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
32149324	12	51	gly	N-glycoproteins	1861:1875	arg1	the N-glycoproteins	the N-glycoproteins				Fterm		N-glycoproteins			Over two thirds of the N-glycoproteins identified in the late tailbud stage are associated with neuron projection morphogenesis, suggesting a vital role of the N-glycome in neuronal development.
32485649	2	52	part_of	proteins	410:417	arg1	different tryptic glycopeptides	haptoglobin proteins		different tryptic glycopeptides		PUBTATOR	Site	haptoglobin proteins	3240	glycopeptides	In this short communication, we studied the effect of an organic modifier in the sample solvent on the solubility of different tryptic glycopeptides of hemopexin and haptoglobin proteins.
33910735	6	52	part_of	CSNPs-BNC	964:972	arg1	The CSNPs-BNC composites	BNC		The CSNPs-BNC composites		OGER	Site	BNC	Q01954	composites	The CSNPs-BNC composites could promote the adhesion and proliferation of Schwann cells, and demonstrate good biocompatibility both in vitro and in vivo.
32873758	5	64	part_of	protein	637:643	arg1	The C terminus	protein		The C terminus		Fterm	Site	protein		terminus	The C terminus of each cargo protein was amide-bonded to a linking sugar whose structure was deduced to be 2-N-seryl, 3-N-acetylglucuronamide in P. gingivalis and 2-N-glycyl, 3-N-acetylmannuronic acid in T. forsythia The structures indicated the involvement of the Wbp pathway to produce 2,3-di-N-acetylglucuronic acid and a WbpS amidotransferase to produce the uronamide form of this sugar in P. gingivalis The wbpS gene was identified as PGN_1234 as its deletion resulted in the inability to produce the uronamide.
33871970	8	49	gly	O-glycosylation	1470:1484	arg2	the previously unknown O-glycosylation site			the previously unknown O-glycosylation site						site	Additionally, using an alternative approach based on N-terminal cleavage of the O-glycosylation, the previously unknown O-glycosylation site was localized at T323.
32426967	8	76	gly	glycopeptide	1577:1588	arg2	one glycopeptide	A1AT		glycopeptide		PUBTATOR		A1AT	5265	glycopeptide	We also found that the ratio of different charge states (2+/3+) of one glycopeptide of A1AT can significantly discriminate early-stage HCC from cirrhosis with the area under the receiver operating characteristic curve AUC of 0.9.
33566602	3	51	gly	N-glycosites	580:591	arg2	46 N-glycosites			46 N-glycosites						N-glycosites	In total, 399 N-glycosites corresponding to 198 proteins were identified, of which 46 N-glycosites from 30 proteins were significantly altered.
33566602	3	60	gly	N-glycosites	508:519	arg2	399 N-glycosites			399 N-glycosites						N-glycosites	In total, 399 N-glycosites corresponding to 198 proteins were identified, of which 46 N-glycosites from 30 proteins were significantly altered.
32568312	5	83	gly	glycopeptides	1188:1200	arg2	the N-linked intact glycopeptides			the N-linked intact glycopeptides						glycopeptides	The quantitative analysis of the N-linked intact glycopeptides using pGlyco 2.0 and MaxQuant software provided quantitative information on plasma IgG subclass-specific and site-specific N-glycosylation.
34380744	7	11	gly	fucosylated	1427:1437	arg1	fucosylated glycan expression				fucosylated glycan expression						Although there were no individual N-glycan structures that could identify specific subtypes, trends emerged regarding the correlation of branched glycan expression to HCC as a whole and fucosylated glycan expression to subtype 1 tumors specifically.
34335667	0	1	gly	Glucosidase	31:41	arg1	a Paucimannose Structure	Glucosidase			a Paucimannose Structure	Fterm		Glucosidase			Production of Human Acid-Alpha Glucosidase With a Paucimannose Structure by Glycoengineered Arabidopsis Cell Culture.
32737362	6	56	gly	N-glycosylated	723:736	arg1	longipalpis salivary proteins	longipalpis salivary proteins				Fterm		proteins			longipalpis salivary proteins may be N-glycosylated.
32686492	5	31	part_of	ICP-1	841:845	arg1	The glycosyl residues	ICP-1		The glycosyl residues		PUBTATOR	Site	ICP-1	5205	residues	The glycosyl residues of ICP-1 were composed of (1→), (1→4) and (1→6) glucose, (1→5) arabinose, (1→4) galacturonic acid and (1→3,6) mannose.
