylated (Thr194 and Ser197) in both CSF (27.3%) and plasma (10.3%). 31616924 7 74 gly glycosylated 1108:1119 arg1 Thr194 Thr194 and Ser197 Thr194 and Ser197 APOE was hinge domain glycosylated (Thr194 and Ser197) in both CSF (27.3%) and plasma (10.3%). 33263330 5 72 gly glycoproteins 866:878 arg1 target glycoproteins target glycoproteins Fterm glycoproteins Here, we demonstrate the benefits of producing target glycoproteins in the GlycoDelete human embryonic kidney 293 cell line that has been engineered to produce N-glycans as short glycan stumps comprising N-acetylglucosamine, galactose and sialic acid. 32304323 3 2 gly glycosylation 433:445 arg2 their sites their sites sites GalNAc-Ts select their sites of glycosylation based on weak and overlapping peptide sequence motifs, as well prior substrate O-GalNAc glycosylation at sites both remote (long-range) and neighboring (short-range) the acceptor. 32304323 3 76 gly sites 552:556 arg1 prior substrate O-GalNAc glycosylation sites prior substrate O-GalNAc glycosylation sites GalNAc-Ts select their sites of glycosylation based on weak and overlapping peptide sequence motifs, as well prior substrate O-GalNAc glycosylation at sites both remote (long-range) and neighboring (short-range) the acceptor. 32304323 3 18 gly glycosylation 535:547 arg1 sites sites sites GalNAc-Ts select their sites of glycosylation based on weak and overlapping peptide sequence motifs, as well prior substrate O-GalNAc glycosylation at sites both remote (long-range) and neighboring (short-range) the acceptor. 29755357 3 34 part_of contains 461:468 arg1 Human LCN2 AND one N-glycosylation site Human LCN2 one N-glycosylation site PUBTATOR Site LCN2 3934 site Human LCN2 contains one N-glycosylation site conserved in other species. 31628985 6 51 part_of OGT-TPR 1054:1060 arg1 the OGT-TPR domain OGT the OGT-TPR domain PUBTATOR Site OGT 8473 domain Since the nanospring character of the OGT-TPR domain is key to its function in binding and releasing OGT substrates, these changes of its biomechanics likely lead to defective substrate interaction. 31129958 3 28 gly glycopeptide 560:571 arg2 glycopeptide glycopeptide glycopeptide The effectiveness of these tools is best measured and improved by determining how often they would select a glycopeptide decoy as a spectral match, instead of its correct assignment; yet generating the appropriate number and type of glycopeptide decoys can be challenging. 31129958 3 35 gly glycopeptide 435:446 arg2 a glycopeptide decoy a glycopeptide decoy glycopeptide The effectiveness of these tools is best measured and improved by determining how often they would select a glycopeptide decoy as a spectral match, instead of its correct assignment; yet generating the appropriate number and type of glycopeptide decoys can be challenging. 33167210 1 26 gly glycoprotein 229:240 arg1 the highly abundant seminal plasma glycoprotein prostate-specific antigen the highly abundant seminal plasma glycoprotein prostate-specific antigen Fterm glycoprotein An altered total seminal plasma glycosylation has been associated with male infertility, and the highly abundant seminal plasma glycoprotein prostate-specific antigen (PSA) plays an important role in fertilization. 31616924 8 18 gly glycosylation 1263:1275 arg1 plasma peptide283-299 plasma peptide283-299 peptide283-299 CSF APOE held almost 10-fold more abundant C-terminal (Thr289, Ser290 and Ser296) glycosylation (36.8% of CSF peptide283-299 was glycosylated, 3.8% of plasma peptide283-299), with sialylated and disialylated (Neu5Acα2-3Galβ1-3(Neu5Acα2-6) GalNAcα1-) core 1 structures. 31616924 8 72 gly disialylated 1376:1387 arg1 disialylated (Neu5Acα2-3Galβ1-3(Neu5Acα2-6) GalNAcα1-) core 1 structures disialylated (Neu5Acα2-3Galβ1-3(Neu5Acα2-6) GalNAcα1-) core 1 structures CSF APOE held almost 10-fold more abundant C-terminal (Thr289, Ser290 and Ser296) glycosylation (36.8% of CSF peptide283-299 was glycosylated, 3.8% of plasma peptide283-299), with sialylated and disialylated (Neu5Acα2-3Galβ1-3(Neu5Acα2-6) GalNAcα1-) core 1 structures. 31616924 8 51 gly glycosylated 1310:1321 arg1 plasma peptide283-299 peptide283-299 peptide283-299 CSF APOE held almost 10-fold more abundant C-terminal (Thr289, Ser290 and Ser296) glycosylation (36.8% of CSF peptide283-299 was glycosylated, 3.8% of plasma peptide283-299), with sialylated and disialylated (Neu5Acα2-3Galβ1-3(Neu5Acα2-6) GalNAcα1-) core 1 structures. 30733333 3 2 gly detected 587:594 arg2 several eukaryotic translation initiation factors AND O-GlcNAcylation several eukaryotic translation initiation factors O-GlcNAcylation Fterm factors O-GlcNAcylation has also been detected on several eukaryotic translation initiation factors and ribosomal proteins. 30733333 3 2 gly detected 587:594 arg2 ribosomal proteins AND O-GlcNAcylation ribosomal proteins O-GlcNAcylation Fterm proteins O-GlcNAcylation has also been detected on several eukaryotic translation initiation factors and ribosomal proteins. 30733333 3 22 gly O-GlcNAcylation 557:571 arg1 several eukaryotic translation initiation factors several eukaryotic translation initiation factors Fterm factors O-GlcNAcylation has also been detected on several eukaryotic translation initiation factors and ribosomal proteins. 30733333 3 22 gly O-GlcNAcylation 557:571 arg1 ribosomal proteins ribosomal proteins Fterm proteins O-GlcNAcylation has also been detected on several eukaryotic translation initiation factors and ribosomal proteins. 31671706 6 58 gly glycosylation 1268:1280 arg2 the five glycosylation sites protein sites Fterm protein sites Based on the mapping results, the unique features in glycan microheterogeneity for the five glycosylation sites of VEGFR-IgG fusion protein were compared site-specifically and further discussed to understand the functional meaning of each glycosylation pattern. 30532249 0 36 part_of CDHR3 0:4 arg1 CDHR3 extracellular domains EC1-3 CDHR3 CDHR3 extracellular domains EC1-3 PUBTATOR Site CDHR3 222256 domains CDHR3 extracellular domains EC1-3 mediate rhinovirus C interaction with cells and as recombinant derivatives, are inhibitory to virus infection. 30487280 3 71 gly residue 656:662 arg1 a glycan residue 241 a glycan residue 241 For BG505 trimers, the dominant autologous NAb epitope in rabbits involves residues that line a cavity caused by the absence of a glycan at residue 241. 30919021 3 56 part_of has 397:399 arg1 P4HA1 AND two glycosylation sites P4HA1 sites, Asn PUBTATOR AminoAcid P4HA1 18451 sites, Asn P4HA1 has two glycosylation sites, Asn (N) 113 and N259. 32699088 0 33 part_of Neuraminidase 47:59 arg1 the Influenza A Virus Neuraminidase Head Domain Virus Neuraminidase the Influenza A Virus Neuraminidase Head Domain PUBTATOR Virus Neuraminidase 4758 N-Linked Glycan Sites on the Influenza A Virus Neuraminidase Head Domain Are Required for Efficient Viral Incorporation and Replication. 32699088 0 136 part_of Virus 41:45 arg1 the Influenza A Virus Neuraminidase Head Domain Virus Neuraminidase the Influenza A Virus Neuraminidase Head Domain PUBTATOR Virus Neuraminidase 4758 N-Linked Glycan Sites on the Influenza A Virus Neuraminidase Head Domain Are Required for Efficient Viral Incorporation and Replication. 30962950 4 14 gly glycoprotein 733:744 arg1 a leading prognostic glycoprotein a leading prognostic glycoprotein Fterm glycoprotein Serum core fucosylated quiescin sulfhydryl oxidase 1 (cf-QSOX1) was identified as a leading prognostic glycoprotein that significantly correlated with HCC recurrence. 30962950 4 73 gly fucosylated 641:651 arg1 a leading prognostic glycoprotein a leading prognostic glycoprotein Fterm glycoprotein Serum core fucosylated quiescin sulfhydryl oxidase 1 (cf-QSOX1) was identified as a leading prognostic glycoprotein that significantly correlated with HCC recurrence. 29512051 3 12 gly containing 793:802 arg1 regions AND N-linked glycans regions N-linked glycans regions Combining these data with Western blot analysis enabled the identification of the putative epitopes that appeared to span regions containing N-linked glycans. 30308090 6 87 part_of kinase 1227:1232 arg1 non-raft regions kinase non-raft regions Fterm Site kinase regions Our findings reveal enriched expression of p75NTR in lipid rafts and higher expression of tyrosine receptor kinase β (Trkβ) in non-raft regions following hypoxic exposure. 29753090 1 48 gly glycosylated 148:159 arg1 heavily glycosylated proteins heavily glycosylated proteins Fterm proteins Mucins are heavily glycosylated proteins with high molecular mass, and are involved in various diseases including infection, inflammation, and cancer. 32842538 3 36 part_of site 431:434 arg1 the E protein protein site Fterm Site protein site The prM protein of all ZIKV strains contains a single N-linked glycosylation site, while not all strains contain an N-linked site in the E protein. 32842538 3 4 part_of contains 342:349 arg1 The prM protein AND a single N-linked glycosylation site The prM protein a single N-linked glycosylation site Fterm Site protein site The prM protein of all ZIKV strains contains a single N-linked glycosylation site, while not all strains contain an N-linked site in the E protein. 34857845 3 31 gly proteins 380:387 arg1 Fucosylation proteins Fucosylation Fterm proteins Fucosylation of proteins regulates such processes and is associated with various diseases including autoimmunity and cancer. 34857845 3 49 gly Fucosylation 364:375 arg1 proteins proteins Fterm proteins Fucosylation of proteins regulates such processes and is associated with various diseases including autoimmunity and cancer. 31306420 1 22 gly glycosylation 137:149 arg2 The N-linked glycosylation motif The N-linked glycosylation motif motif The N-linked glycosylation motif at amino acid position 154-156 of the envelope (E) protein of West Nile virus (WNV) is linked to enhanced murine neuroinvasiveness, avian pathogenicity and vector competence. 31604106 1 7 gly glycoprotein 185:196 arg1 a glycoprotein hormone a glycoprotein hormone Fterm glycoprotein Human chorionic gonadotropin (hCG) is a glycoprotein hormone that exists as a heterodimer comprised of an α subunit and β subunit linked with disulfide bridges. 33030205 5 57 part_of IMPa 968:971 arg1 the N-terminal domain IMPa domain OGER Site IMPa P29218 domain Here, through the determination of a crystal structure of IMPa in complex with an O-glycopeptide, we reveal that the N-terminal domain of IMPa, which is classified in Pfam as IMPa_N_2, is a proline recognition domain that also shows the properties of recognizing an O-linked glycan on the serine/threonine residue following the proline. 30422384 4 5 part_of MMP-9 694:698 arg1 the MMP-9 propeptide MMP-9 the MMP-9 propeptide OGER Site MMP-9 P14780 propeptide First, we report new cleavage sites in the MMP-9 propeptide by MMP-3 and neutrophil elastase. 31892091 1 24 gly glycopeptide 290:301 arg2 glycopeptide glycopeptide glycopeptide In this study is described an on-line titanium dioxide solid-phase extraction capillary electrophoresis-mass spectrometry (TiO2-SPE-CE-MS) method for the analysis of the glycopeptide glycoforms obtained from the tryptic digests of recombinant human erythropoietin (rhEPO). 32462590 3 12 gly glycosylation 440:452 arg2 N-linked glycosylation sites N-linked glycosylation sites sites The identification of N-linked glycosylation sites and their structural characterization by mass spectrometry remains challenging due to their size, relative abundance, structural heterogeneity, and polarity. 31628985 2 56 part_of TPR 313:315 arg1 TPR domains TPR TPR domains OGER Site TPR P12270 domains TPR domains occur in a wide variety of proteins, and perform key functional roles including protein folding, protein trafficking, cell cycle control and post-translational modification. 30479582 1 5 gly glycoproteins 235:247 arg1 glycoproteins glycoproteins Fterm glycoproteins The prediction of the retention behavior/time would facilitate the identification and characterization of glycoproteins, particularly the analytical challenges, such as the characterization of low-abundance glycoforms. 34780171 3 9 gly glycopeptides 743:755 arg2 intact glycopeptides intact glycopeptides glycopeptides Here, we present the first implementation of zwitterionic hydrophilic interaction chromatography with the exposed choline group (ZIC-cHILIC) in StageTip for simultaneous enrichment and fractionation of intact glycopeptides. 34670086 4 6 gly glycosylation 575:587 arg1 the native-like soluble trimeric protein the native-like soluble trimeric protein Fterm protein Here, we show that the receptor binding domain (RBD), when expressed as a monomer, exhibits O-linked glycosylation, which is not recapitulated in the native-like soluble trimeric protein. 28871230 10 117 gly glycoproteins 2060:2072 arg1 N-linked glycans glycoproteins N-linked glycans Fterm glycoproteins The MALDI-TOF/TOF-MS results of N-linked glycans from the serum glycoproteins isolated by PHA-E+L-magnetic particle conjugates showed that there was an overlap of 23 N-glycan peaks (e.g., m/z 1419.743, 1663.734, and 1743.581) between CHB, and CHC patients, 5 glycan peaks (e.g., m/z 1850.878, 1866.661, and 2037.750) were presented in virus-infected hepatitis patients compared with HV, 3 glycan peaks (1460.659, 2069.740, and 2174.772) were observed only in CHC patients. 31186110 5 107 gly N-glycosylation 852:866 arg2 potential N-glycosylation site potential N-glycosylation site site Glycoengineering strategy was employed to construct IFN α2b with potential N-glycosylation site to evade the drawbacks of approved recombinant human IFN α2b drugs. 34962767 8 4 gly O-glycosites 1239:1250 arg2 two adjacent O-glycosites two adjacent O-glycosites O-glycosites The enzyme does not cleave between two adjacent O-glycosites, indicating that O-glycosylated serine/threonine is not allowed at position P1. 31063103 8 26 gly glycosylation 1181:1193 arg2 The predicted N-linked glycosylation site The predicted N-linked glycosylation site site The predicted N-linked glycosylation site between amino acids 6 and 8 in the V3 region was conserved in CCR5 viruses, but not in CXCR4 viruses. 32681150 4 7 gly glycoproteins 626:638 arg1 the glycocalyx N-glycans and O-glycans glycoproteins the glycocalyx N-glycans and O-glycans Fterm glycoproteins This protocol describes how to comprehensively characterize the glycocalyx N-glycans and O-glycans of glycoproteins, as well as intact glycolipids in parallel, using the same enriched membrane fraction. 32681150 4 22 gly glycoproteins 626:638 arg1 glycoproteins glycoproteins the glycocalyx N-glycans and O-glycans Fterm glycoproteins This protocol describes how to comprehensively characterize the glycocalyx N-glycans and O-glycans of glycoproteins, as well as intact glycolipids in parallel, using the same enriched membrane fraction. 32681150 4 22 gly glycoproteins 626:638 arg1 glycoproteins glycoproteins the glycocalyx N-glycans and O-glycans Fterm glycoproteins This protocol describes how to comprehensively characterize the glycocalyx N-glycans and O-glycans of glycoproteins, as well as intact glycolipids in parallel, using the same enriched membrane fraction. 33525794 2 22 gly glycoproteins 526:538 arg1 diverse glycoproteins diverse glycoproteins Fterm glycoproteins Since that time, metabolic engineering has played an increasingly important role in developing and optimizing microbial cell glyco-factories for the production of diverse glycoproteins and other glycoconjugates. 34523671 6 104 part_of protein 1447:1453 arg1 the protein substrate amino acid sequence protein the protein substrate amino acid sequence Fterm Site protein sequence It was found that optimizing the protein substrate amino acid sequence using Isoform Specific O-Glycosylation Prediction (ISOGlyP, http://isoglyp.utep.edu/index.php) resulted in a measurable increase in kcat/KM, thus improving glycosylation efficiency. 28844738 3 9 gly glycosylation 530:542 arg2 the N-linked glycosylation site the N-linked glycosylation site site This domain also contains the N-linked glycosylation site conserved in other isotypes. 32809822 1 15 gly glycoproteins 187:199 arg1 glycoproteins glycoproteins Fterm glycoproteins Changes in the levels and compositions of N-glycans released from serum and plasma glycoproteins have been assessed in many diseases across many large clinical sample cohorts. 32965048 2 13 gly N-glycopeptide 571:584 arg2 the intact N-glycopeptide database search engine the intact N-glycopeptide database search engine N-glycopeptide Each glycoform functions with a particular site- and structure-specific N-glycan that can be fully characterized using state-of-the-art tandem mass spectrometry (MS/MS) and the intact N-glycopeptide database search engine GPSeeker that we recently developed. 31399531 7 90 gly glycosylation 1299:1311 arg2 a new glycosylation site a new glycosylation site site Further analysis revealed Ile to Asn substitution introduces a new glycosylation site on first EGF-like domain of protein C, thereby adversely affecting interaction of activated protein C with protein S. Activated protein C-R352Q only exhibited reduced activity in sub-physiological concentrations of Na+ and Ca2+, suggesting that this residue contributes to metal ion-binding affinity of the protease, with no apparent adverse effect on its function in the presence of physiological levels of metal ions. 30581149 10 68 gly heterogeneity 1703:1715 arg1 carbohydrate IgE epitopes carbohydrate IgE epitopes IgE-reactivity and inhibition experiments established a hierarchy of plant glcyoallergens (nPhl p 4 > nCyn d 1 > nPla a 2 > nJug r 2 > nCup a 1 > nCry j 1) indicating a hitherto unknown heterogeneity of carbohydrate IgE epitopes in plants which were completely represented by HHM 2. 34551980 3 45 gly glycosylation 695:707 arg2 all possible glycosylation site variants all possible glycosylation site variants site To address this challenge, we describe a combinatorial strategy termed shotgun scanning glycomutagenesis in which DNA libraries encoding all possible glycosylation site variants of a given protein are constructed and subsequently expressed in glycosylation-competent bacteria, thereby enabling rapid determination of glycosylatable sites in the protein. 28067406 9 3 part_of cis-interacting 1588:1602 arg1 cis-interacting intracellular region cis cis-interacting intracellular region OGER Site cis Q9NSE2 region In silico analysis revealed that Ninj1 is highly conserved in vertebrates and that the conserved sequence contains an N-glycosylation motif and cis-interacting intracellular region, which participate in Ninj1 homomer assembly. 28067406 9 32 part_of contains 1550:1557 arg1 the conserved sequence AND cis-interacting intracellular region the conserved sequence cis-interacting intracellular region region In silico analysis revealed that Ninj1 is highly conserved in vertebrates and that the conserved sequence contains an N-glycosylation motif and cis-interacting intracellular region, which participate in Ninj1 homomer assembly. 