34767945	8	106	gly	N-glycoprotein	1358:1371	arg1	a novel mass spectrometry-based multiplexed N-glycoprotein imaging approach	a novel mass spectrometry-based multiplexed N-glycoprotein imaging approach				Fterm		N-glycoprotein			We therefore utilized a novel mass spectrometry-based multiplexed N-glycoprotein imaging approach and measured changes in IgG-specific antibody N-glycan structures.
33631789	7	12	gly	sialylation	1374:1384	arg1	anti-TNF-Abs [Fuc-G0				anti-TNF-Abs [Fuc-G0						RESULTS Our data demonstrated that neither fucosylation nor sialylation of anti-TNF-Abs [Fuc-G0, FucG2S1/G2S2, G2S1/G2S2] influence their uptake by mo-DCs.
34903166	1	23	gly	glycoproteins	220:232	arg1	BACKGROUND Arabinogalactan-proteins	BACKGROUND Arabinogalactan-proteins				Fterm		Arabinogalactan-proteins			BACKGROUND Arabinogalactan-proteins (AGPs) are structurally complex hydroxyproline-rich cell wall glycoproteins ubiquitous in the plant kingdom.
34903166	1	23	gly	glycoproteins	220:232	arg1	structurally complex hydroxyproline-rich cell wall glycoproteins	structurally complex hydroxyproline-rich cell wall glycoproteins				Fterm		glycoproteins			BACKGROUND Arabinogalactan-proteins (AGPs) are structurally complex hydroxyproline-rich cell wall glycoproteins ubiquitous in the plant kingdom.
34127537	0	99	gly	N-Glycosylation	7:21	arg1	Serum Immunoglobulin A	Serum Immunoglobulin A				Cterm		Serum Immunoglobulin A			O- and N-Glycosylation of Serum Immunoglobulin A is Associated with IgA Nephropathy and Glomerular Function.
32102970	0	126	part_of	N-linked	30:37	arg1	N-linked Intact Glycopeptides	N-linked		N-linked Intact Glycopeptides		Cterm	Site	N-linked		Glycopeptides	Large-scale Identification of N-linked Intact Glycopeptides in Human Serum using HILIC Enrichment and Spectral Library Search.
33734311	5	46	gly	moiety	1062:1067	arg1	the Man-α1,3-Man arm			the Man-α1,3-Man arm	the Man-α1,3-Man arm						We found that FUT8 could fucosylate most of high-mannose and complex-type N-glycans, including highly branched N-glycans from chicken ovalbumin, when the aglycone moiety is modified with a 9-fluorenylmethyloxycarbonyl (Fmoc) moiety or in a suitable peptide/protein context, even if they lack the terminal GlcNAc moiety on the Man-α1,3-Man arm.
33734311	5	61	gly	ovalbumin	884:892	arg1	highly branched N-glycans	ovalbumin			highly branched N-glycans	PUBTATOR		ovalbumin	396058		We found that FUT8 could fucosylate most of high-mannose and complex-type N-glycans, including highly branched N-glycans from chicken ovalbumin, when the aglycone moiety is modified with a 9-fluorenylmethyloxycarbonyl (Fmoc) moiety or in a suitable peptide/protein context, even if they lack the terminal GlcNAc moiety on the Man-α1,3-Man arm.
33734311	5	83	gly	fucosylate	775:784	arg1	highly branched N-glycans				highly branched N-glycans						We found that FUT8 could fucosylate most of high-mannose and complex-type N-glycans, including highly branched N-glycans from chicken ovalbumin, when the aglycone moiety is modified with a 9-fluorenylmethyloxycarbonyl (Fmoc) moiety or in a suitable peptide/protein context, even if they lack the terminal GlcNAc moiety on the Man-α1,3-Man arm.
33734311	5	83	gly	fucosylate	775:784	arg1	high-mannose and complex-type N-glycans				high-mannose and complex-type N-glycans						We found that FUT8 could fucosylate most of high-mannose and complex-type N-glycans, including highly branched N-glycans from chicken ovalbumin, when the aglycone moiety is modified with a 9-fluorenylmethyloxycarbonyl (Fmoc) moiety or in a suitable peptide/protein context, even if they lack the terminal GlcNAc moiety on the Man-α1,3-Man arm.
31949166	2	35	gly	α-DG	226:229	arg1	the O-mannosyl glycan	of α-DG			the O-mannosyl glycan	PUBTATOR		of α-DG	6688		Defects in the O-mannosyl glycan of α-DG cause dystroglycanopathy, a group of congenital muscular dystrophies.
34143599	6	63	part_of	HCR	1048:1050	arg1	the HCR initiator domain	HCR		the HCR initiator domain		OGER	Site	HCR	Q8TD31	domain	Proximity-induced hybridization of the complementary domain between the two kinds of probes promoted conformational changes in the protein probes and in situ release of the HCR initiator domain.
32142841	0	10	part_of	lignin	84:89	arg1	Binary and ternary sustainable composites	lignin		Binary and ternary sustainable composites		Fterm	Site	lignin		composites	Binary and ternary sustainable composites of gellan gum, hydroxyethyl cellulose and lignin for food packaging applications: Biocompatibility, antioxidant activity, UV and water barrier properties.
32270793	4	14	gly	multifucosylated	653:668	arg1	biantennary and multifucosylated complex type N-glycans				biantennary and multifucosylated complex type N-glycans						MALDI-MS based N-glycomic analysis established that mycobacterial infection induced increased synthesis of biantennary and multifucosylated complex type N-glycans.
33750987	5	72	part_of	site	962:965	arg1	influenza hemagglutinin	hemagglutinin		site		Fterm	Site	hemagglutinin		site	Using structural biology and mass spectrometric approaches, we find that two N-glycosylation sites close to the receptor binding site (RBS) on influenza hemagglutinin represent the oligomannose cluster recognized by 2G12.
34931806	11	38	gly	glycoproteins	1713:1725	arg1	cell-surface glycoproteins	cell-surface glycoproteins				Fterm		glycoproteins			However, through subsequent proteomic and biochemical characterization, we found that 4FGalNAz does not widely label cell-surface glycoproteins but instead is primarily a substrate for OGT.
34791559	5	96	gly	fucosylated	1472:1482	arg1	fucosylated glycans				fucosylated glycans						Correlation analysis revealed direct and reciprocal relationships between the morphometric characteristics of the terminal villi of the placenta and the expression of fucosylated glycans in the syncytiotrophoblast and endothelium in PE.
33423189	7	63	gly	glycoprotein	1176:1187	arg1	IgG2b-Fc glycoprotein	IgG2b-Fc glycoprotein				Fterm		glycoprotein			The spectral assignments of IgG2b-Fc glycoprotein will provide the basis for NMR investigation of its dynamic conformations and interactions with effector molecules in solution.
33423189	4	54	gly	glycoforms	757:766	arg1	mouse IgG2b-Fc glycoforms	mouse IgG2b-Fc glycoforms				PUBTATOR		IgG2b	16016		Here we applied our metabolic isotope labeling technique using mammalian cells for in-solution structural characterization of mouse IgG2b-Fc glycoforms with a molecular mass of 54 kDa.
34213104	2	41	gly	composition	330:340	arg1	these polysaccharides			position,	these polysaccharides					position,	The variation in the structure, composition, and amount of monosaccharides in these polysaccharides may lead to different spatial structures and biological activities.
33387794	9	8	part_of	LTA	1683:1685	arg1	the LTA composition	LTA		the LTA composition		OGER	Site	LTA	P01374	position,	The results are discussed in light of the steric and electrostatic interactions of the bulky LTA molecules with increased chain fluidity at the higher temperature, which affect the molecular packing and interactions, and thus depend on the LTA composition, in the membrane.
34288669	6	21	gly	glycopeptides	1323:1335	arg2	glycopeptides			glycopeptides						glycopeptides	Systematic, stepwise integration of data obtained at the levels of released glycans, glycopeptides, and subunits using a computational annotation tool allowed us to reveal 1031 underlying glycoforms.
34232070	12	28	gly	afucosylated	1976:1987	arg1	afucosylated PGT121 MAbs	afucosylated PGT121 MAbs				OGER		PGT121 MAbs			Our results highlight enhanced Fc-effector activities of afucosylated PGT121 MAbs that could be important in a therapeutic context to accelerate infected cell clearance and slow disease progression.
33205457	11	63	gly	ChN-F	2056:2060	arg1	the oppositely charged polysaccharide particles	ChN			the oppositely charged polysaccharide particles	OGER		ChN	P15882		CONCLUSION The size of the emulsion droplets stabilized by the oppositely charged polysaccharide particles (ChN-F complexes) reduced significantly.