28067406 9 32 part_of contains 1550:1557 arg1 the conserved sequence AND an N-glycosylation motif the conserved sequence an N-glycosylation motif motif In silico analysis revealed that Ninj1 is highly conserved in vertebrates and that the conserved sequence contains an N-glycosylation motif and cis-interacting intracellular region, which participate in Ninj1 homomer assembly. 32326134 1 9 gly glycoprotein 196:207 arg1 a gel-forming glycoprotein polymer a gel-forming glycoprotein polymer Fterm glycoprotein Bovine submaxillary mucin (BSM) is a gel-forming glycoprotein polymer, and Ser/Thr-linked glycans (O-glycans) are important in regulating BSM's viscoelasticity and polymerization. 30153274 2 74 gly glycoproteins 407:419 arg1 major O-linked glycoproteins major O-linked glycoproteins Fterm glycoproteins P. gingivalis produces outer membrane protein A (OmpA)-like proteins (OmpALPs), Pgm6 and Pgm7, as major O-linked glycoproteins, but their pathological roles in P. gingivalis infection are largely unknown. 30153274 2 74 gly glycoproteins 407:419 arg1 outer membrane protein A (OmpA)-like proteins outer membrane protein A (OmpA)-like proteins Fterm proteins P. gingivalis produces outer membrane protein A (OmpA)-like proteins (OmpALPs), Pgm6 and Pgm7, as major O-linked glycoproteins, but their pathological roles in P. gingivalis infection are largely unknown. 31450586 10 2 gly glycosylation 1451:1463 arg2 the glycosylation site occupancy the glycosylation site occupancy site However, alterations in 55 differentially expressed glycoproteins showed no significant change at the protein abundance level, representing that the glycosylation site occupancy was changed between the non-type subtype and luminal/basal subtypes. 31450586 10 69 gly glycoproteins 1354:1366 arg1 55 differentially expressed glycoproteins 55 differentially expressed glycoproteins Fterm glycoproteins However, alterations in 55 differentially expressed glycoproteins showed no significant change at the protein abundance level, representing that the glycosylation site occupancy was changed between the non-type subtype and luminal/basal subtypes. 32030495 2 13 gly N-glycopeptides 552:566 arg2 1,336 intact N-glycopeptides 1,336 intact N-glycopeptides N-glycopeptides With a spectrum-level false discovery rate of ≤ 1%, 1,336 intact N-glycopeptides from the combination of 301 unique peptide backbones and 169 putative N-glycan linkages (52 monosaccharide compositions) were identified; the corresponding intact N-glycoproteins and N-glycosites were 289 and 305, respectively, among which 176 N-glycosites were confirmed with GlcNAc-containing site-determining b/y fragment ion pairs. 32030495 2 26 gly N-glycoproteins 731:745 arg1 the corresponding intact N-glycoproteins the corresponding intact N-glycoproteins Fterm N-glycoproteins With a spectrum-level false discovery rate of ≤ 1%, 1,336 intact N-glycopeptides from the combination of 301 unique peptide backbones and 169 putative N-glycan linkages (52 monosaccharide compositions) were identified; the corresponding intact N-glycoproteins and N-glycosites were 289 and 305, respectively, among which 176 N-glycosites were confirmed with GlcNAc-containing site-determining b/y fragment ion pairs. 32030495 2 32 gly N-glycosites 812:823 arg2 176 N-glycosites 176 N-glycosites N-glycosites With a spectrum-level false discovery rate of ≤ 1%, 1,336 intact N-glycopeptides from the combination of 301 unique peptide backbones and 169 putative N-glycan linkages (52 monosaccharide compositions) were identified; the corresponding intact N-glycoproteins and N-glycosites were 289 and 305, respectively, among which 176 N-glycosites were confirmed with GlcNAc-containing site-determining b/y fragment ion pairs. 32030495 2 59 gly N-glycosites 751:762 arg2 N-glycosites N-glycosites N-glycosites With a spectrum-level false discovery rate of ≤ 1%, 1,336 intact N-glycopeptides from the combination of 301 unique peptide backbones and 169 putative N-glycan linkages (52 monosaccharide compositions) were identified; the corresponding intact N-glycoproteins and N-glycosites were 289 and 305, respectively, among which 176 N-glycosites were confirmed with GlcNAc-containing site-determining b/y fragment ion pairs. 32030495 2 62 gly fragment 884:891 arg1 GlcNAc-containing site-determining b/y fragment ion pairs GlcNAc-containing site-determining b/y fragment ion pairs With a spectrum-level false discovery rate of ≤ 1%, 1,336 intact N-glycopeptides from the combination of 301 unique peptide backbones and 169 putative N-glycan linkages (52 monosaccharide compositions) were identified; the corresponding intact N-glycoproteins and N-glycosites were 289 and 305, respectively, among which 176 N-glycosites were confirmed with GlcNAc-containing site-determining b/y fragment ion pairs. 32030495 2 64 gly peptide 603:609 arg1 52 monosaccharide compositions 52 monosaccharide compositions With a spectrum-level false discovery rate of ≤ 1%, 1,336 intact N-glycopeptides from the combination of 301 unique peptide backbones and 169 putative N-glycan linkages (52 monosaccharide compositions) were identified; the corresponding intact N-glycoproteins and N-glycosites were 289 and 305, respectively, among which 176 N-glycosites were confirmed with GlcNAc-containing site-determining b/y fragment ion pairs. 32782472 5 111 gly N-glycosylation 999:1013 arg2 the triple N-glycosylation site deficient mutants the triple N-glycosylation site deficient mutants site RESULTS Two expression hosts, Aspergillus oryzae and Trichoderma reesei, were utilized to successfully express wild-types TrCel7A (WT and WT ) and the triple N-glycosylation site deficient mutants TrCel7A N45Q, N270Q, N384Q (ΔN-glyc and ΔN-glyc ). 29499461 3 15 gly glycoprotein 651:662 arg1 glycoprotein biotherapeutics glycoprotein biotherapeutics Fterm glycoprotein Glycosylation, therefore, is considered as one of the important critical quality attributes of glycoprotein biotherapeutics, and consequently for their biosimilar counterparts. 32461612 5 6 gly glycoprotein 819:830 arg1 Lassa virus glycoprotein Lassa virus glycoprotein Fterm glycoprotein We provide a comparison of the global glycan density of coronavirus spikes with other viral proteins including HIV-1 envelope, Lassa virus glycoprotein complex, and influenza hemagglutinin, where glycosylation plays a known role in shielding immunogenic epitopes. 33404348 4 14 gly glycosylation 617:629 arg1 proteins proteins Fterm proteins Since glycosylation of proteins increases their structural complexity by several orders of magnitude, glycome studies resulted in highly dynamic biomarkers that can be evaluated for cancer diagnosis, prognosis, and therapy. 29902539 8 14 gly residues 1250:1257 arg1 O- linked glycoconjugated residues O- linked glycoconjugated residues residues Furthermore, the toxin exhibited its maximal hemolytic activity at pH between 8 and 9, displaying typical N- and O- linked glycoconjugated residues (galactose (1-4) N-acetylglucosamine and sialic acid (2-3) galactose in N- and/or O-glycan complexes). 30250045 0 57 gly sialylated 40:49 arg1 mesothelioma-specific sialylated epitope mesothelioma-specific sialylated epitope epitope Identification of mesothelioma-specific sialylated epitope recognized with monoclonal antibody SKM9-2 in a mucin-like membrane protein HEG1. 33629527 3 37 part_of have 536:539 arg1 neuraminidase AND multiple N-glycosylation sites neuraminidase multiple N-glycosylation sites PUBTATOR Site neuraminidase 4758 sites The influenza A virus (IAV) proteins hemagglutinin (HA) and neuraminidase (NA) have multiple N-glycosylation sites, and alteration of N-glycan micro- and macroheterogeneity can have strong effects on virulence and immunogenicity. 33629527 3 37 part_of have 536:539 arg1 hemagglutinin AND multiple N-glycosylation sites hemagglutinin multiple N-glycosylation sites Fterm Site hemagglutinin sites The influenza A virus (IAV) proteins hemagglutinin (HA) and neuraminidase (NA) have multiple N-glycosylation sites, and alteration of N-glycan micro- and macroheterogeneity can have strong effects on virulence and immunogenicity. 33629527 3 37 part_of have 536:539 arg1 The influenza A virus (IAV) proteins AND multiple N-glycosylation sites The influenza A virus (IAV) proteins multiple N-glycosylation sites Fterm Site proteins sites The influenza A virus (IAV) proteins hemagglutinin (HA) and neuraminidase (NA) have multiple N-glycosylation sites, and alteration of N-glycan micro- and macroheterogeneity can have strong effects on virulence and immunogenicity. 34888356 4 95 gly terminus 676:683 arg1 sialic acids terminus sialic acids terminus In particular, sialic acids at the terminus of glycoconjugates are directly implicated in immune responses, cell-cell/pathogen interactions, and tumor progression. 30735356 3 13 part_of mucin-like 494:503 arg1 this mucin-like region mucin this mucin-like region PUBTATOR Site mucin 100508689 region So far, this mucin-like region has been proposed to play a key role in modulating the interactions with cellular glycosaminoglycans, and in particular to promote release of HSV-1 virions from infected cells. 30718403 7 41 gly domain 1214:1219 arg1 at least one D1 domain glycan at least one D1 domain glycan CD4 polymorphisms also reduced Env-mediated cell entry of monkey SIVs, which was dependent on at least one D1 domain glycan. 34192331 4 70 part_of IgG-Fc 650:655 arg1 the IgG-Fc region IgG the IgG-Fc region Cterm Site IgG region The major glycoforms of the N-glycans on the IgG-Fc region are bi-antennary complex-type N-glycans, while multibranched complex-type N-glycans are not typically found. 30016717 13 11 part_of protein-protein 2621:2635 arg1 protein-protein interaction domains protein protein-protein interaction domains Fterm Site protein domains We also focused on structural proteins in view of recent data supporting the role of O-GlcNAcylation in the modulation of sarcomere cytoarchitecture; importantly, some of the O-GlcNAc sites were mapped into protein-protein interaction domains, reinforcing the involvement of O-GlcNAcylation in the organization and reorganization of sarcomere, and in larger extent, of myofibrils. 33908014 3 31 gly glycans 505:511 arg1 the Fc domain the Fc domain the Fc domain Site domain Here we use combinations of exoglycosidases to precisely characterize glycans on the Fc domain of therapeutic antibodies and dimeric fusion proteins. 33908014 3 31 gly glycans 505:511 arg1 dimeric fusion proteins proteins glycans Fterm proteins Here we use combinations of exoglycosidases to precisely characterize glycans on the Fc domain of therapeutic antibodies and dimeric fusion proteins. 33577335 7 30 gly glycoproteins 1369:1381 arg1 glycoproteins glycoproteins Fterm glycoproteins This structure-activity relationship study on glycoproteins highlights the viability of applying the de novo approach to probe the roles of N-glycans. 29491160 8 57 gly α2-6-sialylated 1384:1398 arg1 extended α2-6-sialylated N-linked glycans extended α2-6-sialylated N-linked glycans Indeed, the addition of the K193T mutation to the H5 HA of a respiratory-droplet-transmissible virus dramatically improves both binding to human trachea epithelial cells and specificity for extended α2-6-sialylated N-linked glycans recognized by human influenza viruses.IMPORTANCE Infections by avian H5N1 viruses are associated with a high mortality rate in several species, including humans. 29427717 10 25 gly glycosylation 1332:1344 arg2 two N-linked glycosylation sites two N-linked glycosylation sites sites This motif can be discovered in ShTXNL1 as 14CRPC17 and comprised two N-linked glycosylation sites at 72NISA75 and 139NESD142. 29772801 9 2 part_of S612A/T643A 963:973 arg1 Double-mutant (S612A/T643A) lamin A tails S612A/T643A) lamin A Double-mutant (S612A/T643A) lamin A tails PUBTATOR Site S612A/T643A) lamin A 4000 tails Double-mutant (S612A/T643A) lamin A tails were still robustly O-GlcNAc-modified at seven sites. 29772801 9 3 part_of lamin 976:980 arg1 Double-mutant (S612A/T643A) lamin A tails S612A/T643A) lamin A Double-mutant (S612A/T643A) lamin A tails PUBTATOR Site S612A/T643A) lamin A 4000 tails Double-mutant (S612A/T643A) lamin A tails were still robustly O-GlcNAc-modified at seven sites. 29772801 9 47 part_of A 982:982 arg1 Double-mutant (S612A/T643A) lamin A tails S612A/T643A) lamin A Double-mutant (S612A/T643A) lamin A tails PUBTATOR Site S612A/T643A) lamin A 4000 tails Double-mutant (S612A/T643A) lamin A tails were still robustly O-GlcNAc-modified at seven sites. 34662441 5 46 gly glycoforms 1044:1053 arg2 the N459, N476, and N638 sequons the N459, N476, and N638 sequons We noted an interesting spatial distribution of the glycoforms on the PSMA surface-high mannose glycans were the dominant glycoforms at the N459, N476, and N638 sequons facing the plasma membrane, while the N121, N195, and N336 sites, located at the exposed apical PSMA domain, carried primarily complex glycans. 34662441 5 64 gly carried 1200:1206 arg1 the N121, N195, and N336 sites AND complex glycans the N121, N195, and N336 sites complex glycans N121, N195, and N336 sites We noted an interesting spatial distribution of the glycoforms on the PSMA surface-high mannose glycans were the dominant glycoforms at the N459, N476, and N638 sequons facing the plasma membrane, while the N121, N195, and N336 sites, located at the exposed apical PSMA domain, carried primarily complex glycans. 30420690 0 38 gly factors 37:43 arg1 O-GlcNAcylation factors O-GlcNAcylation Fterm factors O-GlcNAcylation of GLI transcription factors in hyperglycemic conditions augments Hedgehog activity. 31829588 6 51 gly fucosylated 777:787 arg1 fucosylated glycans fucosylated glycans Shifts in the oligomannose distribution and the number of sialylated and fucosylated glycans were observed. 29621585 5 16 part_of cnBST-2 655:661 arg1 The extracellular domain BST-2 The extracellular domain PUBTATOR Site BST-2 684 domain The extracellular domain of cnBST-2 has two putative N-linked glycosylation sites and three potential dimerization sites. 29621585 5 53 part_of has 663:665 arg1 cnBST-2 AND two putative N-linked glycosylation sites BST-2 sites PUBTATOR Site BST-2 684 sites The extracellular domain of cnBST-2 has two putative N-linked glycosylation sites and three potential dimerization sites. 29621585 5 53 part_of has 663:665 arg1 The extracellular domain AND three potential dimerization sites BST-2 sites PUBTATOR Site BST-2 684 sites The extracellular domain of cnBST-2 has two putative N-linked glycosylation sites and three potential dimerization sites. 29621585 5 53 part_of has 663:665 arg1 The extracellular domain AND two putative N-linked glycosylation sites BST-2 sites PUBTATOR Site BST-2 684 sites The extracellular domain of cnBST-2 has two putative N-linked glycosylation sites and three potential dimerization sites. 29621585 5 53 part_of has 663:665 arg1 The extracellular domain AND three potential dimerization sites BST-2 sites PUBTATOR Site BST-2 684 sites The extracellular domain of cnBST-2 has two putative N-linked glycosylation sites and three potential dimerization sites. 29621585 5 53 part_of has 663:665 arg1 The extracellular domain AND two putative N-linked glycosylation sites BST-2 sites PUBTATOR Site BST-2 684 sites The extracellular domain of cnBST-2 has two putative N-linked glycosylation sites and three potential dimerization sites. 29621585 5 53 part_of has 663:665 arg1 The extracellular domain AND two putative N-linked glycosylation sites BST-2 sites PUBTATOR Site BST-2 684 sites The extracellular domain of cnBST-2 has two putative N-linked glycosylation sites and three potential dimerization sites. 30633504 6 1 gly N-Glycosylation 982:996 arg2 Asn34 Asn34 Asn34 N-Glycosylation at Asn34 generates the most active and stable glycoforms, in accord with its sequon being highly conserved among vertebrate species. 30919021 3 46 gly glycosylation 405:417 arg2 N259 N259 N259 P4HA1 has two glycosylation sites, Asn (N) 113 and N259. 30919021 3 46 gly glycosylation 405:417 arg2 two glycosylation sites sites, Asn sites, Asn P4HA1 has two glycosylation sites, Asn (N) 113 and N259. 32890705 8 10 gly glycoproteins 1569:1581 arg1 glycoproteins glycoproteins Fterm glycoproteins We further performed rescue experiments using GnT-V knockout HeLa cells and confirmed the importance of these residues for modifications of glycoproteins in cells. 33103998 3 36 gly glycoforms 319:328 arg1 Spike-protein Spike-protein Fterm Spike-protein We expressed different glycoforms of the Spike-protein and ACE2 in CRISPR-Cas9 glycoengineered cells, and developed corresponding SARS-CoV-2 pseudovirus. 33295603 3 22 gly glycoproteins 464:476 arg1 glycoproteins glycoproteins Fterm glycoproteins Although recent technological advances have enhanced our ability to profile glycosylation of glycoproteins, limitations in the understanding of the biosynthesis of these glycan structures remain. 33295603 3 24 gly glycosylation 447:459 arg1 glycoproteins glycoproteins Fterm glycoproteins Although recent technological advances have enhanced our ability to profile glycosylation of glycoproteins, limitations in the understanding of the biosynthesis of these glycan structures remain. 34358619 4 17 gly glycoproteins 937:949 arg1 cell surface glycoproteins cell surface glycoproteins Fterm glycoproteins In this work, we used a well-established cell surface glycomic nanoLC-Chip-Q-TOF platform developed in our laboratory to characterize the N-glycome of membrane fractions enriched in cell surface glycoproteins obtained from specific functional brain areas. 29861440 1 6 gly threonine 179:187 arg1 O-linked N-acetylglucosamine serine and threonine residues O-linked N-acetylglucosamine serine and threonine residues O-linked N-acetylglucosamine (O-GlcNAc) is a dynamic post-translational modification of serine and threonine residues on nuclear and cytoplasmic proteins. 29861440 1 67 gly serine 168:173 arg1 O-linked N-acetylglucosamine serine and threonine residues O-linked N-acetylglucosamine serine and threonine residues O-linked N-acetylglucosamine (O-GlcNAc) is a dynamic post-translational modification of serine and threonine residues on nuclear and cytoplasmic proteins. 29780502 3 41 gly glycosylated 659:670 arg1 glycosylated intrinsically disordered proteins glycosylated intrinsically disordered proteins Fterm proteins However, it is not well understood why mannose is often the preferred glycan, and more generally, if the neighboring protein sequence and glycan have coevolved to protect against proteolysis in glycosylated intrinsically disordered proteins (IDPs). 