34424752	9	51	gly	glycoprotein	1786:1797	arg1	a complex-type glycoprotein	a complex-type glycoprotein				Fterm		glycoprotein			In contrast, IgG is representative of a complex-type glycoprotein, and we demonstrate that the GH18 domain of EndoE is primarily responsible for the removal of this glycan decoration.
34389709	1	24	part_of	C-Glycosyl	111:120	arg1	C-Glycosyl peptides/proteins	C-Glycosyl		C-Glycosyl peptides/proteins		Cterm	Site	C-Glycosyl		peptides/proteins	C-Glycosyl peptides/proteins are metabolically stable mimics of the native glycopeptides/proteins bearing O/N-glycosidic linkages, and are thus of great therapeutical potential.
31641758	3	19	gly	glycosylated	605:616	arg1	highly glycosylated short oligosaccharide conjugates				highly glycosylated short oligosaccharide conjugates						We show that highly glycosylated short oligosaccharide conjugates elicit functional immune responses comparable to those of the full-length native polysaccharide.
32321762	8	94	gly	PrPC	1593:1596	arg1	the GPI glycan structure	PrPC			the GPI glycan structure	PUBTATOR		PrPC	5621		In summary, we report the GPI glycan structure of human PrPC, including the ω-site amino acid for GPI attachment and the sialic acid linkage type.
32902264	1	41	part_of	glycoproteins	207:219	arg1	The α-galactosyl epitope	glycoproteins		The α-galactosyl epitope		Fterm	Site	glycoproteins		epitope	The α-galactosyl epitope is a terminal N-glycan moiety of glycoproteins found in mammals except in humans, and thus, it is recognized as an antigen that provokes an immunogenic response in humans.
34921890	4	73	gly	glycoprotein	750:761	arg1	glycoprotein fractions	glycoprotein fractions				Fterm		glycoprotein			The effective concentrations of glycoprotein fractions reducing the viability of cancer cell lines were determined.
32104808	0	11	gly	glycopeptides	119:131	arg2	glycopeptides			glycopeptides						glycopeptides	DIALib: an automated ion library generator for data independent acquisition mass spectrometry analysis of peptides and glycopeptides.
34367227	0	33	gly	Glycosylation	14:26	arg1	Recombinant Viral Glycoproteins	Recombinant Viral Glycoproteins				Fterm		Glycoproteins			Site-Specific Glycosylation of Recombinant Viral Glycoproteins Produced in Nicotiana benthamiana.
33065977	4	59	gly	fucosylation	709:720	arg1	high-mannose structures				high-mannose structures						Comparing levels of glycosylation features between MS cases and controls revealed that core fucosylation (p = 6.96 × 10-3) and abundance of high-mannose structures (p = 1.48 × 10-2) were the most prominently altered IgG glycosylation traits.
33876698	11	22	gly	residues	1626:1633	arg1	N232			asparagine residues N197, N212 and N232						asparagine residues N197, N212 and N232	Paucimannosidic glycans (M2FA and M3F) and a bulkier tetra-antennary complex glycan were introduced at asparagine residues N197, N212 and N232.
33876698	11	22	gly	residues	1626:1633	arg1	asparagine residues N197, N212 and N232			asparagine residues N197, N212 and N232						asparagine residues N197, N212 and N232	Paucimannosidic glycans (M2FA and M3F) and a bulkier tetra-antennary complex glycan were introduced at asparagine residues N197, N212 and N232.
33876698	11	22	gly	residues	1626:1633	arg1	N212			asparagine residues N197, N212 and N232						asparagine residues N197, N212 and N232	Paucimannosidic glycans (M2FA and M3F) and a bulkier tetra-antennary complex glycan were introduced at asparagine residues N197, N212 and N232.
33876698	11	22	gly	residues	1626:1633	arg1	asparagine residues N197, N212 and N232			asparagine residues N197, N212 and N232						asparagine residues N197, N212 and N232	Paucimannosidic glycans (M2FA and M3F) and a bulkier tetra-antennary complex glycan were introduced at asparagine residues N197, N212 and N232.
33876698	11	22	gly	residues	1626:1633	arg1	N212			asparagine residues N197, N212 and N232						asparagine residues N197, N212 and N232	Paucimannosidic glycans (M2FA and M3F) and a bulkier tetra-antennary complex glycan were introduced at asparagine residues N197, N212 and N232.
33876698	11	22	gly	residues	1626:1633	arg1	N212			asparagine residues N197, N212 and N232						asparagine residues N197, N212 and N232	Paucimannosidic glycans (M2FA and M3F) and a bulkier tetra-antennary complex glycan were introduced at asparagine residues N197, N212 and N232.