34279906 5 8 gly glycoproteins 1103:1115 arg1 intact glycoproteins intact glycoproteins Fterm glycoproteins We show how N-glycan branching, terminal fucosylation, LacNAc extensions, and N- and O-glycan occupancy (i.e., total number of glycans) can be directly characterized on intact glycoproteins with minimal sample preparation. 34279906 5 53 gly fucosylation 968:979 arg1 intact glycoproteins intact glycoproteins Fterm glycoproteins We show how N-glycan branching, terminal fucosylation, LacNAc extensions, and N- and O-glycan occupancy (i.e., total number of glycans) can be directly characterized on intact glycoproteins with minimal sample preparation. 30538676 4 75 gly proteins 920:927 arg1 the O-GlcNAc modification proteins the O-GlcNAc modification Fterm proteins Here, we demonstrate that FGF23 increased the O-GlcNAc modification of proteins in HBECs. 31913371 2 5 gly glycoproteins 308:320 arg1 glycoproteins glycoproteins Fterm glycoproteins The types and abundance of glycans on glycoproteins can vary due to diseases such as cancer, inflammation, autoimmune and neurodegenerative disorders. 31913371 2 71 gly glycans 297:303 arg1 glycoproteins glycoproteins glycans Fterm glycoproteins The types and abundance of glycans on glycoproteins can vary due to diseases such as cancer, inflammation, autoimmune and neurodegenerative disorders. 31826991 9 37 gly glycosite 1263:1271 arg2 glycosite glycosite glycosite We found that glycosite "N165" (H3 numbering) is occupied by high-mannose glycans in H3 HA but by complex glycans in all LPAIV HAs. 33908015 6 4 gly glycoproteins 744:756 arg1 model glycoproteins model glycoproteins Fterm glycoproteins The sample preparation for permethylated glycans derived from model glycoproteins and complex biological samples, analyzed using LC-MS/MS, is delineated. 33908015 6 11 gly derived 725:731 arg1 model glycoproteins AND permethylated glycans model glycoproteins permethylated glycans Fterm glycoproteins The sample preparation for permethylated glycans derived from model glycoproteins and complex biological samples, analyzed using LC-MS/MS, is delineated. 31837192 10 79 gly glycoproteins 1794:1806 arg1 plant-produced glycoproteins glycoproteins galactosylated complex N-glycans Fterm glycoproteins Altogether, our data demonstrate that NbBGAL1 acts on galactosylated complex N-glycans of plant-produced glycoproteins. 34631661 8 129 part_of 122 1538:1540 arg1 122, 282 and 1,158 positions 2 122, 282 and 1,158 positions PUBTATOR Site 2 170589 positions It was found that the N-glycosite at 1,158 position (N1158) and at 122, 282 and 1,158 positions (N122, N282 and N1158) were absent on S from CHO and HEK cells, respectively. 32965048 13 16 gly glycopeptide 2345:2356 arg2 glycopeptide oxonium ion patterns glycopeptide oxonium ion patterns glycopeptide The results implied an interesting possibility that glycopeptide oxonium ion patterns could serve as distinguishing markers between individuals and/or between physiological and pathological states. 29596379 4 0 part_of possesses 632:640 arg1 maNRAMP AND a conserved transport motif maNRAMP a conserved transport motif PUBTATOR Site NRAMP 18173 motif The deduced protein (maNRAMP) possesses the typical structural features of NRAMP protein family, including 12 transmembrane domains, three N-linked glycosylation sites, and a conserved transport motif. 29596379 4 0 part_of possesses 632:640 arg1 maNRAMP AND 12 transmembrane domains maNRAMP 12 transmembrane domains PUBTATOR Site NRAMP 18173 domains The deduced protein (maNRAMP) possesses the typical structural features of NRAMP protein family, including 12 transmembrane domains, three N-linked glycosylation sites, and a conserved transport motif. 29596379 4 0 part_of possesses 632:640 arg1 maNRAMP AND three N-linked glycosylation sites maNRAMP three N-linked glycosylation sites PUBTATOR Site NRAMP 18173 sites The deduced protein (maNRAMP) possesses the typical structural features of NRAMP protein family, including 12 transmembrane domains, three N-linked glycosylation sites, and a conserved transport motif. 29596379 4 0 part_of possesses 632:640 arg1 The deduced protein AND a conserved transport motif The deduced protein a conserved transport motif Fterm Site protein motif The deduced protein (maNRAMP) possesses the typical structural features of NRAMP protein family, including 12 transmembrane domains, three N-linked glycosylation sites, and a conserved transport motif. 29596379 4 0 part_of possesses 632:640 arg1 The deduced protein AND 12 transmembrane domains The deduced protein 12 transmembrane domains Fterm Site protein domains The deduced protein (maNRAMP) possesses the typical structural features of NRAMP protein family, including 12 transmembrane domains, three N-linked glycosylation sites, and a conserved transport motif. 29596379 4 0 part_of possesses 632:640 arg1 The deduced protein AND three N-linked glycosylation sites The deduced protein three N-linked glycosylation sites Fterm Site protein sites The deduced protein (maNRAMP) possesses the typical structural features of NRAMP protein family, including 12 transmembrane domains, three N-linked glycosylation sites, and a conserved transport motif. 33581334 9 21 gly O-glycosylation 1201:1215 arg2 O-glycosylation sites O-glycosylation sites sites, O-glycopeptide sequences The first version of OGP repository and the website allow users to obtain various O-glycoprotein-related information, such as protein accession Nos., O-glycosylation sites, O-glycopeptide sequences, site-specific O-glycan structures, experimental methods, and potential O-glycosylation sites. 33581334 9 30 gly O-glycosylation 1321:1335 arg2 potential O-glycosylation sites potential O-glycosylation sites sites The first version of OGP repository and the website allow users to obtain various O-glycoprotein-related information, such as protein accession Nos., O-glycosylation sites, O-glycopeptide sequences, site-specific O-glycan structures, experimental methods, and potential O-glycosylation sites. 33581334 9 31 gly O-glycopeptide 1224:1237 arg1 site-specific O-glycan structures sites, O-glycopeptide sequences site-specific O-glycan structures sites, O-glycopeptide sequences The first version of OGP repository and the website allow users to obtain various O-glycoprotein-related information, such as protein accession Nos., O-glycosylation sites, O-glycopeptide sequences, site-specific O-glycan structures, experimental methods, and potential O-glycosylation sites. 30368301 2 58 gly glycoprotein 296:307 arg1 a hetero-dimeric glycoprotein a hetero-dimeric glycoprotein Fterm glycoprotein hCG is a hetero-dimeric glycoprotein, specific to the human pregnancy, consisting of an α and a β subunit, so-called hCGα and hCGβ, respectively. 30706985 4 4 gly positioning 555:565 arg1 the sugar position the sugar position The positioning of the reporter on the sugar significantly altered its metabolic fate. 36303733 0 15 gly Glycans 60:66 arg1 the Spike (S) Glycoprotein Glycoprotein Glycans Fterm Glycoprotein N-Glycosylation Network Construction and Analysis to Modify Glycans on the Spike (S) Glycoprotein of SARS-CoV-2. 34962767 12 23 gly O-glycosites 1865:1876 arg2 O-glycosites O-glycosites O-glycosites In these examples, IMPa enabled both the identification of O-glycosites and the range of complex O-glycan structures at each site. 33676668 3 76 gly N-glycopeptides 779:793 arg2 N-glycopeptides N-glycopeptides N-glycopeptides Here, we synthesized a new type of hydrophilic composite based on electrostatic interactions, which has been proven to be effective in immobilizing cationic cellulose on graphene oxide-dopamine carriers (expressed as GO-DA-JR), for highly specific enrichment of N-glycopeptides. 31913371 1 11 gly glycoproteins 200:212 arg1 glycoproteins glycoproteins Fterm glycoproteins Glycosylation influences the structure and functionality of glycoproteins, and is regulated by genetic and environmental factors. 32553552 2 56 gly glycoproteins 208:220 arg1 glycoproteins glycoproteins Fterm glycoproteins It has previously been established that glycoproteins in the midgut microvillar membrane of insects are targets for toxins produced by different organisms as well as plant lectins. 31852790 5 67 part_of regions 955:961 arg1 the COBRA HA proteins proteins regions Fterm Site proteins regions In order to better understand how these HA antigens elicit broadly reactive immune responses, epitopes in the Cb, Sa, or Sb antigenic sites of seasonal-like and pandemic-like wild-type or COBRA HA antigens were exchanged with homologous regions in the COBRA HA proteins to determine which regions and residues were responsible for the elicited antibody profile. 31852790 5 106 part_of epitopes 812:819 arg1 Sb antigenic sites epitopes Sb antigenic sites sites In order to better understand how these HA antigens elicit broadly reactive immune responses, epitopes in the Cb, Sa, or Sb antigenic sites of seasonal-like and pandemic-like wild-type or COBRA HA antigens were exchanged with homologous regions in the COBRA HA proteins to determine which regions and residues were responsible for the elicited antibody profile. 32946227 3 27 gly glycopeptide 452:463 arg2 a dimeric tyrosine-rich glycopeptide system a dimeric tyrosine-rich glycopeptide system glycopeptide Here we have established a dimeric tyrosine-rich glycopeptide system for probing the corresponding hydrogelating behavior under the influence of site- and stereospecific glycosylations. 34212152 2 6 gly glycosylation 418:430 arg2 five glycosylation sites five glycosylation sites sites To understand site-specific processing, we used protein disulfide isomerase (PDI), a model protein with five glycosylation sites, for molecular dynamics (MD) simulations and compared the result to a biochemical in vitro analysis with four different glycan processing enzymes. 30712568 3 49 part_of ZIC 520:522 arg1 a zwitterionic (ZIC) polymer-coated magnetic composites ZIC a zwitterionic (ZIC) polymer-coated magnetic composites OGER Site ZIC Q15915 composites Herein, a facile and effective approach was developed to synthesize a zwitterionic (ZIC) polymer-coated magnetic composites (denoted as Fe3O4@PMSA) with a zwitterion ((2-(methacryloyloxy)ethyl)-dimethyl-(3-sulfopropyl) ammonium hydroxide, MSA) via one-step distillation-precipitation polymerization (DPP). 33270232 0 0 gly moieties 7:14 arg1 Entamoeba histolytica ubiquitin ubiquitin moieties Fterm ubiquitin Glycan moieties in Entamoeba histolytica ubiquitin are immunodominant. 34545811 5 19 gly glycoproteins 1004:1016 arg1 newly synthesized glycoproteins newly synthesized glycoproteins Fterm glycoproteins They functioned as distal glycosylation stations in dendrites, terminally modifying sugars either on newly synthesized glycoproteins passing through the secretory pathway or on surface glycoproteins taken up from the endocytic pathway. 34545811 5 43 gly glycoproteins 1070:1082 arg1 surface glycoproteins surface glycoproteins Fterm glycoproteins They functioned as distal glycosylation stations in dendrites, terminally modifying sugars either on newly synthesized glycoproteins passing through the secretory pathway or on surface glycoproteins taken up from the endocytic pathway. 34545811 5 30 gly sugars 969:974 arg1 surface glycoproteins glycoproteins sugars Fterm glycoproteins They functioned as distal glycosylation stations in dendrites, terminally modifying sugars either on newly synthesized glycoproteins passing through the secretory pathway or on surface glycoproteins taken up from the endocytic pathway. 29409894 10 34 gly glycoprotein 1691:1702 arg1 glycoprotein abundance glycoprotein abundance Fterm glycoprotein Taken together, these results suggest that MNS1/2-mediated mannose trimming of N-glycans is crucial in modulating glycoprotein abundance to withstand salt stress in plants. 32960038 4 9 gly fetuin 1046:1051 arg1 complex-type sialoglycoforms fetuin complex-type sialoglycoforms Fterm fetuin The technique enables highly resolved chromatographic separation of over 20 high-mannose glycan isomers in ribonuclease B and a diverse range of hybrid and complex-type sialoglycoforms of fetuin. 32960038 4 65 gly sialoglycoforms 1027:1041 arg1 fetuin fetuin Fterm fetuin The technique enables highly resolved chromatographic separation of over 20 high-mannose glycan isomers in ribonuclease B and a diverse range of hybrid and complex-type sialoglycoforms of fetuin. 31631785 4 6 gly glycoproteins 858:870 arg1 these viral envelope glycoproteins these viral envelope glycoproteins Fterm glycoproteins While overexpression of GILT inhibited the entry mediated by envelope glycoproteins of SARS coronavirus (SARS-CoV), Ebola virus (EBOV) and Lassa fever virus (LASV), depletion of GILT enhanced the entry mediated by these viral envelope glycoproteins. 31631785 4 54 gly glycoproteins 693:705 arg1 envelope glycoproteins envelope glycoproteins Fterm glycoproteins While overexpression of GILT inhibited the entry mediated by envelope glycoproteins of SARS coronavirus (SARS-CoV), Ebola virus (EBOV) and Lassa fever virus (LASV), depletion of GILT enhanced the entry mediated by these viral envelope glycoproteins. 34106099 8 12 gly glycoproteins 1501:1513 arg1 glycoproteins glycoproteins Fterm glycoproteins In addition, both disialic and trisialic acid modified glycans were present on synaptic glycoproteins, although oxonium ion profiling revealed that trisialic units were only present on glycoproteins in the detergent soluble fraction. 34106099 8 101 gly glycoproteins 1404:1416 arg1 synaptic glycoproteins synaptic glycoproteins Fterm glycoproteins In addition, both disialic and trisialic acid modified glycans were present on synaptic glycoproteins, although oxonium ion profiling revealed that trisialic units were only present on glycoproteins in the detergent soluble fraction. 34106099 8 108 gly present 1384:1390 arg1 synaptic glycoproteins AND both disialic and trisialic acid modified glycans glycoproteins both disialic and trisialic acid modified glycans Fterm glycoproteins In addition, both disialic and trisialic acid modified glycans were present on synaptic glycoproteins, although oxonium ion profiling revealed that trisialic units were only present on glycoproteins in the detergent soluble fraction. 30735356 0 51 part_of Mucin-Like 29:38 arg1 the Mucin-Like Region Mucin the Mucin-Like Region PUBTATOR Mucin 100508689 Regulatory Mechanisms of the Mucin-Like Region on Herpes Simplex Virus during Cellular Attachment. 30712568 7 73 part_of glycoproteins 1655:1667 arg1 348 unique N-glycosylation sites glycoproteins 348 unique N-glycosylation sites Fterm Site glycoproteins sites Finally, the Fe3O4@PMSA was applied for enriching N-linked glycopeptides from human serum, and 348 unique N-glycosylation sites and 419 glycopeptides from 158 glycoproteins were strictly identified from 1 μL human serum. 30712568 7 73 part_of glycoproteins 1655:1667 arg1 419 glycopeptides glycoproteins 419 glycopeptides Fterm Site glycoproteins glycopeptides Finally, the Fe3O4@PMSA was applied for enriching N-linked glycopeptides from human serum, and 348 unique N-glycosylation sites and 419 glycopeptides from 158 glycoproteins were strictly identified from 1 μL human serum. 31875397 5 12 gly glycosylated 1020:1031 arg1 glycosylated neuropeptides glycosylated neuropeptides neuropeptides The detection of the oxonium ions in the HCD scans suggests glycan attachment to peptides, allowing electron-transfer/higher-energy collision dissociation (EThcD) to be performed to selectively elucidate structural information of glycosylated neuropeptides that are buried in nonglycosylated peptides. 31875397 5 26 gly nonglycosylated 1066:1080 arg1 nonglycosylated peptides nonglycosylated peptides peptides The detection of the oxonium ions in the HCD scans suggests glycan attachment to peptides, allowing electron-transfer/higher-energy collision dissociation (EThcD) to be performed to selectively elucidate structural information of glycosylated neuropeptides that are buried in nonglycosylated peptides. 31616924 11 9 part_of APOE 1834:1837 arg1 the lipid-binding domain APOE the lipid-binding domain PUBTATOR Site APOE 348 domain Sialylated glycans, previously shown to improve HDL binding, are more abundant on the lipid-binding domain of CSF APOE and reduced in plasma APOE. 31967800 1 59 gly N-glycopeptides 324:338 arg2 intact N-glycopeptides characterization intact N-glycopeptides characterization N-glycopeptides With the optional setting of multiple stepped collisional energies (NCEs), higher-energy collisional dissociation (HCD) as available on Orbitrap instruments is a widely adopted dissociation method for intact N-glycopeptides characterization, where peptide backbones and N-glycan moieties are selectively fragmented at high and low NCEs, respectively. 28883554 3 10 part_of region 548:553 arg1 one potential N-linked glycosite region one potential N-linked glycosite glycosite The mouse-adapted pH1N1 lost its eight consecutive amino acids including one potential N-linked glycosite from the NA stalk region. 32960038 3 89 gly glycoproteins 843:855 arg1 glycoproteins glycoproteins Fterm glycoproteins Here, we developed a straightforward method using self-packed capillary porous graphitic carbon (PGC) columns for nanoflow LC-MS/MS analyses of native glycans released from glycoproteins. 32960038 3 108 gly released 829:836 arg1 glycoproteins AND native glycans glycoproteins native glycans Fterm glycoproteins Here, we developed a straightforward method using self-packed capillary porous graphitic carbon (PGC) columns for nanoflow LC-MS/MS analyses of native glycans released from glycoproteins. 31616924 4 76 part_of glycosites 747:756 arg1 APOE APOE glycosites PUBTATOR Site APOE 348 glycosites Detailed LC-MS/MS analyses allowed the identification of the glycosite and the attached glycan and site occupancy for all detectable glycosites on APOE and further three-dimensional modeling of physiological glycoforms of APOE. 30563903 5 40 part_of fXII 982:985 arg1 the highly glycosylated proline-rich region fXII the highly glycosylated proline-rich region OGER Site fXII P00748 region In addition, we map the cleavage by CpaA to two positions, 279-280 and 308-309, within the highly glycosylated proline-rich region of human fXII, and show that cleavage at the 308-309 site is responsible for inactivation of fXII. 31723224 5 67 gly glycosylation 874:886 arg1 the wild-type Cys23 variant Cys23 Fterm variant Cys23 Subcellular localization studies demonstrated O-linked glycosylation of the Ser23 variant, but not the wild-type Cys23, may be a post-translational mechanism which alters its localization within the Golgi apparatus. 30250045 6 77 part_of region 777:782 arg1 HEG1 HEG1 region PUBTATOR Site HEG1 Q9ULI3 region The epitope of SKM9-2 was identified as an O-glycosylated region, 893-SKSPSLVSLPT-903, in HEG1. 33806155 4 20 gly glycosylation 732:744 arg2 O-linked glycosylation sites O-linked glycosylation sites sites Here, we used our well-established O-glycoproteomic workflows to map the precise positions of O-linked glycosylation sites on three different entities of protein S-insect cell or human cell-produced ectodomains, or insect cell derived receptor binding domain (RBD). 30144161 4 2 gly motif 645:649 arg1 O-linked glycans motif O-linked glycans motif O-linked glycans and phosphate variants of the tau protein-derived VQIVYK hexapeptide motif were generated as a simplified amyloid scaffold model and demonstrate that, while self-aggregation can be attenuated by either a single glycan or a phosphate unit, only co-incubation with the O-GlcNAc variant inhibits aggregation of the native peptide. 29718541 1 4 gly glycoproteins 151:163 arg1 Transmembrane glycoproteins Transmembrane glycoproteins Fterm glycoproteins Transmembrane glycoproteins, synthesized at the endoplasmic reticulum (ER), generally reach the Golgi apparatus in COPII-coated vesicles en route to the cell surface. 34010560 3 62 gly glycopeptide 606:617 arg2 glycopeptide identification glycopeptide identification glycopeptide Recently, electron transfer/high-energy collision dissociation (EThcD) was introduced for glycopeptide identification, which offers rich structural information on glycopepides with the fragment ions from the cleavages of both the glycan and the peptide backbone. 32817316 6 32 gly carrying 1220:1227 arg1 two sites AND complex N-glycans two sites complex N-glycans sites No N-glycosylation signals were detected in SLP-8348 and SLP-8321, but SLP-5818 was observed to have two sites carrying complex N-glycans based on a site-specific analysis and a glycomic workflow of the permethylated glycans. 30735356 7 4 gly glycoproteins 1241:1253 arg1 glycoproteins glycoproteins Fterm glycoproteins Our data suggest that the mucin-like region modulates virus-glycosaminoglycan interactions by regulating the affinity, type, and number of glycoproteins involved in the virus-glycosaminoglycan interaction. 30178920 6 28 gly glycoproteins 1404:1416 arg1 glycoproteins glycoproteins Fterm glycoproteins In addition, the monolith was successfully applied to the enrichment of N-linked glycans in human serum samples, demonstrating its great potential for the analysis of glycoproteins. 31178836 3 48 part_of env 629:631 arg1 155 full length HIV-1 env gene fragments HIV-1 env 155 full length HIV-1 env gene fragments PUBTATOR Site HIV-1 env 155971 fragments In the present study, 155 full length HIV-1 env gene fragments (including 68 functionally Env clones) were amplified longitudinally from the plasma of six time points spanning over 5 years in this donor. 31178836 3 105 part_of HIV-1 623:627 arg1 155 full length HIV-1 env gene fragments HIV-1 env 155 full length HIV-1 env gene fragments PUBTATOR Site HIV-1 env 155971 fragments In the present study, 155 full length HIV-1 env gene fragments (including 68 functionally Env clones) were amplified longitudinally from the plasma of six time points spanning over 5 years in this donor. 30713537 7 144 gly sialylated 1295:1304 arg1 galactosylated (84.5 vs. 88.4%), sialylated (14.5 vs. 17.9%) and bisecting N-acetylglucosamine-containing (8.4 vs. 10.8%) IgG Fc N-linked glycans galactosylated (84.5 vs. 88.4%), sialylated (14.5 vs. 17.9%) and bisecting N-acetylglucosamine-containing (8.4 vs. 10.8%) IgG Fc N-linked glycans Extremely low gestational age infants (born < 28 weeks of gestation during second trimester) had reduced IgG concentrations and decreased proportions of galactosylated (84.5 vs. 88.4%), sialylated (14.5 vs. 17.9%) and bisecting N-acetylglucosamine-containing (8.4 vs. 10.8%) IgG Fc N-linked glycans as compared to preterm infants born ≥28 weeks of gestation (during third trimester) and term infants. 30713537 7 144 gly sialylated 1295:1304 arg1 8.4 vs. 10.8% 8.4 vs. 10.8% Extremely low gestational age infants (born < 28 weeks of gestation during second trimester) had reduced IgG concentrations and decreased proportions of galactosylated (84.5 vs. 88.4%), sialylated (14.5 vs. 17.9%) and bisecting N-acetylglucosamine-containing (8.4 vs. 10.8%) IgG Fc N-linked glycans as compared to preterm infants born ≥28 weeks of gestation (during third trimester) and term infants. 33606939 7 26 part_of protein 1108:1114 arg1 known protein epitopes protein known protein epitopes Fterm Site protein epitopes We successfully recovered known protein epitopes by integrating the simulation results with existing sequence- and structure-based epitope prediction methods. 30697857 9 30 gly N-glycoproteins 1299:1313 arg1 lowly expressed N-glycoproteins lowly expressed N-glycoproteins Fterm N-glycoproteins That is, N-glycoproteins that are highly expressed evolve at faster rates than lowly expressed N-glycoproteins, in contrast to what is observed among intracellular proteins. 30697857 9 57 gly N-glycoproteins 1213:1227 arg1 N-glycoproteins N-glycoproteins Fterm N-glycoproteins That is, N-glycoproteins that are highly expressed evolve at faster rates than lowly expressed N-glycoproteins, in contrast to what is observed among intracellular proteins. 33139572 7 80 gly fucosylated 1295:1305 arg1 fucosylated glycans fucosylated glycans Interestingly, changes primarily attributed to sialylated and fucosylated glycans were extensively observed during PFC development. 31892091 0 51 gly glycopeptide 12:23 arg2 glycopeptide biomarkers glycopeptide biomarkers glycopeptide Analysis of glycopeptide biomarkers by on-line TiO2 solid-phase extraction capillary electrophoresis-mass spectrometry. 33116178 3 41 gly glycoproteins 484:496 arg1 glycoproteins glycoproteins Fterm glycoproteins As an example, the human blood fluke Schistosoma mansoni produces highly fucosylated glycan structures on glycoproteins and glycolipids. 33116178 3 42 gly structures 470:479 arg1 glycoproteins glycoproteins structures Fterm glycoproteins As an example, the human blood fluke Schistosoma mansoni produces highly fucosylated glycan structures on glycoproteins and glycolipids. 33116178 3 63 gly fucosylated 451:461 arg1 highly fucosylated glycan structures highly fucosylated glycan structures As an example, the human blood fluke Schistosoma mansoni produces highly fucosylated glycan structures on glycoproteins and glycolipids. 30850477 10 43 gly N-glycosylation 1365:1379 arg2 35 out of 38 (92%) nongermline N-glycosylation sites 35 out of 38 (92%) nongermline N-glycosylation sites sites When expressed as rmAb, 35 out of 38 (92%) nongermline N-glycosylation sites became occupied. 31067000 4 66 part_of IgG 653:655 arg1 IgG ACPA V domains IgG IgG ACPA V domains Cterm Site IgG domains As ample evidence indicates that T cells drive the maturation of the ACPA response prior to arthritis onset, we undertook this study to investigate whether the presence of glycans in IgG ACPA V domains predicts the transition from predisease autoimmunity to overt RA. 31131693 13 11 gly subunit 1985:1991 arg1 a novel O-GlcNAcylation subunit a novel O-GlcNAcylation Fterm subunit We identified a novel O-GlcNAcylation of protein kinase A catalytic subunit, which may regulate calcium handling and cardiac function. 34670086 3 39 part_of protein 430:436 arg1 different recombinant fragments S protein different recombinant fragments PUBTATOR Site S protein Q15517 fragments There is, therefore, potential for different recombinant fragments of S protein to display divergent glycosylation. 33026663 7 23 gly glycoforms 975:984 arg1 different invertase glycoforms different invertase glycoforms Fterm invertase Observed differences in stability of different invertase glycoforms were used to improve productivity of methyl β-d-fructofuranoside (MF) synthesis. 30217067 4 17 gly hydrolase 754:762 arg1 glucose transporters hydrolase glucose transporters Fterm hydrolase To identify the potential mechanism, we assessed the expression of O-linked β-N-acetlyglucosamine transferase (OGT) and glycoside hydrolase O-GlcNAcase (OGA), as well as hypoxia-inducible factor 1-alpha (HIF1A) and glucose transporters (GLUT1, GLUT3). 34662441 5 4 part_of PSMA 1187:1190 arg1 the exposed apical PSMA domain PSMA the exposed apical PSMA domain PUBTATOR Site PSMA 2346 domain We noted an interesting spatial distribution of the glycoforms on the PSMA surface-high mannose glycans were the dominant glycoforms at the N459, N476, and N638 sequons facing the plasma membrane, while the N121, N195, and N336 sites, located at the exposed apical PSMA domain, carried primarily complex glycans. 30054538 2 102 part_of form 345:348 arg1 deposition form of the prion protein deposition PUBTATOR Site form of the prion protein 19122 position In prion diseases, space and time correlations between deposition of disease-associated, pathogenic form of the prion protein or PrPSc and microglial-mediated neuroinflammation has been established. 29782851 2 55 gly glycosylation 288:300 arg1 the in vitro receptor binding properties the in vitro receptor binding properties Fterm receptor Here we report the effects of glycosylation on the in vitro receptor binding properties of Cblns. 28700571 2 34 gly glycoprotein 314:325 arg1 envelope glycoprotein envelope glycoprotein Fterm glycoprotein The envelope glycoprotein (Env) trimer on the surface of HIV is responsible for receptor binding and fusion. 32134190 0 43 gly glycoprotein 16:27 arg1 glycoprotein encoding mRNA glycoprotein encoding mRNA Fterm glycoprotein Transfection of glycoprotein encoding mRNA for swift evaluation of N-glycan engineering strategies. 30123425 3 3 gly attachment 376:385 arg2 serine AND O-GlcNAc serine O-GlcNAc serine O-GlcNAcylation, the attachment of β-N-acetylglucosamine (O-GlcNAc) to serine or threonine residues of intracellular proteins, modulates protein functions and is implicated in cancer pathogenesis. 30123425 3 3 gly attachment 376:385 arg2 serine AND β-N-acetylglucosamine serine β-N-acetylglucosamine serine O-GlcNAcylation, the attachment of β-N-acetylglucosamine (O-GlcNAc) to serine or threonine residues of intracellular proteins, modulates protein functions and is implicated in cancer pathogenesis. 30123425 3 3 gly attachment 376:385 arg1 threonine AND O-GlcNAc threonine O-GlcNAc threonine residues O-GlcNAcylation, the attachment of β-N-acetylglucosamine (O-GlcNAc) to serine or threonine residues of intracellular proteins, modulates protein functions and is implicated in cancer pathogenesis. 30123425 3 3 gly attachment 376:385 arg1 threonine AND β-N-acetylglucosamine threonine β-N-acetylglucosamine threonine residues O-GlcNAcylation, the attachment of β-N-acetylglucosamine (O-GlcNAc) to serine or threonine residues of intracellular proteins, modulates protein functions and is implicated in cancer pathogenesis. 33377107 5 5 gly glycoproteins 695:707 arg1 certain glycoproteins certain glycoproteins Fterm glycoproteins Combined with bioinformatics, the glycomics-informed glycoproteomics may be useful in generating 3D molecular dynamics simulations of certain glycoproteins alone or interacting with one another. 31341641 11 22 part_of sequence 1638:1645 arg1 the nucleotide composition sequence the nucleotide composition position Furthermore, we observed that the nucleotide composition of indels was distinct from the flanking sequence, with higher frequencies of G and lower frequencies of T. Indels affected N-linked glycosylation sites more often in V1 and V2 than expected by chance, consistent with positive selection on glycosylation patterns within these regions. 29463718 7 62 gly glycosylation 864:876 arg2 an N-linked extracellular site site site Finally, we identify aromatic interactions via π-π bonds and cation-π bonds, glycosylation at an N-linked extracellular site, a pore-loop disulfide bond, and 24 lipid binding sites. 31671706 2 76 gly glycosylation 390:402 arg2 five N-linked glycosylation sites five N-linked glycosylation sites sites The prepared fusion protein was expected to possess a total of five N-linked glycosylation sites: two sites in the VEGFR-1 region, two sites in the VEGFR-2 region, and one site in the human IgG Fc region. 30541852 7 40 part_of receptor 1158:1165 arg1 the extracellular domains receptor the extracellular domains Fterm Site receptor domains The ecotropic tropism exhibited by this envelope is due to the presence or absence of an N-linked glycosylation site in the first extracellular loop as well as the specific amino acid sequence of the extracellular domains of the receptor. 30529011 7 63 part_of phosphoglycoprotein 815:833 arg1 ASARM motif SIBLING, matrix extracellular phosphoglycoprotein ASARM motif OGER Site SIBLING, matrix extracellular phosphoglycoprotein Q9NQ76 motif The SIBLING, matrix extracellular phosphoglycoprotein with ASARM motif (MEPE) is highly overexpressed in both BSP-/- and DKO and may impair mineralization through liberation of its ASARM (Acidic Serine-Aspartate Rich MEPE associated) peptides. 30591584 5 16 gly glycosylated 943:954 arg1 O-GalNAc glycosylated proteins O-GalNAc glycosylated proteins Moreover, we identified O-GalNAc glycosylated proteins in the nucleus and present solid evidence for O-GalNAc glycan synthesis in this organelle. 30962950 9 83 gly core-fucosylated 1430:1445 arg1 the core-fucosylated glycan the core-fucosylated glycan Furthermore, overexpression of a mutant version of QSOX1-S, which had eliminated the core-fucosylated glycan at Asn-130, showed no demonstrable effect on invasion or metastasis of HCC cells. 32946227 4 45 gly glycopeptides 674:686 arg2 the glycopeptides the glycopeptides glycopeptides Comparison of 18 glycoforms bearing monosaccharides at Tyr4 and Tyr4' shows that the glycopeptides with either α- or β-anomers exhibit contrary gelating abilities, when the glycan moieties contain axial hydroxyl groups. 32030495 4 80 gly N-glycopeptides 1221:1235 arg2 72 cell-surface differentially expressed intact N-glycopeptides 72 cell-surface differentially expressed intact N-glycopeptides N-glycopeptides With the criteria of ≥ 1.5-fold change and p value < 0.05, 72 cell-surface differentially expressed intact N-glycopeptides (DEGPs) were found in MCF-7/ADR CSCs relative to MCF-7/ADR cells, where 8 and 64 were downregulated and upregulated, respectively. 31196789 6 38 gly glycosylation 826:838 arg2 N293 N293 N293 Molecular weight analysis on those mutants suggested that glycosylation should have occurred on N313 and N454 whereas not on N293 in rLcc9. 31196789 6 38 gly glycosylation 826:838 arg2 N313 N313 N313 and N454 Molecular weight analysis on those mutants suggested that glycosylation should have occurred on N313 and N454 whereas not on N293 in rLcc9. 30735356 7 77 part_of mucin-like 1128:1137 arg1 the mucin-like region mucin the mucin-like region PUBTATOR Site mucin 100508689 region Our data suggest that the mucin-like region modulates virus-glycosaminoglycan interactions by regulating the affinity, type, and number of glycoproteins involved in the virus-glycosaminoglycan interaction. 31029427 4 72 gly glycosylation 768:780 arg2 the specific glycosylation sites the specific glycosylation sites sites However, further investigations are needed to identify the specific mechanism of modification and the specific glycosylation sites on FOXA1. 33560857 7 73 gly N-glycosylation 1243:1257 arg2 between (macro) individual N-glycosylation sites between (macro) individual N-glycosylation sites sites Overall, a great heterogeneity was found both within (micro) and in between (macro) individual N-glycosylation sites. 30023808 1 62 gly glycoproteins/glycopeptides 159:185 arg2 Efficient enrichment glycoproteins/glycopeptides Efficient enrichment glycoproteins/glycopeptides glycoproteins/glycopeptides Efficient enrichment glycoproteins/glycopeptides from complex biological solutions are very important in the biomedical sciences, in particular biomarker research. 32707739 5 44 gly N-glycosylation 927:941 arg2 the N-glycosylation site mutant GluA1N63Q the N-glycosylation site mutant GluA1N63Q site In contrast to the N-glycosylation site mutant GluA1N63Q, the cell surface expression levels of GluA1N363Q and GluA2N370Q increased in a time-dependent manner. 30712568 0 48 gly glycopeptides 143:155 arg2 glycopeptides glycopeptides glycopeptides Facile fabrication of zwitterionic magnetic composites by one-step distillation-precipitation polymerization for highly specific enrichment of glycopeptides. 31623829 1 51 gly glycoproteins 208:220 arg1 the N-linked type glycoproteins glycoproteins core-GlcNAc Fterm glycoproteins BACKGROUND FUT8-mediated core fucosylation, which transfers a fucose residue from GDP-fucose to core-GlcNAc of the N-linked type glycoproteins, is crucial for signaling receptors function. 29258330 1 15 gly glycoprotein 203:214 arg1 envelope surface glycoprotein envelope surface glycoprotein Fterm glycoprotein The main goal of this work was to identify molecular signatures in envelope surface glycoprotein that may be correlated with coreceptor usage by different human immunodeficiency virus (HIV)-2 strains. 31628258 2 13 gly glycoproteins 581:593 arg1 glycoproteins glycoproteins Fterm glycoproteins A novel, temperature gradient denaturing protocol was applied on amine functionalized magnetic bead partitioned glycoproteins to circumvent the otherwise prevalent precipitation issue. 30735356 2 28 gly glycoprotein 333:344 arg1 its glycoprotein gC its glycoprotein gC Fterm glycoprotein Herpes simplex virus type 1 (HSV-1), for example, exhibits a mucin-like region on its glycoprotein gC, a viral protein involved in initial recruitment of the virus to the cell surface via interaction with sulfated glycosaminoglycans. 31931833 7 27 part_of IgG1-Fc 1314:1320 arg1 the secreted IgG1-Fc region IgG1 the secreted IgG1-Fc region OGER Site IgG1 P01857 region When the Endo-T was expressed in Golgi, the secreted IgG1-Fc region was efficiently produced with almost completely truncated N-glycans and the N-GlcNAc modification on the glycosite Asn297 was confirmed via Mass Spectrometry. 31526925 6 23 gly sites 809:813 arg1 Asn483 sites Asn483 and Asn492 sites Asn483 and Asn492 Moreover, we showed that N-linked glycosylation sites Asn483 and Asn492 were vital for the transport function of Oatp1a5. 31526925 6 23 gly sites 809:813 arg1 N-linked glycosylation sites sites Asn483 and Asn492 sites Asn483 and Asn492 Moreover, we showed that N-linked glycosylation sites Asn483 and Asn492 were vital for the transport function of Oatp1a5. 31526925 6 23 gly sites 809:813 arg1 N-linked glycosylation sites sites Asn483 and Asn492 sites Asn483 and Asn492 Moreover, we showed that N-linked glycosylation sites Asn483 and Asn492 were vital for the transport function of Oatp1a5. 31526925 6 29 gly glycosylation 795:807 arg2 Asn483 sites Asn483 and Asn492 sites Asn483 and Asn492 Moreover, we showed that N-linked glycosylation sites Asn483 and Asn492 were vital for the transport function of Oatp1a5. 31526925 6 29 gly glycosylation 795:807 arg2 Asn492 sites Asn483 and Asn492 sites Asn483 and Asn492 Moreover, we showed that N-linked glycosylation sites Asn483 and Asn492 were vital for the transport function of Oatp1a5. 31526925 6 29 gly glycosylation 795:807 arg2 Asn492 sites Asn483 and Asn492 sites Asn483 and Asn492 Moreover, we showed that N-linked glycosylation sites Asn483 and Asn492 were vital for the transport function of Oatp1a5. 31194940 4 14 part_of gp120 682:686 arg1 a continuous region gp120 a continuous region PUBTATOR Site gp120 3700 region We show that ACS202 CDRH3 forms a "β strand" interaction with the exposed hydrophobic FP and recognizes a continuous region of gp120, including a conserved N-linked glycan at N88. 30541852 7 66 gly glycosylation 1027:1039 arg2 an N-linked glycosylation site an N-linked glycosylation site site The ecotropic tropism exhibited by this envelope is due to the presence or absence of an N-linked glycosylation site in the first extracellular loop as well as the specific amino acid sequence of the extracellular domains of the receptor. 33947960 5 56 gly N-glycosylation 1170:1184 arg2 ErbB2 N-glycosylation sites ErbB2 N-glycosylation sites sites In-depth mass spectrometry-based glycomic and glycoproteomic analysis of ErbB2's ectodomain disclosed a site-specific glycosylation profile in GC cells, in which the ST6Gal1 sialyltransferase specifically targets ErbB2 N-glycosylation sites occurring within the receptor's trastuzumab-binding domain. 31860772 7 51 gly detected 1338:1345 arg1 the cyst fluid regions AND specific nonfucosylated glycans the cyst fluid regions specific nonfucosylated glycans regions A polycystic kidney disease tissue was also characterized for N-glycan composition, with specific nonfucosylated glycans detected in the cyst fluid regions. 31860772 7 85 gly nonfucosylated 1315:1328 arg1 specific nonfucosylated glycans specific nonfucosylated glycans A polycystic kidney disease tissue was also characterized for N-glycan composition, with specific nonfucosylated glycans detected in the cyst fluid regions. 29171040 6 5 gly glycosylation 1292:1304 arg1 proteins proteins Fterm proteins Using mass spectrometry, we identified a group of proteins with O-linked glycosylation to be responsible for the necrotic debris-induced IL-1β secretion. 27690717 3 68 gly N-glycosylated 677:690 arg1 3 sites 3 sites sites Using a combination of site-directed mutagenesis, western blot and patch-clamp recordings, we demonstrated that 3 sites in the extracellular loop of β2 subunit are N-glycosylated (N-X-T/S at N88, N96 and N119). 28871230 1 96 gly glycoprotein 411:422 arg1 glycoprotein glycopatterns glycoprotein glycopatterns Fterm glycoprotein Background: Chronic infection with HBV (CHB) or HCV (CHC) is the most common chronic viral hepatitis that can lead to cirrhosis and hepatocellular carcinoma in humans, their infections have distinct pathogenic processes, however, little is known about the difference of glycoprotein glycopatterns in serum between hepatitis B virus (HBV)- and hepatitis C virus (HCV)-infected patients. 32817340 2 20 gly N-Glycosylation 235:249 arg1 the major structural proteins the major structural proteins Fterm proteins N-Glycosylation of the major structural proteins (archaellins) is important for their subsequent incorporation into the archaellum filament. 30944176 4 6 part_of site 517:520 arg1 the envelope (E) protein protein site Fterm Site protein site All contemporary ZIKV isolates encode an N-linked glycosylation site in the envelope (E) protein (N154), but this glycosylation site is absent in many historical ZIKV isolates. 30620550 1 1 gly proteins 185:192 arg1 O-linked N-acetylglucosamine proteins O-linked N-acetylglucosamine Fterm proteins O-linked N-acetylglucosamine ( O-GlcNAc) is a ubiquitous post-translational modification of proteins and is essential for cell function. 34450331 9 3 gly glycoproteins 1735:1747 arg1 glycoproteins glycoproteins Fterm glycoproteins SIGNIFICANCE: We describe a novel method termed limited deglycosylation assay (LDA), to probe conformational changes of glycoproteins on a systems-wide scale. 29991350 11 77 part_of Rhodopsin 1717:1725 arg1 Rhodopsin sequences Rhodopsin Rhodopsin sequences OGER Site Rhodopsin P08100 sequences Rhodopsin sequences (green or blue) also showed narrow depth distributions that correlated with the taxonomy of the microbe in which they were found but not with depth. 35140700 13 6 gly mono-sialylated 2045:2059 arg1 mono-sialylated and disialylated N-glycans mono-sialylated and disialylated N-glycans Both frequencies of mono-sialylated and disialylated N-glycans were increased by IL-21 and IL-17A with decreased frequency of asialylation, and the expression of β-galactoside α-2,6-sialyltransferase 1 was upregulated by IL-21 and IL-17A. 35140700 13 105 gly disialylated 2065:2076 arg1 mono-sialylated and disialylated N-glycans mono-sialylated and disialylated N-glycans Both frequencies of mono-sialylated and disialylated N-glycans were increased by IL-21 and IL-17A with decreased frequency of asialylation, and the expression of β-galactoside α-2,6-sialyltransferase 1 was upregulated by IL-21 and IL-17A. 29997173 1 15 gly glycoprotein 171:182 arg1 a glycophosphatidylinositol (GPI)-anchored glycoprotein a glycophosphatidylinositol (GPI)-anchored glycoprotein Fterm glycoprotein CD52, a glycophosphatidylinositol (GPI)-anchored glycoprotein, is released in a soluble form following T cell activation and binds to the Siglec (sialic acid-binding Ig-like lectin)-10 receptor on T cells to suppress their function. 29295913 3 96 gly glycosylation 448:460 arg1 extracellular proteins extracellular proteins Fterm proteins Posttranslational glycosylation of extracellular proteins characterizes factors produced by the pathogenic yeast cells but not those of avirulent mycelia, correlating glycosylation with infection. 34450331 7 77 gly glycoproteins 1384:1396 arg1 glycoproteins glycoproteins Fterm glycoproteins These results show that LDA accurately reports on systems-wide conformational changes of glycoproteins induced under controlled treatment regimes. 30375453 2 4 part_of Disintegrin 278:288 arg1 a ThromboSpondin type 1 motif Disintegrin a ThromboSpondin type 1 motif Fterm Site Disintegrin motif vWF A2 domain hosts a proteolytic site for ADAMTS13 (A Disintegrin and Metalloprotease with a ThromboSpondin type 1 motif, member 13) to regulate the size of vWF multimers. 30375453 2 12 part_of Metalloprotease 294:308 arg1 a ThromboSpondin type 1 motif Metalloprotease a ThromboSpondin type 1 motif Fterm Site Metalloprotease motif vWF A2 domain hosts a proteolytic site for ADAMTS13 (A Disintegrin and Metalloprotease with a ThromboSpondin type 1 motif, member 13) to regulate the size of vWF multimers. 30375453 2 53 part_of vWF 223:225 arg1 vWF A2 domain vWF vWF A2 domain PUBTATOR Site vWF 7450 domain vWF A2 domain hosts a proteolytic site for ADAMTS13 (A Disintegrin and Metalloprotease with a ThromboSpondin type 1 motif, member 13) to regulate the size of vWF multimers. 30375453 2 60 part_of type 332:335 arg1 a ThromboSpondin type 1 motif ThromboSpondin type 1 a ThromboSpondin type 1 motif OGER Site ThromboSpondin type 1 P07996 motif vWF A2 domain hosts a proteolytic site for ADAMTS13 (A Disintegrin and Metalloprotease with a ThromboSpondin type 1 motif, member 13) to regulate the size of vWF multimers. 31067000 0 90 gly Glycans 9:15 arg1 the Variable Domain Domain Glycans Fterm Domain N-Linked Glycans in the Variable Domain of IgG Anti-Citrullinated Protein Antibodies Predict the Development of Rheumatoid Arthritis. 30566828 9 63 gly nonglycosylated 1118:1132 arg1 the nonglycosylated Asn-297 the nonglycosylated Asn-297 Asn-297 Replacing the nonglycosylated Asn-297 with glutamine or alanine also increased CTRP12 cleavage. 32441515 2 21 gly attached 296:303 arg1 proteins AND The glycans proteins The glycans Fterm proteins The glycans attached to proteins represent an important determinant of the protein interaction-specificity and maintain the 3D structure of proteins. 30186544 2 59 gly glycosylation 354:366 arg1 intracellular proteins intracellular proteins Fterm proteins O-linked β-N-acetylglucosamine (O-GlcNAc) glycosylation of intracellular proteins denotes a type of posttranslational modification that influences multiple cytoplasmic and nuclear protein functions. 32334683 7 37 gly glycoproteins 1124:1136 arg1 several other common glycoproteins several other common glycoproteins Fterm glycoproteins Fourteen therapeutic monoclonal antibodies (mAbs), one Fc-fusion protein and several other common glycoproteins have been used to demonstrate that FTIR spectra of glycoproteins display spectral variations according to their glycan and monosaccharide compositions. 32334683 7 57 gly glycoproteins 1189:1201 arg1 glycoproteins glycoproteins Fterm glycoproteins Fourteen therapeutic monoclonal antibodies (mAbs), one Fc-fusion protein and several other common glycoproteins have been used to demonstrate that FTIR spectra of glycoproteins display spectral variations according to their glycan and monosaccharide compositions. 29745666 7 68 gly proteins/glycoproteins 1039:1060 arg1 proteins/glycoproteins proteins/glycoproteins Fterm proteins/glycoproteins Efficient extraction of proteins/glycoproteins from biological samples was achieved by combining SDC lysis buffer and beads beating cell disruption. 34962767 3 7 gly glycoproteins 711:723 arg1 glycoproteins glycoproteins Fterm glycoproteins Despite significant progress in understanding the biochemistry of these enzymes, known O-glycoproteases have specificity constraints, such as inefficient cleavage of glycoproteins bearing sialylated O-glycans, high selectivity for certain types of glycoproteins, or protein sequence bias. 34962767 3 61 gly sialylated 651:660 arg1 sialylated O-glycans sialylated O-glycans Despite significant progress in understanding the biochemistry of these enzymes, known O-glycoproteases have specificity constraints, such as inefficient cleavage of glycoproteins bearing sialylated O-glycans, high selectivity for certain types of glycoproteins, or protein sequence bias. 34962767 3 65 gly glycoproteins 629:641 arg1 glycoproteins glycoproteins Fterm glycoproteins Despite significant progress in understanding the biochemistry of these enzymes, known O-glycoproteases have specificity constraints, such as inefficient cleavage of glycoproteins bearing sialylated O-glycans, high selectivity for certain types of glycoproteins, or protein sequence bias. 31837192 6 12 gly proteins 1126:1133 arg1 glycans proteins glycans Fterm proteins To elucidate the so far uncharacterized mechanisms leading to the trimming of terminal galactose residues from glycans of secreted proteins, we studied a N. benthamiana BGAL known to be active in the apoplast (NbBGAL1). 33139572 1 54 gly heterogeneity 260:272 arg1 glycan structure glycan structure Mammalian brain glycome remains a relatively poorly understood area compared to other large-scale "omics" studies, such as genomics and transcriptomics due to the inherent complexity and heterogeneity of glycan structure and properties. 28511131 1 45 part_of ORF5 282:285 arg1 112 full-length ORF5 gene sequences ORF5 112 full-length ORF5 gene sequences PUBTATOR Site ORF5 51503 sequences To more fully understand the genetic diversity and molecular epidemiology of prevailing porcine reproductive and respiratory syndrome virus (PRRSV) in Henan province of China, 112 full-length ORF5 gene sequences, originating from Henan province between 2006 and 2015, were subjected to sequence variation and phylogenetic analysis. 33993882 9 50 gly fucosylated 1683:1693 arg1 core fucosylated structures core fucosylated structures RESULTS In the brain region showing LPS-induced neuroinflammation, a significant decrease in the abundance of sialylated and core fucosylated structures was seen (approximately 7.5% and 8.5%, respectively), whereas oligomannose N-glycans were significantly increased (13.5%). 30105014 2 86 part_of SP-D 639:642 arg1 a recombinant fragment SP-D a recombinant fragment PUBTATOR Site SP-D 6441 fragment Here, we demonstrate that a recombinant fragment of human SP-D (rfhSP-D), containing homotrimeric neck and CRD regions, acts as an entry inhibitor of IAV and downregulates M1 expression considerably in A549 cells challenged with IAV of H1N1 and H3N2 subtypes at 2 h treatment. 30105014 2 44 part_of containing 655:664 arg1 a recombinant fragment AND CRD regions a recombinant fragment CRD regions regions Here, we demonstrate that a recombinant fragment of human SP-D (rfhSP-D), containing homotrimeric neck and CRD regions, acts as an entry inhibitor of IAV and downregulates M1 expression considerably in A549 cells challenged with IAV of H1N1 and H3N2 subtypes at 2 h treatment. 31726007 7 8 gly glycosylation 1103:1115 arg2 the glycosylation sites the glycosylation sites sites At all of the glycosylation sites, the relative levels of G- and GG-Hyl were markedly diminished, i.e., by ∼50-75%, in Sh collagen, and at five of these sites, the level of Lys hydroxylation was significantly increased. 30814666 9 39 gly glycosylated 1317:1328 arg1 101 sites 101 sites sites Quantitative glycoproteomic analysis revealed that 101 sites on 67 proteins involved in Mtb fitness and survival were differentially glycosylated between the four lineages, among which 64% were cell envelope and membrane proteins. 30563903 5 87 gly glycosylated 940:951 arg1 the highly glycosylated proline-rich region the highly glycosylated proline-rich region region In addition, we map the cleavage by CpaA to two positions, 279-280 and 308-309, within the highly glycosylated proline-rich region of human fXII, and show that cleavage at the 308-309 site is responsible for inactivation of fXII. 29093093 7 118 gly glycoprotein 1672:1683 arg1 transmembrane S glycoprotein transmembrane S glycoprotein Fterm glycoprotein This property distinguishes PDCoV S from recently characterized betacoronavirus S proteins and suggests that the S protein of enterotropic PDCoV has evolved to tolerate the protease-rich environment of the small intestine and to fine-tune its fusion activation to avoid premature triggering and reduction of infectivity.IMPORTANCE Coronaviruses use transmembrane S glycoprotein trimers to promote host attachment and fusion of the viral and cellular membranes. 34864058 7 39 gly α1-3-fucosylated 1227:1242 arg1 the α1-3-fucosylated Lewis X (Lex) blood group antigen the α1-3-fucosylated Lewis X (Lex) blood group antigen Additionally, we find that IL-22 signaling regulates levels of the α1-3-fucosylated Lewis X (Lex) blood group antigen, and that this glycan epitope is primarily displayed on O-glycosylated intestinal epithelial glycoproteins. 34864058 7 45 gly O-glycosylated 1334:1347 arg1 O-glycosylated intestinal epithelial glycoproteins O-glycosylated intestinal epithelial glycoproteins Fterm glycoproteins Additionally, we find that IL-22 signaling regulates levels of the α1-3-fucosylated Lewis X (Lex) blood group antigen, and that this glycan epitope is primarily displayed on O-glycosylated intestinal epithelial glycoproteins. 34864058 7 82 gly glycoproteins 1371:1383 arg1 O-glycosylated intestinal epithelial glycoproteins O-glycosylated intestinal epithelial glycoproteins Fterm glycoproteins Additionally, we find that IL-22 signaling regulates levels of the α1-3-fucosylated Lewis X (Lex) blood group antigen, and that this glycan epitope is primarily displayed on O-glycosylated intestinal epithelial glycoproteins. 29859938 3 55 gly serine 586:591 arg1 O-linked N-acetylglucosamine serine and threonine residues O-linked N-acetylglucosamine serine and threonine residues O-linked N-acetylglucosamine (O-GlcNAc) is a post-translational modification of serine and threonine residues that functions as a critical regulator of intracellular signaling, regulated by O-GlcNAc transferase (OGT) and O-GlcNAcase (OGA). 29859938 3 61 gly threonine 597:605 arg1 O-linked N-acetylglucosamine serine and threonine residues O-linked N-acetylglucosamine serine and threonine residues O-linked N-acetylglucosamine (O-GlcNAc) is a post-translational modification of serine and threonine residues that functions as a critical regulator of intracellular signaling, regulated by O-GlcNAc transferase (OGT) and O-GlcNAcase (OGA). 32817316 2 93 gly glycoprotein 330:341 arg1 the S-layer glycoprotein the S-layer glycoprotein Fterm glycoprotein Previously, we have demonstrated that the S-layer glycoprotein from probiotic Lactobacillus kefiri CIDCA 8348 (SLP-8348) is recognized by Mincle (macrophage inducible C-type lectin receptor), and its adjuvanticity depends on the integrity of its glycans. 33676668 7 54 gly glycopeptide 1401:1412 arg2 glycopeptide enrichment glycopeptide enrichment glycopeptide Moreover, the results of glycopeptide enrichment and glycosylation analysis from human serum also show egood enrichment selectivity from real biological samples. 28679762 4 117 gly glycoprotein 785:796 arg1 a glycoprotein a glycoprotein Fterm glycoprotein By using a virus overlay assay, it was previously shown that the major AAV2 binding protein in membrane preparations of human cells corresponds to a glycoprotein with a molecular mass of 150 kDa. 28511131 8 106 part_of GP5 1497:1499 arg1 GP5 amino acid position 59 GP5 GP5 amino acid position 59 PUBTATOR Site GP5 2814 position 59 N-linked glycosylation site (NGS) analysis revealed a novel potential NGS at GP5 amino acid position 59 in two of the subgroup 2 Henan isolates. 34089345 2 55 gly glycoprotein 506:517 arg1 the MR glycan and glycoprotein recognition the MR glycan and glycoprotein recognition Here we used the murine MR CTLD4-7 coupled to the Fc-portion of human IgG (MR-Fc) to investigate the MR glycan and glycoprotein recognition. 33197804 10 42 gly fucosylated 1405:1415 arg1 fucosylated glycans fucosylated glycans Furthermore, the proportion of mucin glycan species expressed throughout life changed during the aging process, and aging tended to decrease the proportion of fucosylated glycans and increase the proportion of sialoglycans. 33516683 3 82 gly glycoproteins 545:557 arg1 almost all glycoproteins almost all glycoproteins Fterm glycoproteins While almost all glycoproteins clinically linked to stenotic valvular modeling contain multiple sites for N-glycosylation, there are very few reports aimed at understanding how N-glycosylation contributes to the valve structure in disease. 30487280 7 21 part_of epitope 1332:1338 arg1 the B41 SOSIP.v4.1 trimer trimer epitope Fterm Site trimer epitope We also attempted to knock in the N289-glycan to block the sole autologous NAb epitope on the B41 SOSIP.v4.1 trimer. 30190529 4 92 part_of sites 864:868 arg1 the HN protein HN protein sites Cterm Site HN protein 1489765 sites Amino acid differences between the Jeryl Lynn vaccine strains (genotype A) and genotype G strains were predominantly located in known B-cell epitopes and in N-linked glycosylation sites on the HN protein. 33462887 4 21 gly structures 651:660 arg1 extracellular domains extracellular domains extracellular domains Site domains We first quantify the Core 1 and 2 O-glycan structures on the carbohydrate recognition and extracellular domains of the protein using sequential exoglycosidase sequencing. 33462887 4 21 gly structures 651:660 arg1 the protein protein structures Fterm protein We first quantify the Core 1 and 2 O-glycan structures on the carbohydrate recognition and extracellular domains of the protein using sequential exoglycosidase sequencing. 33462887 4 48 gly protein 727:733 arg1 carbohydrate recognition protein carbohydrate recognition Fterm protein We first quantify the Core 1 and 2 O-glycan structures on the carbohydrate recognition and extracellular domains of the protein using sequential exoglycosidase sequencing. 29302041 9 21 gly glycosylation 1301:1313 arg2 the two N-linked glycosylation sites the two N-linked glycosylation sites sites Secretion of Hgbβma or Hgbβmi chains was seen only after genetic mutation to introduce the two N-linked glycosylation sites present in Hgbε, but absent in the Hgbβ chains. 33677548 4 24 gly glycoform 905:913 arg1 a specific site a specific site site Depending on the experimental method, such a standard must be able to represent glycans as complete structures or as compositions, store not just single glycans but also represent glycoforms on a specific glycosylation side, deal with partially missing site information if no site mapping was performed, and store abundances or ratios of glycans within a glycoform of a specific site. 34662441 7 19 gly glycosylation 1501:1513 arg1 the N51 site the N51 site N51 site position In line with the limited accessibility of membrane-proximal sites, no glycosylation was observed at the N51 site positioned closest to the membrane. 31336133 3 4 gly N-glycosylation 558:572 arg2 2 potential N-glycosylation sites 2 potential N-glycosylation sites sites The ANITVNITV peptide described by Perlmann and coworkers presents 9 amino acids and 2 potential N-glycosylation sites. 34358619 3 85 gly glycoproteins 579:591 arg1 numerous cell surface glycoproteins numerous cell surface glycoproteins Fterm glycoproteins Although brain function and behavior are known to be regulated by the N-glycosylation state of numerous cell surface glycoproteins, our current understanding of brain glycosylation is limited, and glycan variations associated with functional brain regions remain largely unknown. 34358619 3 97 gly N-glycosylation 532:546 arg1 numerous cell surface glycoproteins numerous cell surface glycoproteins Fterm glycoproteins Although brain function and behavior are known to be regulated by the N-glycosylation state of numerous cell surface glycoproteins, our current understanding of brain glycosylation is limited, and glycan variations associated with functional brain regions remain largely unknown. 34962767 10 1 gly asialylated 1512:1522 arg1 sialylated and asialylated O-glycans sialylated and asialylated O-glycans Finally, IMPa efficiently cleaved peptides and proteins carrying sialylated and asialylated O-glycans of varying complexity. 34962767 10 6 gly sialylated 1497:1506 arg1 sialylated and asialylated O-glycans sialylated and asialylated O-glycans Finally, IMPa efficiently cleaved peptides and proteins carrying sialylated and asialylated O-glycans of varying complexity. 34962767 10 39 gly carrying 1488:1495 arg1 peptides AND sialylated and asialylated O-glycans peptides sialylated and asialylated O-glycans peptides Finally, IMPa efficiently cleaved peptides and proteins carrying sialylated and asialylated O-glycans of varying complexity. 33295603 0 23 part_of IgA1 103:106 arg1 the clustered O-glycosylation sites IgA1 the clustered O-glycosylation sites PUBTATOR Site IgA1 P01876 sites Quantitative assessment of successive carbohydrate additions to the clustered O-glycosylation sites of IgA1 by glycosyltransferases. 34631661 10 67 part_of glycosite 1944:1952 arg1 both spike proteins spike proteins glycosite PUBTATOR Site spike proteins 43740568 glycosite The N74 site represents the most abundant glycosite on both spike proteins. 31875397 4 23 gly glycosylated 616:627 arg1 glycosylated neuropeptides glycosylated neuropeptides neuropeptides Here, we describe the discovery of glycosylated neuropeptides with an enrichment-free approach, taking advantage of signature oxonium ions produced in higher-energy collision dissociation (HCD) MS/MS spectra. 32858085 11 4 gly glycoproteins 1707:1719 arg1 glycoproteins glycoproteins Fterm glycoproteins GENERAL SIGNIFICANCE Our study provides a possibility that HUGT1 play a role not only in sensing the misfolded glycoprotein but also in promoting folding of glycoproteins in the endoplasmic reticulum glycoprotein quality control. 32858085 11 25 gly glycoprotein 1661:1672 arg1 the misfolded glycoprotein the misfolded glycoprotein Fterm glycoprotein GENERAL SIGNIFICANCE Our study provides a possibility that HUGT1 play a role not only in sensing the misfolded glycoprotein but also in promoting folding of glycoproteins in the endoplasmic reticulum glycoprotein quality control. 32858085 11 68 gly glycoprotein 1750:1761 arg1 the endoplasmic reticulum glycoprotein quality control the endoplasmic reticulum glycoprotein quality control Fterm glycoprotein GENERAL SIGNIFICANCE Our study provides a possibility that HUGT1 play a role not only in sensing the misfolded glycoprotein but also in promoting folding of glycoproteins in the endoplasmic reticulum glycoprotein quality control. 32827291 5 12 gly glycosylated 1077:1088 arg1 either partially or fully glycosylated B4GalT4 either partially or fully glycosylated B4GalT4 We show that KS decrease in A375 cells deficient in B4GalT4 activity can be rescued by overproduction of either partially or fully glycosylated B4GalT4 but not with N-glycan-depleted B4GalT4 version. 28871230 2 126 gly glycoproteins 611:623 arg1 letin-mediated affinity capture glycoproteins letin-mediated affinity capture glycoproteins Fterm glycoproteins Methods: A method combining the lectin microarrays, letin-mediated affinity capture glycoproteins, and MALDI-TOF/TOF-MS was employed to analyze serum protein glycopatterns and identify the glycan structures from patients with CHB (n = 54) or CHC(n = 47), and healthy volunteers (HV, n = 35). 32553552 7 4 gly glycopeptides 1035:1047 arg2 160 glycopeptides 160 glycopeptides glycopeptides We report here a total of 160 glycopeptides, representing 25 N-glycan compositions associated with 70 sites on 35 glycoproteins. 32553552 7 55 gly glycoproteins 1119:1131 arg1 35 glycoproteins 35 glycoproteins Fterm glycoproteins We report here a total of 160 glycopeptides, representing 25 N-glycan compositions associated with 70 sites on 35 glycoproteins. 28687873 6 89 gly sialylated 1078:1087 arg1 sialylated N-linked glycans sialylated N-linked glycans α2,6-linked sialic acid served as a high-affinity receptor for NDV and the ST6Gal I sialyltransferase that synthesizes α2-6 linkage of sialylated N-linked glycans in CHO-K1 cells promoted NDV binding and cytopathic effect. 28303575 7 27 gly non-glycosylated 874:889 arg1 non-glycosylated isoform B non-glycosylated isoform B Fterm isoform B Glycosylated Dectin-1 isoform A was predominantly localized at the cell surface, non-glycosylated isoform B was retained intracellularly. 32946227 5 42 gly glycopeptide 1055:1066 arg2 glycopeptide self-assembly glycopeptide self-assembly glycopeptide A high-resolution X-ray crystallographic structure of the β-galactose-containing gelator, along with other results from spectroscopic, microscopic, and rheological experiments, indicate an unusual carbohydrate-aromatic CH-π bonding that promotes glycopeptide self-assembly. 31907993 3 28 gly glycoprotein 420:431 arg1 The glycoprotein CD11b/CD18 The glycoprotein CD11b/CD18 Fterm glycoprotein The glycoprotein CD11b/CD18 plays a well-described role in regulating PMN transepithelial migration and PMN inflammatory functions. 32842538 0 44 gly N-glycosylation 0:14 arg1 the Pre-Membrane Protein the Pre-Membrane Protein Fterm Protein N-glycosylation in the Pre-Membrane Protein Is Essential for the Zika Virus Life Cycle. 30250045 8 34 gly glycosylated 1135:1146 arg1 the SKM9-2 epitope the SKM9-2 epitope epitope Mass spectrometry analysis and lectin binding analysis of soluble epitope peptides indicated that the SKM9-2 epitope, in which Ser897 was not glycosylated, contained two disialylated core 1 O-linked glycan-modified serine residues, Ser893 and Ser900. 30250045 8 52 gly serine 1208:1213 arg1 two disialylated core 1 O-linked glycan-modified serine residues serine residues, Ser893 and Ser900 two disialylated core 1 O-linked glycan-modified serine residues serine residues, Ser893 and Ser900 Mass spectrometry analysis and lectin binding analysis of soluble epitope peptides indicated that the SKM9-2 epitope, in which Ser897 was not glycosylated, contained two disialylated core 1 O-linked glycan-modified serine residues, Ser893 and Ser900. 30250045 8 20 gly contained 1149:1157 arg1 the SKM9-2 epitope AND two disialylated core 1 O-linked glycan-modified serine residues the SKM9-2 epitope two disialylated core 1 O-linked glycan-modified serine residues epitope Mass spectrometry analysis and lectin binding analysis of soluble epitope peptides indicated that the SKM9-2 epitope, in which Ser897 was not glycosylated, contained two disialylated core 1 O-linked glycan-modified serine residues, Ser893 and Ser900. 30250045 8 0 gly disialylated 1163:1174 arg1 Ser893 serine residues, Ser893 and Ser900 serine residues, Ser893 and Ser900 Mass spectrometry analysis and lectin binding analysis of soluble epitope peptides indicated that the SKM9-2 epitope, in which Ser897 was not glycosylated, contained two disialylated core 1 O-linked glycan-modified serine residues, Ser893 and Ser900. 30250045 8 0 gly disialylated 1163:1174 arg1 two disialylated core 1 O-linked glycan-modified serine residues serine residues, Ser893 and Ser900 serine residues, Ser893 and Ser900 Mass spectrometry analysis and lectin binding analysis of soluble epitope peptides indicated that the SKM9-2 epitope, in which Ser897 was not glycosylated, contained two disialylated core 1 O-linked glycan-modified serine residues, Ser893 and Ser900. 30250045 8 0 gly disialylated 1163:1174 arg1 two disialylated core 1 O-linked glycan-modified serine residues serine residues, Ser893 and Ser900 serine residues, Ser893 and Ser900 Mass spectrometry analysis and lectin binding analysis of soluble epitope peptides indicated that the SKM9-2 epitope, in which Ser897 was not glycosylated, contained two disialylated core 1 O-linked glycan-modified serine residues, Ser893 and Ser900. 30250045 8 34 gly glycosylated 1135:1146 arg2 Ser897 Ser897 Ser897 Mass spectrometry analysis and lectin binding analysis of soluble epitope peptides indicated that the SKM9-2 epitope, in which Ser897 was not glycosylated, contained two disialylated core 1 O-linked glycan-modified serine residues, Ser893 and Ser900. 33657946 5 3 gly fucosylated 804:814 arg1 fucosylated triantennary structures fucosylated triantennary structures Several parameters (low T stage, low Gleason score, low EAU risk groups for BCR, absence of positive surgical margins, high ratio of fucosylated triantennary structures on total of multiantennary structures [3AFc/MA], low ratio of fucosylated biantennary with core-branched N-acetylglucosamine on total of biantennary structures, and high ratio of triantennary structures on total of multiantennary structures) proved to have a univariate beneficial effect on BCR-free survival. 34110173 8 23 gly glycosylation 1520:1532 arg1 a therapeutic glycoprotein a therapeutic glycoprotein Fterm glycoprotein Finally, this integrated strategy was proved to realize the in-depth glycosylation analysis of a therapeutic glycoprotein to understand its pharmacological properties and improving the manufacturing processes. 34110173 8 47 gly glycoprotein 1560:1571 arg1 a therapeutic glycoprotein a therapeutic glycoprotein Fterm glycoprotein Finally, this integrated strategy was proved to realize the in-depth glycosylation analysis of a therapeutic glycoprotein to understand its pharmacological properties and improving the manufacturing processes. 29107940 9 43 part_of calreticulin 1595:1606 arg1 The lectin-like domain calreticulin The lectin-like domain PUBTATOR Site calreticulin 811 domain The lectin-like domain of calreticulin senses the MHC-I glycan, whereas the P domain reaches over the MHC-I peptide-binding pocket towards ERp57. 31326749 1 32 gly glycosylated 264:275 arg1 N-linked glycosylated proteins N-linked glycosylated proteins Fterm proteins NGLY1 deficiency is a rare inherited disorder caused by mutations in the NGLY1 gene encoding N-glycanase 1 that is a hydrolase for N-linked glycosylated proteins. 30657688 1 30 gly proteins 306:313 arg1 O-GlcNAcylation proteins O-GlcNAcylation Fterm proteins As a dynamic post-translational modification, O-linked β- N-acetylglucosamine ( O-GlcNAc) modification (i.e., O-GlcNAcylation) of proteins regulates many biological processes involving cellular metabolism and signaling. 31164895 4 74 gly epitope 707:713 arg1 the α(1,3)-fucose epitope present the α(1,3)-fucose epitope present Meanwhile, the potential immunogenicity of the α(1,3)-fucose epitope present on plant-derived biopharmaceuticals is still a matter of debate. 28528272 5 52 gly unglycosylated 632:645 arg1 unglycosylated proteins unglycosylated proteins Fterm proteins To obtain unglycosylated proteins, cells were treated with tunicamycin, an inhibitor of N-linked glycosylation, whereas PNGase F and Endo H were used to characterize the glycosylation types. 32719555 3 56 gly O-glycoproteins 722:736 arg1 O-glycoproteins O-glycoproteins Fterm O-glycoproteins These same glycoengineered bacteria were used to supply crude cell extracts enriched with glycosylation machinery that permitted cell-free construction of O-glycoproteins in a one-pot reaction. 34192331 1 1 part_of has 139:141 arg1 IgG AND a conserved N-glycosylation site IgG a conserved N-glycosylation site Cterm Site IgG site Immunoglobulin G (IgG) has a conserved N-glycosylation site at Asn297 in the fragment crystallizable (Fc) region. 34192331 1 1 part_of has 139:141 arg1 Immunoglobulin G AND a conserved N-glycosylation site Immunoglobulin G a conserved N-glycosylation site Cterm Site Immunoglobulin G site Immunoglobulin G (IgG) has a conserved N-glycosylation site at Asn297 in the fragment crystallizable (Fc) region. 33610554 9 5 gly structures 1332:1341 arg1 the extracellular domain the extracellular domain the extracellular domain Site domain In addition, site-specific changes in the N-glycan structures in the extracellular domain of N-Cdh were detected, which positively impact on homotypic interactions. 34279906 6 66 gly glycoprotein 1388:1399 arg1 glycoprotein function glycoprotein function Fterm glycoprotein Taken together, native exoglycosidase sequencing mass spectrometry (NES-MS) notably improves our ability to characterize protein glycosylation, addressing a significant need in structural biology that will enable new routes to understand glycoprotein function. 29717387 4 44 part_of PPARγ 435:439 arg1 its DNA binding domain PPAR its DNA binding domain PUBTATOR Site PPAR 5468 domain In this study, the N-glycosylation of PPARγ, as well as two N-linked glycosylation sites in its DNA binding domain (DBD), was identified. 29842980 9 51 gly glycoprotein 1448:1459 arg1 VP7 glycoprotein VP7 glycoprotein Fterm glycoprotein Presence of additional N-linked glycosylation site at amino acid 283 of VP7 glycoprotein suggests that the major neutralizing epitope on the VP7 (G3) of RotaTeq vaccine differs from the currently circulating G3 strains. 29842980 9 39 gly glycosylation 1404:1416 arg1 VP7 glycoprotein glycoprotein site Fterm glycoprotein site Presence of additional N-linked glycosylation site at amino acid 283 of VP7 glycoprotein suggests that the major neutralizing epitope on the VP7 (G3) of RotaTeq vaccine differs from the currently circulating G3 strains. 31101650 1 58 gly glycoproteins 253:265 arg1 specific glycoproteins specific glycoproteins Fterm glycoproteins Global inhibition of N-linked glycosylation broadly reduces glycan occupancy on glycoproteins, but identifying how this inhibition functionally impacts specific glycoproteins is challenging. 31101650 1 63 gly glycoproteins 172:184 arg1 glycoproteins glycoproteins Fterm glycoproteins Global inhibition of N-linked glycosylation broadly reduces glycan occupancy on glycoproteins, but identifying how this inhibition functionally impacts specific glycoproteins is challenging. 31101650 1 81 gly occupancy 159:167 arg1 glycoproteins glycoproteins occupancy Fterm glycoproteins Global inhibition of N-linked glycosylation broadly reduces glycan occupancy on glycoproteins, but identifying how this inhibition functionally impacts specific glycoproteins is challenging. 31266803 5 30 gly defucosylate 1074:1085 arg1 LewisY and LewisB antigens LewisY and LewisB antigens Together, these enzymes could defucosylate LewisY and LewisB antigens in a complementary fashion. 31168022 3 32 gly glycoprotein 369:380 arg1 a 110 kDa glycoprotein a 110 kDa glycoprotein Fterm glycoprotein MLS128 mAb inhibited cell growth and bound to a 110 kDa glycoprotein (GP) in LS180 and HT29 colon cancer cells. 30487280 15 85 gly glycoproteins 2659:2671 arg1 envelope glycoproteins envelope glycoproteins Fterm glycoproteins Thus, in principle, the antibody response might be diverted from one site to a more cross-reactive one, which would help in the induction of broadly neutralizing antibodies by HIV-1 vaccines based on envelope glycoproteins. 31665542 3 15 gly N-glycosylation 522:536 arg1 S-layer proteins S-layer proteins Fterm proteins Here, we investigated N-glycosylation of S-layer proteins, the major archaeal envelope component, with respect to mesophilic adaptation. 28410396 6 71 gly glycosylation 1441:1453 arg2 N-linked glycosylation sites N-linked glycosylation sites sites Phylogenetic analysis of the influenza virus strains from this study and elsewhere around the world, together with the estimations of nucleotide substitution rates and selection pressure, and the predictions of B-cell epitopes and N-linked glycosylation sites all provided evidence for the ongoing evolution of NA. 34450331 1 27 gly glycoproteins 147:159 arg1 glycoproteins glycoproteins Fterm glycoproteins A new method to probe the conformational changes of glycoproteins on a systems-wide scale, termed limited deglycosylation assay (LDA), is described. 31079966 0 16 gly O-mannosylated 85:98 arg1 O-mannosylated position O-mannosylated position position Synthetic glycopeptides reveal specific binding pattern and conformational change at O-mannosylated position of α-dystroglycan by POMGnT1 catalyzed GlcNAc modification. 31079966 0 45 gly glycopeptides 10:22 arg2 Synthetic glycopeptides Synthetic glycopeptides glycopeptides Synthetic glycopeptides reveal specific binding pattern and conformational change at O-mannosylated position of α-dystroglycan by POMGnT1 catalyzed GlcNAc modification. 31892091 6 13 gly N83-glycopeptides 1281:1297 arg2 N83-glycopeptides N83-glycopeptides N83 Although optimized for O-glycopeptides, the method proved also successful for preconcentration of N83-glycopeptides, without compromising the separation between glycopeptide glycoforms with different number of sialic acids. 31892091 6 29 gly O-glycopeptides 1206:1220 arg2 O-glycopeptides O-glycopeptides O-glycopeptides Although optimized for O-glycopeptides, the method proved also successful for preconcentration of N83-glycopeptides, without compromising the separation between glycopeptide glycoforms with different number of sialic acids. 31892091 6 55 gly glycopeptide 1344:1355 arg2 glycopeptide glycopeptide glycopeptide Although optimized for O-glycopeptides, the method proved also successful for preconcentration of N83-glycopeptides, without compromising the separation between glycopeptide glycoforms with different number of sialic acids. 32364434 3 66 gly glycoproteins 624:636 arg1 glycoproteins glycoproteins Fterm glycoproteins Thus, there is increasing demand for the qualitative and quantitative characterization and validation of glycosylation on glycoproteins. 32364434 3 71 gly glycosylation 607:619 arg1 glycoproteins glycoproteins Fterm glycoproteins Thus, there is increasing demand for the qualitative and quantitative characterization and validation of glycosylation on glycoproteins. 29782851 1 45 gly glycoproteins 119:131 arg1 secreted glycoproteins secreted glycoproteins Fterm glycoproteins Cbln1 is the prototype of a family (Cbln1-Cbln4) of secreted glycoproteins and is essential for normal synapse structure and function in cerebellum by bridging presynaptic Nrxn to postsynaptic Grid2. 32825463 10 57 gly fucosylated 1229:1239 arg1 fucosylated glycans fucosylated glycans These findings demonstrate that labeling and detection of fucosylated glycans with Fuc analogs depend on multiple cellular steps, including conversion to GDP form, transport into the ER or Golgi, and utilization by each fucosyltransferase, providing insights into design of novel sugar analogs for specific detection of target glycans or inhibition of their functions. 31450586 8 89 gly glycopeptides 1051:1063 arg2 118 unique N-linked glycopeptides 118 unique N-linked glycopeptides glycopeptides Additionally, we identified 118 unique N-linked glycopeptides corresponding to 84 proteins to be differentially glycosylated only in non-type subtypes as compared to luminal/basal subtypes. 31931833 3 75 gly N-glycoproteins 404:418 arg1 defined N-glycans N-glycoproteins defined N-glycans Fterm N-glycoproteins Thus homogeneous N-glycoproteins with defined N-glycans are essential in their application in clinic therapeutics. 29385488 2 96 gly used 527:530 arg2 composition composition position Ten ingredients that vary in fiber concentration and composition were used: corn, wheat, soybean meal (SBM), canola meal, distillers dried grains with solubles (DDGS), corn germ meal, copra expellers, sugar beet pulp (SBP), synthetic cellulose (SF), and pectin. 29402915 7 48 part_of protein 1388:1394 arg1 at least 4 residues cubilin protein at least 4 residues PUBTATOR Site cubilin protein 8029 residues Quantitative mass spectrometry and mutagenesis demonstrated that N-linked glycosylation of at least 4 residues of cubilin protein was required for its surface targeting. 31628985 3 40 part_of TPR 520:522 arg1 the TPR domain TPR the TPR domain OGER Site TPR P12270 domain Here, we look at the TPR domain of the enzyme O-linked GlcNAc-transferase (OGT), which catalyses O-GlcNAcylation of a broad range of substrate proteins. 31628985 3 77 part_of OGT 574:576 arg1 the TPR domain OGT the TPR domain PUBTATOR Site OGT 8473 domain Here, we look at the TPR domain of the enzyme O-linked GlcNAc-transferase (OGT), which catalyses O-GlcNAcylation of a broad range of substrate proteins. 34229070 5 104 gly O-glycosites 775:786 arg2 various O-glycosites various O-glycosites O-glycosites We calculated relative abundance of glycopeptides with various O-glycosites and O-glycans, and further investigated the alteration of APP O-glycosylation upon TNF-α treatment. 34229070 5 73 gly glycopeptides 748:760 arg1 O-glycans glycopeptides O-glycans glycopeptides We calculated relative abundance of glycopeptides with various O-glycosites and O-glycans, and further investigated the alteration of APP O-glycosylation upon TNF-α treatment. 32699088 13 55 gly glycosylation 2437:2449 arg2 N-linked glycosylation sites N-linked glycosylation sites sites These results demonstrate that in addition to antigenicity, changes in N-linked glycosylation sites can alter other properties of viral surface antigens and virions. 30956133 4 45 gly sialylates 461:470 arg1 the β-galactoside α2,6-sialyltransferase 1 -galactoside α2,6-sialyltransferase 1 ST6Gal-I PUBTATOR -galactoside α2,6-sialyltransferase 1 6480 We identify distinct functions of exomeres mediated by two of their cargo, the β-galactoside α2,6-sialyltransferase 1 (ST6Gal-I) that α2,6- sialylates N-glycans, and the EGFR ligand, amphiregulin (AREG). 30956133 4 45 gly sialylates 461:470 arg1 the β-galactoside α2,6-sialyltransferase 1 -galactoside α2,6-sialyltransferase 1 N-glycans PUBTATOR -galactoside α2,6-sialyltransferase 1 6480 We identify distinct functions of exomeres mediated by two of their cargo, the β-galactoside α2,6-sialyltransferase 1 (ST6Gal-I) that α2,6- sialylates N-glycans, and the EGFR ligand, amphiregulin (AREG). 31722217 3 38 gly sites 626:630 arg1 three sites three sites sites Using a variety of assays, we find important roles in Drosophila Notch signaling for GlcNAc-fucose-O glycans on three sites: EGF8, EGF9, and EGF12. 31029427 7 35 gly used 1150:1153 arg2 synthesized peptides synthesized peptides peptides Then, synthesized peptides, including the predicted O-GalNAc sites in the C-terminus of FOXA1, were used in a vitro reaction, and peptides mutated at the predicted O-GalNAc sites were employed as controls. 29609090 3 27 gly glycopeptide 535:546 arg2 glycopeptide formation glycopeptide formation glycopeptide RP-HPLC and Mass Spectrometry were used to assay and quantify glycopeptide formation by AaNGT and determine its substrate specificities. 29708979 6 9 part_of MUC16 893:897 arg1 the retained juxtamembrane region MUC16 the retained juxtamembrane region PUBTATOR Site MUC16 94025 region Herein, we characterize two monoclonal antibodies (mAbs) showing specificity to the retained juxtamembrane region of MUC16. 30150325 7 3 part_of SET 1004:1006 arg1 the SET domain SET the SET domain OGER Site SET Q01105 domain SEC transfers an O-GlcNAc group on Ser947 of ATX1, which resides in the SET domain, thereby activating ATX1. 32986846 4 14 gly asparagine-linked 694:710 arg1 the asparagine-linked (N-linked) glycan profile asparagine the asparagine-linked (N-linked) glycan profile asparagine As a consequence, we hypothesized that the glycan profile is altered in the brain of patients with AD and analyzed the asparagine-linked (N-linked) glycan profile in hippocampus and cortex in AD and control brain. 29988048 8 43 gly O-glycosylation 1017:1031 arg2 this O-glycosylation site this O-glycosylation site site Mass spectrometric analysis indicates that this O-glycosylation site is heterogeneously occupied in VSG3 by zero to three hexose residues and is also present in other VSGs. 29988048 8 45 gly occupied 1057:1064 arg2 this O-glycosylation site this O-glycosylation site site Mass spectrometric analysis indicates that this O-glycosylation site is heterogeneously occupied in VSG3 by zero to three hexose residues and is also present in other VSGs. 31498587 3 36 gly glycopeptides 439:451 arg2 MUC1 glycopeptides SAPDT*RPAP (T* is the glycosylation site) MUC1 glycopeptides SAPDT*RPAP (T* is the glycosylation site) glycopeptides In order to target these antigens as potential anticancer vaccines, MUC1 glycopeptides SAPDT*RPAP (T* is the glycosylation site) bearing the Tf and the STn antigen, respectively, have been synthesized. 31498587 3 78 gly glycosylation 475:487 arg2 the glycosylation site the glycosylation site site In order to target these antigens as potential anticancer vaccines, MUC1 glycopeptides SAPDT*RPAP (T* is the glycosylation site) bearing the Tf and the STn antigen, respectively, have been synthesized. 31498587 3 90 gly RPAP 459:462 arg1 the glycosylation site the glycosylation site site In order to target these antigens as potential anticancer vaccines, MUC1 glycopeptides SAPDT*RPAP (T* is the glycosylation site) bearing the Tf and the STn antigen, respectively, have been synthesized. 30487280 12 37 part_of epitopes 2174:2181 arg1 B41 SOSIP trimers trimers epitopes Fterm Site trimers epitopes Here, we added glycans to block the most immunogenic neutralization epitopes on BG505 and B41 SOSIP trimers. 31931833 9 64 gly glycoprotein 1765:1776 arg1 increasing novel glycoprotein drugs increasing novel glycoprotein drugs Fterm glycoprotein This system would provide a prospective platform for mass production of increasing novel glycoprotein drugs. 28348171 9 62 gly glycoproteins 1536:1548 arg1 these surface glycoproteins these surface glycoproteins Fterm glycoproteins Finally, we determined whether these surface glycoproteins, found enriched on M2 macrophages, were also expressed in human metastatic castrate-resistant prostate cancer (mCRPC) tissues. 29609090 4 31 gly glycosylate 750:760 arg1 the tested peptides the tested peptides peptides AaNGT could utilize a variety of nucleotide-activated sugar donors, including UDP-Glc, UDP-Gal, UDP-Xyl, GDP-Glc, dGDP-Glc and UDP-GlcN, to glycosylate the tested peptides. 29708975 8 11 gly glycosylation 1118:1130 arg2 an extra N-linked glycosylation site an extra N-linked glycosylation site site Pakistani G3 strains belonged to lineage 3 within sub-lineage 3d, containing an extra N-linked glycosylation site compared to the G3 strain of RotaTeqTM. 33205023 4 46 part_of CD4-binding 704:714 arg1 the CD4-binding site CD4 the CD4-binding site PUBTATOR Site CD4 920 site Specifically, the N262 glycan, although not in the CD4-binding site, modulated Env binding to the CD4 receptor, affected Env recognition by several glycan-dependent neutralizing antibodies, and altered site-specific glycosylation heterogeneity, with, for example, N448 displaying limited glycan processing. 32452486 4 29 gly glycans 634:640 arg1 a protein protein glycans Fterm protein Herein we present a simple and new strategy for targeting the glycans on a protein (with IgG as a model glycoprotein) using surface-enhanced Raman scattering (SERS) coupled to glycan-binding WGA (wheat germ agglutinin) lectin, in a lectin-SERS assay. 32452486 4 42 gly glycoprotein 676:687 arg1 a model glycoprotein a model glycoprotein Fterm glycoprotein Herein we present a simple and new strategy for targeting the glycans on a protein (with IgG as a model glycoprotein) using surface-enhanced Raman scattering (SERS) coupled to glycan-binding WGA (wheat germ agglutinin) lectin, in a lectin-SERS assay. 31702909 8 71 gly glycosylation 1300:1312 arg2 all N-linked glycosylation sites all N-linked glycosylation sites sites A designed CD19 variant with all N-linked glycosylation sites removed successfully bound antibody in the yeast display context, which provides a lead for aglycosylated applications. 29339807 7 30 gly fucosylated 1399:1409 arg1 fucosylated enzyme fucosylated enzyme Fterm enzyme To our knowledge, this is the first study reporting the functional role of fucosylated enzyme in the development of castration-resistant prostate cancer. 31498587 10 48 gly glycopeptide 1451:1462 arg2 Qβ-MUC1 glycopeptide conjugates Qβ-MUC1 glycopeptide conjugates glycopeptide As such, Qβ-MUC1 glycopeptide conjugates have great potential as anticancer vaccines. 30395637 2 42 gly glycoprotein 320:331 arg1 trimeric HIV-1 envelope (Env) glycoprotein trimeric HIV-1 envelope (Env) glycoprotein Fterm glycoprotein VRC01-class bnAbs that target the CD4 binding site (CD4bs) of trimeric HIV-1 envelope (Env) glycoprotein spikes are particularly attractive to elicit because of their extraordinary breadth and potency of neutralization in vitro and their ability to protect against infection in animal models. 33556394 6 42 gly Ser41 1099:1103 arg1 an O-glycan modification Ser41 an O-glycan modification Ser41 We identify Ser41 as the major O-glycosylation site on the β1AR N-terminus and show that an O-glycan modification at Ser41 prevents ADAM17-dependent cleavage of the β1-AR N-terminus at S41↓L42, a second N-terminal cleavage site adjacent to this O-glycan modification (and it attenuates β1-AR N-terminal cleavage at R31↓L32). 33556394 6 47 gly O-glycosylation 1013:1027 arg2 the major O-glycosylation site the major O-glycosylation site site We identify Ser41 as the major O-glycosylation site on the β1AR N-terminus and show that an O-glycan modification at Ser41 prevents ADAM17-dependent cleavage of the β1-AR N-terminus at S41↓L42, a second N-terminal cleavage site adjacent to this O-glycan modification (and it attenuates β1-AR N-terminal cleavage at R31↓L32). 33556394 6 47 gly O-glycosylation 1013:1027 arg2 Ser41 Ser41 Ser41 We identify Ser41 as the major O-glycosylation site on the β1AR N-terminus and show that an O-glycan modification at Ser41 prevents ADAM17-dependent cleavage of the β1-AR N-terminus at S41↓L42, a second N-terminal cleavage site adjacent to this O-glycan modification (and it attenuates β1-AR N-terminal cleavage at R31↓L32). 31710461 5 9 gly glycosylated 853:864 arg1 partially glycosylated Asn sites partially glycosylated Asn sites Asn sites ChyB-Asn enabled the identification of partially glycosylated Asn sites within a model glycoprotein and in the extracellular proteome of Jurkat T cells. 31710461 5 51 gly glycoprotein 891:902 arg1 a model glycoprotein a model glycoprotein Fterm glycoprotein ChyB-Asn enabled the identification of partially glycosylated Asn sites within a model glycoprotein and in the extracellular proteome of Jurkat T cells. 34864058 9 34 gly fucosylation 1690:1701 arg1 glycoproteins glycoproteins Fterm glycoproteins Together, these data identify B3GNT7 as an intermediary in IL-22-dependent induction of fucosylation of glycoproteins and uncover a novel role for B3GNT7 in intestinal glycosylation. 34864058 9 73 gly glycoproteins 1706:1718 arg1 fucosylation glycoproteins fucosylation Fterm glycoproteins Together, these data identify B3GNT7 as an intermediary in IL-22-dependent induction of fucosylation of glycoproteins and uncover a novel role for B3GNT7 in intestinal glycosylation. 31527085 7 5 gly sites 816:820 arg1 the tetratricopeptide repeat domain the tetratricopeptide repeat domain the tetratricopeptide repeat domain We identified six O-GlcNAc sites in the tetratricopeptide repeat domain in sOGT, with Thr12 and Ser56 being two "key" sites. 33116178 5 9 gly fucosylated 714:724 arg1 highly fucosylated N-glycans highly fucosylated N-glycans To unravel the synthesis of highly fucosylated N-glycans by S. mansoni, we examined the ability of ten selected SmFucTs to modify N-glycans upon transient expression in Nicotiana benthamiana plants. 32887075 8 58 gly N-glycans 1390:1398 arg1 other sites other sites other sites Site sites N-glycans in other sites were mainly complex-type with a low content of fucosylation and sialylated. 32887075 8 72 gly sialylated 1479:1488 arg1 N-glycans N-glycans N-glycans in other sites were mainly complex-type with a low content of fucosylation and sialylated. 30755292 7 77 gly glycosylation 1354:1366 arg2 one N-linked glycosylation site one N-linked glycosylation site site The isolates in clades 3C.2A1a and 3C.2A3 lost one N-linked glycosylation site in HA relative to other clades. 29886537 2 40 gly glycosylation 278:290 arg1 the prion protein the prion protein Fterm protein They include N-linked glycosylation of the prion protein and amyloid precursor protein, phosphorylation of tau and α-synuclein. 34401920 10 44 gly glycoprotein 1403:1414 arg1 three interacting glycoprotein networks three interacting glycoprotein networks Fterm glycoprotein Glycoside hydrases, serine proteases and serpins were found to form three interacting glycoprotein networks using the website STRING. 34110173 6 13 gly glycopeptide 1242:1253 arg2 glycopeptide analysis glycopeptide analysis glycopeptide In total, 114 N-glycan compositions were identified from glycopeptide analysis. 32764711 2 43 gly glycoprotein 306:317 arg1 the TBEV envelope (E) glycoprotein the TBEV envelope (E) glycoprotein Fterm glycoprotein N-Glycosylation of the TBEV envelope (E) glycoprotein is critical for virus egress in mammalian cells, but not in tick cells. 32764711 2 53 gly N-Glycosylation 265:279 arg1 the TBEV envelope (E) glycoprotein the TBEV envelope (E) glycoprotein Fterm glycoprotein N-Glycosylation of the TBEV envelope (E) glycoprotein is critical for virus egress in mammalian cells, but not in tick cells. 31380292 10 48 part_of containing 1480:1489 arg1 oligo-[β-D-Galf-1,5] sequences AND four or more residues oligo-[β-D-Galf-1,5] sequences four or more residues residues Glycoarray analysis revealed that AP3 recognizes oligo-[β-D-Galf-1,5] sequences containing four or more residues with longer chains more efficiently. 34450331 3 23 gly N-deglycosylation 576:592 arg1 formerly N-glycosylated peptides formerly N-glycosylated peptides peptides LDA involves 1) protein-level N-deglycosylation under native conditions, 2) trypsin digestion, 3) glycopeptide enrichment, 4) peptide-level N-deglycosylation and 5) quantitative MS-based analysis of formerly N-glycosylated peptides (FNGPs). 34450331 3 37 gly N-glycosylated 754:767 arg1 formerly N-glycosylated peptides formerly N-glycosylated peptides peptides LDA involves 1) protein-level N-deglycosylation under native conditions, 2) trypsin digestion, 3) glycopeptide enrichment, 4) peptide-level N-deglycosylation and 5) quantitative MS-based analysis of formerly N-glycosylated peptides (FNGPs). 34450331 3 122 gly N-deglycosylation 686:702 arg1 formerly N-glycosylated peptides formerly N-glycosylated peptides peptides LDA involves 1) protein-level N-deglycosylation under native conditions, 2) trypsin digestion, 3) glycopeptide enrichment, 4) peptide-level N-deglycosylation and 5) quantitative MS-based analysis of formerly N-glycosylated peptides (FNGPs). 34450331 3 131 gly glycopeptide 644:655 arg2 3) glycopeptide enrichment 3) glycopeptide enrichment glycopeptide LDA involves 1) protein-level N-deglycosylation under native conditions, 2) trypsin digestion, 3) glycopeptide enrichment, 4) peptide-level N-deglycosylation and 5) quantitative MS-based analysis of formerly N-glycosylated peptides (FNGPs). 30659065 2 7 gly N-glycosylation 331:345 arg1 the N-linked glycans domain the N-linked glycans domain The isotype/subclass of the antibody, the co-translational N-glycosylation on the CH2 domain, and the remodeling of the N-linked glycans during passage through the ER and Golgi are the known variables within the Fc domain that program antibody effector function. 30659065 2 25 gly N-glycosylation 331:345 arg1 the CH2 domain domain domain The isotype/subclass of the antibody, the co-translational N-glycosylation on the CH2 domain, and the remodeling of the N-linked glycans during passage through the ER and Golgi are the known variables within the Fc domain that program antibody effector function. 30659065 2 25 gly N-glycosylation 331:345 arg1 the CH2 domain domain the N-linked glycans domain The isotype/subclass of the antibody, the co-translational N-glycosylation on the CH2 domain, and the remodeling of the N-linked glycans during passage through the ER and Golgi are the known variables within the Fc domain that program antibody effector function. 33806155 6 10 gly O-glycosites 1078:1089 arg2 16 out of 25 O-glycosites 16 out of 25 O-glycosites O-glycosites Strikingly, 16 out of 25 O-glycosites were located within three amino acids from known N-glycosites. 33806155 6 49 gly N-glycosites 1140:1151 arg2 known N-glycosites known N-glycosites N-glycosites Strikingly, 16 out of 25 O-glycosites were located within three amino acids from known N-glycosites. 30144161 0 52 part_of Tau-Derived 61:71 arg1 a Tau-Derived Amyloid Peptide Tau a Tau-Derived Amyloid Peptide PUBTATOR Tau 4137 Distinct Effects of O-GlcNAcylation and Phosphorylation of a Tau-Derived Amyloid Peptide on Aggregation of the Native Peptide. 32915505 1 36 part_of glycoprotein 230:241 arg1 the receptor binding domain glycoprotein the receptor binding domain Fterm Site glycoprotein domain The glycan structures of the receptor binding domain of the SARS-CoV2 spike glycoprotein expressed in human HEK293F cells have been studied by using NMR. 30002126 10 37 gly glycosylation 1732:1744 arg2 N-linked glycosylation sites N-linked glycosylation sites sites Collectively, our data suggest that factor VIII produced in baby hamster kidney cells is more immunogenic than that produced in Chinese hamster ovary cells, and that incomplete occupancy of N-linked glycosylation sites leads to the formation of IgM- and IgG-factor VIII immune complexes that contribute to the enhanced clearance and immunogenicity in these mouse models of hemophilia A. 30002126 10 103 gly occupancy 1710:1718 arg2 N-linked glycosylation sites N-linked glycosylation sites sites Collectively, our data suggest that factor VIII produced in baby hamster kidney cells is more immunogenic than that produced in Chinese hamster ovary cells, and that incomplete occupancy of N-linked glycosylation sites leads to the formation of IgM- and IgG-factor VIII immune complexes that contribute to the enhanced clearance and immunogenicity in these mouse models of hemophilia A. 33030205 7 58 gly glycosylated 1578:1589 arg1 specific glycosylated motifs specific glycosylated motifs motifs This structural evidence provides unprecedented insight into how the ancillary domains in glycoprotein-specific peptidases can noncatalytically recognize specific glycosylated motifs that are common in mucin and mucin-like molecules. 28528272 6 43 gly glycosylated 839:850 arg1 glycosylated, unglycosylated proteins glycosylated, unglycosylated proteins Fterm proteins Cells were incubated with glycosylated, unglycosylated proteins and/or legumain selective activity-based probe, and legumain and/or cystatin E/M was studied by activity measurement, ELISA or immunoblotting in cell lysates or conditioned media. 33664361 1 67 gly N-glycosylation 144:158 arg1 proteins proteins Fterm proteins Here, we present for the first time, a site-specific N-glycosylation analysis of proteins from a Brazilian Zika virus (ZIKV) strain. 30348809 5 36 gly glycosylation 715:727 arg2 a consensus N-linked glycosylation motif a consensus N-linked glycosylation motif motif Mass spectrometry revealed that the N610 residue is part of a consensus N-linked glycosylation motif in the receptor, usually linked to complex glycans. 33154157 3 56 gly glycoproteins 591:603 arg1 ER-escaped glycoproteins ER-escaped glycoproteins Fterm glycoproteins Endo-α-1,2-mannosidase (MANEA) is the sole endo-acting glycoside hydrolase involved in N-glycan trimming and is located within the Golgi, where it allows ER-escaped glycoproteins to bypass the classical N-glycosylation trimming pathway involving ER glucosidases I and II. 34523671 5 71 part_of sequons 1259:1265 arg1 human growth hormone growth hormone sequons PUBTATOR growth hormone 2688 Here we present an in vitro enzyme kinetic profile of three related GT-27 orthologues on natural and engineered sequons in recombinant human interferon α2b and human growth hormone where we show a significant change in kinetic properties with the amino acid changes. 34523671 5 71 part_of sequons 1259:1265 arg1 recombinant human interferon α2b interferon α2b sequons PUBTATOR interferon α2b 3440 Here we present an in vitro enzyme kinetic profile of three related GT-27 orthologues on natural and engineered sequons in recombinant human interferon α2b and human growth hormone where we show a significant change in kinetic properties with the amino acid changes. 31129958 2 5 gly glycopeptides 277:289 arg2 glycopeptides glycopeptides glycopeptides Many creative workflows and software apps have emerged recently that offer promising capabilities for assigning glycopeptides to MS data in an automated fashion. 33030205 3 68 gly O-glycosylation 582:596 arg2 a site a site site IMPa from Pseudomonas aeruginosa is such an O-glycopeptidase that cleaves the peptide bond immediately preceding a site of O-glycosylation, and through this glycoprotein-degrading function contributes to the host-pathogen interaction. 32282299 2 4 gly glycoproteins 458:470 arg1 body fluid glycoproteins body fluid glycoproteins Fterm glycoproteins BACKGROUND Altered N-glycosylation of body fluid glycoproteins can be an effective indicator of most inflammatory processes. 32282299 2 35 gly N-glycosylation 428:442 arg1 body fluid glycoproteins body fluid glycoproteins Fterm glycoproteins BACKGROUND Altered N-glycosylation of body fluid glycoproteins can be an effective indicator of most inflammatory processes. 30881698 1 38 gly glycoproteins 117:129 arg1 glycoproteins' roles glycoproteins' roles Fterm glycoproteins As more is learned about glycoproteins' roles in human health and disease, the biological functionalities of N-linked glycans are becoming more relevant. 29980609 7 9 gly glycosylation 1403:1415 arg1 at least one conventional glycosylation site at least one conventional glycosylation site site One atypical and three conventional N-linked glycosylation sites in the AICL C-type lectin-like domain critically impact maturation and surfacing of AICL, which is strictly dependent on glycosylation of at least one conventional glycosylation site. 29980609 7 13 gly glycosylation 1446:1458 arg2 at least one conventional glycosylation site at least one conventional glycosylation site site One atypical and three conventional N-linked glycosylation sites in the AICL C-type lectin-like domain critically impact maturation and surfacing of AICL, which is strictly dependent on glycosylation of at least one conventional glycosylation site. 29980609 7 91 gly glycosylation 1262:1274 arg2 three conventional N-linked glycosylation sites three conventional N-linked glycosylation sites sites One atypical and three conventional N-linked glycosylation sites in the AICL C-type lectin-like domain critically impact maturation and surfacing of AICL, which is strictly dependent on glycosylation of at least one conventional glycosylation site. 29093093 0 89 gly Glycoprotein 64:75 arg1 Shield Glycoprotein Shield Fterm Glycoprotein Glycan Shield and Fusion Activation of a Deltacoronavirus Spike Glycoprotein Fine-Tuned for Enteric Infections. 30566828 12 61 gly nonglycosylated 1441:1455 arg1 the nonglycosylated Asn-287 the nonglycosylated Asn-287 Asn-287 Replacing the nonglycosylated Asn-287 with glutamine or alanine resulted in protein misfolding and aggregation, leading to retention in the endoplasmic reticulum. 30076101 3 20 part_of non-CD4bs 548:556 arg1 non-CD4bs epitopes CD4 non-CD4bs epitopes PUBTATOR Site CD4 920 epitopes However, a substantial portion of eOD-GT8-elicited antibodies target non-CD4bs epitopes, potentially limiting its efficacy. 34174425 4 100 gly proteins 656:663 arg1 glycans proteins glycans Fterm proteins One solution to this problem is to reprogram the glycosylation pathway of filamentous fungi to decorate proteins with glycans that match, or can be remodeled into, those that are accepted by humans. 33300777 3 53 gly glycosylated 598:609 arg1 a glycosylated peptide a glycosylated peptide peptide Herein, we present a new approach to efficiently screen aptamers toward specific glycans with a complex structure, using a glycosylated peptide as a scaffold. 31302509 8 30 gly glycosylated 1190:1201 arg1 an unidentified glycosylated cofactor an unidentified glycosylated cofactor Fterm cofactor Our data also suggest that an unidentified glycosylated cofactor may influence X/P-MLV entry. 33295603 4 17 gly proteins 752:759 arg1 repeat regions proteins repeat regions Fterm proteins Some of these limitations stem from the difficulty to track the biosynthetic process of mucin-type O-glycosylation, especially when glycans occur in dense clusters in repeat regions of proteins, such as the mucins or immunoglobulin A1 (IgA1). 29295913 4 59 gly mannosylation 731:743 arg1 proteins proteins Fterm proteins Histoplasma yeast cells lacking the Pmt1 and Pmt2 protein mannosyltransferases, which catalyze O-linked mannosylation of proteins, are severely attenuated during infection of mammalian hosts. 29295913 4 76 gly proteins 748:755 arg1 O-linked mannosylation proteins O-linked mannosylation Fterm proteins Histoplasma yeast cells lacking the Pmt1 and Pmt2 protein mannosyltransferases, which catalyze O-linked mannosylation of proteins, are severely attenuated during infection of mammalian hosts. 28871230 4 33 gly glycoprotein 963:974 arg1 the glycoprotein glycopatterns the glycoprotein glycopatterns Fterm glycoprotein Finally, the differences of the glycoprotein glycopatterns were systematically compared between CHB and CHC patients. 31308178 1 1 gly glycosylation 202:214 arg1 cell-surface proteins cell-surface proteins Fterm proteins The tumor microenvironment and proinflammatory signals significantly alter glycosylation of cell-surface proteins on endothelial cells. 34450331 12 85 gly glycoproteins 2247:2259 arg1 glycoproteins glycoproteins Fterm glycoproteins However, the size and heterogeneity of the oligosaccharide chains poses several challenges to the applications of these techniques to glycoproteins. 34450331 12 126 gly heterogeneity 2135:2147 arg1 the oligosaccharide chains the oligosaccharide chains However, the size and heterogeneity of the oligosaccharide chains poses several challenges to the applications of these techniques to glycoproteins. 31875397 9 6 gly glycosylated 1619:1630 arg1 novel glycosylated neuropeptides novel glycosylated neuropeptides neuropeptides The elucidation of novel glycosylated neuropeptides sheds light on the crustacean peptidome and offers novel insights into future neuropeptide functional studies. 30550897 4 73 part_of OGT 756:758 arg1 the active site OGT the active site PUBTATOR Site OGT 8473 site The Lys634, Asn838, Gln839, Lys842, His901, and Asp925 residues were identified to play a major role in the UDP stabilization in the active site of OGT, where hydrogen bonding and π-π interactions mainly occur. 27643667 3 46 gly glycosylation 217:229 arg2 five N-linked glycosylation sites five N-linked glycosylation sites sites MPO has five N-linked glycosylation sites on its heavy chains. 32858085 2 24 gly glycoproteins 440:452 arg1 client glycoproteins client glycoproteins Fterm glycoproteins In this system, UDP-glucose:glycoprotein glucosyltransferase 1 (UGGT1) plays an essential role as the "folding sensor" by virtue of its ability to discriminate folding states of client glycoproteins. 32858085 2 48 gly glycoprotein 283:294 arg1 glycoprotein glucosyltransferase 1 glycoprotein glucosyltransferase 1 In this system, UDP-glucose:glycoprotein glucosyltransferase 1 (UGGT1) plays an essential role as the "folding sensor" by virtue of its ability to discriminate folding states of client glycoproteins. 29784879 5 6 gly glycoprotein 865:876 arg1 a misfolded glycoprotein a misfolded glycoprotein Fterm glycoprotein However, the molecular mechanism of mannose removal by EDEMs remains unclear, partly owing to the difficulty of reconstituting mannosidase activity in vitro Here, our analysis of EDEM3-mediated mannose-trimming activity on a misfolded glycoprotein revealed that ERp46, an ER-resident oxidoreductase, associates stably with EDEM3. 29784879 5 57 gly activity 841:848 arg1 a misfolded glycoprotein glycoprotein activity Fterm glycoprotein However, the molecular mechanism of mannose removal by EDEMs remains unclear, partly owing to the difficulty of reconstituting mannosidase activity in vitro Here, our analysis of EDEM3-mediated mannose-trimming activity on a misfolded glycoprotein revealed that ERp46, an ER-resident oxidoreductase, associates stably with EDEM3. 31086219 7 59 part_of GP82 1082:1085 arg1 an internal region GP82 an internal region Cterm Site GP82 region SP transposition to an internal region of GP82 rendered the signal unrecognizable by the signal peptidase and incapable to direct the nascent protein for ER-membrane association. 31931833 1 7 gly glycoproteins 119:131 arg1 BACKGROUND Therapeutic glycoproteins BACKGROUND Therapeutic glycoproteins Fterm glycoproteins BACKGROUND Therapeutic glycoproteins have occupied an extremely important position in the market of biopharmaceuticals. 32469948 2 50 gly glycoproteins 268:280 arg1 correct glycan structures glycoproteins correct glycan structures Fterm glycoproteins To produce human therapeutic proteins, a host that can produce glycoproteins with correct glycan structures is required. 32699088 6 78 gly glycosylation 1071:1083 arg2 the N-linked glycosylation sites the N-linked glycosylation sites sites Analysis of IAVs carrying N1 and N2 mutants demonstrated that the N-linked glycosylation sites on the NA head domain are required for efficient virion incorporation and replication in cells and eggs. 33135055 9 25 gly glycosylation 1445:1457 arg2 hACE2 glycosylation sites hACE2 glycosylation sites sites Our elucidation of the site-specific glycosylation and its terminal orientations on the hACE2 receptor, along with the modeling of hACE2 glycosylation sites can aid in understanding the intriguing virus-receptor interactions and assist in the development of novel therapeutics to prevent viral entry. 31333671 7 1 part_of IgE 879:881 arg1 IgE sequences IgE IgE sequences PUBTATOR Site IgE P01854 sequences IgE sequences carried more somatic mutations than IgM, yet fewer than IgG and IgA. 30581149 4 3 gly N-glycosylation 690:704 arg2 one or two N-glycosylation sites one or two N-glycosylation sites sites HHM 1 and HHM 2 containing one or two N-glycosylation sites were expressed in baculovirus-infected High-Five™ insect cells and a non-glycosylated version (HHM 0) was obtained by mutating the glycosylation motif. 30581149 4 35 gly glycosylation 843:855 arg2 the glycosylation motif the glycosylation motif motif HHM 1 and HHM 2 containing one or two N-glycosylation sites were expressed in baculovirus-infected High-Five™ insect cells and a non-glycosylated version (HHM 0) was obtained by mutating the glycosylation motif. 30375453 5 59 gly type 777:780 arg1 each site each site each site Site site In this study, we used molecular dynamics (MD) simulation to study the force-induced unfolding of A2 domain with and without a single N-linked glycan type on each site. 33606939 0 0 gly Shielding 15:23 arg1 Lassa Virus Envelop Protein Protein Shielding Fterm Protein Glycan Cluster Shielding and Antibody Epitopes on Lassa Virus Envelop Protein. 33606939 0 18 gly Epitopes 38:45 arg1 Lassa Virus Envelop Protein Protein Epitopes Fterm Protein Glycan Cluster Shielding and Antibody Epitopes on Lassa Virus Envelop Protein. 30355725 8 63 part_of residues 1132:1139 arg1 vertebrate Chordin proteins Chordin proteins residues OGER AminoAcid Chordin proteins Q9H2X0 residues in The identification of similar residues in vertebrate Chordin proteins suggests that N-glycosylation may be an evolutionarily conserved process that adds complexity to the regulation of BMP activity. 34780171 6 6 gly glycopeptides 1360:1372 arg2 glycopeptides glycopeptides glycopeptides and sialoglycopeptides Most importantly, the ZIC-cHILIC stepwise strategy demonstrated good reproducibility (>80% in triplicate analysis) as well as superior coverage of 4.6- to 12.0-fold and 2.1- to 35.6-fold more glycopeptides and sialoglycopeptides compared to conventional TiO2 and ZIC-HILIC, respectively. 34780171 6 24 gly sialoglycopeptides 1378:1395 arg2 sialoglycopeptides sialoglycopeptides glycopeptides and sialoglycopeptides Most importantly, the ZIC-cHILIC stepwise strategy demonstrated good reproducibility (>80% in triplicate analysis) as well as superior coverage of 4.6- to 12.0-fold and 2.1- to 35.6-fold more glycopeptides and sialoglycopeptides compared to conventional TiO2 and ZIC-HILIC, respectively. 34229070 9 82 gly O-glycopeptide 1480:1493 arg2 O-glycopeptide O-glycopeptide O-glycopeptide CONCLUSION Our study established an intact O-glycopeptide MS analysis strategy for APP O-glycopeptide identification with enhanced fragmentation efficiency and detection sensitivity. 34229070 9 95 gly O-glycopeptide 1524:1537 arg2 APP O-glycopeptide identification APP O-glycopeptide identification O-glycopeptide CONCLUSION Our study established an intact O-glycopeptide MS analysis strategy for APP O-glycopeptide identification with enhanced fragmentation efficiency and detection sensitivity. 32858085 1 62 gly glycoproteins 127:139 arg1 glycoproteins glycoproteins Fterm glycoproteins BACKGROUND In the endoplasmic reticulum (ER), folding of glycoproteins is assisted by a combined action of enzymes and chaperones that leads them to biologically functional structures.