33876795	3	10	gly	glycoproteins	642:654	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			Although selective production of signal glycans is important in determining the fate of glycoproteins, the branch-discrimination abilities of the α-1,2-mannosidases are not well understood.
34611825	9	69	part_of	Recombinant	1183:1193	arg1	His6-RbL	Recombinant		His6-RbL		Cterm	AminoAcid	Recombinant		His6	Recombinant protein (His6-RbL) of ~ 35 kDa m.wt was purified using Ni-NTA affinity chromatography to the extent of 0.26 mg/ml.
32873758	3	108	gly	deglycosylated	427:440	arg1	Modified cargo proteins	Modified cargo proteins				Fterm		proteins			Modified cargo proteins were deglycosylated using trifluoromethanesulfonic acid and digested with trypsin or proteinase K.
33758835	3	11	gly	glycosylation	389:401	arg1	recombinant SARS-CoV-2 spike proteins	recombinant SARS-CoV-2 spike proteins				PUBTATOR		spike proteins	43740568		Here, we investigate the glycosylation of recombinant SARS-CoV-2 spike proteins from five different laboratories and compare them against infectious virus S protein.
31641758	2	47	part_of	epitope	555:561	arg1	a carrier protein	protein		epitope		Fterm	Site	protein		epitope	In the current study, we took advantage of this discovery to design a novel vaccine based on multivalent presentation of the identified minimal epitope on a carrier protein.
33231436	2	69	gly	Asparagine-linked	314:330	arg1	Asparagine-linked glycans			Asparagine	Asparagine-linked glycans					Asparagine	Asparagine-linked glycans (N-glycans) of glycoproteins naturally exhibit diverse antennary patterns, such as bi-, tri-, and tetra-antennary forms.
33231436	2	69	gly	Asparagine-linked	314:330	arg1	N-glycans			Asparagine	N-glycans					Asparagine	Asparagine-linked glycans (N-glycans) of glycoproteins naturally exhibit diverse antennary patterns, such as bi-, tri-, and tetra-antennary forms.
33231436	2	81	gly	glycoproteins	355:367	arg1	Asparagine-linked glycans	glycoproteins			Asparagine-linked glycans	Fterm		glycoproteins			Asparagine-linked glycans (N-glycans) of glycoproteins naturally exhibit diverse antennary patterns, such as bi-, tri-, and tetra-antennary forms.
33231436	2	81	gly	glycoproteins	355:367	arg1	N-glycans	glycoproteins			N-glycans	Fterm		glycoproteins			Asparagine-linked glycans (N-glycans) of glycoproteins naturally exhibit diverse antennary patterns, such as bi-, tri-, and tetra-antennary forms.
32404934	6	29	part_of	domains	955:961	arg1	other human proteins	proteins		domains		Fterm	Site	proteins		domains	These data reveal that TFF activity is dependent on the glycosylation state of mucosal glycoproteins and alludes to a lectin function for trefoil domains in other human proteins.
32517158	7	62	gly	N-glycosylation	1258:1272	arg2	the two N-glycosylation sites			the two N-glycosylation sites						sites	Mutation of the two N-glycosylation sites on ∆21-121 EMCN abolished its interaction with VEGFR2 and its function in VEGFR2 internalization.
32162920	7	50	gly	CIA	1299:1301	arg1	glycan-based biomarkers	CIA			glycan-based biomarkers	OGER		CIA	Q9CQE6		Hence, the established methodology not only provides valuable information to find glycan-based biomarkers of CIA, but also leaves the door open to evaluate, in the future, glycosylation changes of many other inflammatory diseases, in which transferrin has been described to be altered.
34009123	0	32	gly	microbiota	28:37	arg1	Glycan-based shaping	a			Glycan-based shaping	PUBTATOR		a	11820		Glycan-based shaping of the microbiota during primate evolution.
34122956	5	70	part_of	MUC1	1333:1336	arg1	the MUC1 glycopeptide	structure of the MUC1		the MUC1 glycopeptide		OGER	Site	structure of the MUC1	P15941	glycopeptide	Remarkably, the structure of the MUC1 glycopeptide in complex with SN-101 is identical to its solution NMR structure, an extended conformation induced by site-specific glycosylation.
33878161	5	27	part_of	IgG1	810:813	arg1	constant fragment	IgG1		constant fragment		OGER	Site	IgG1	P01857	fragment	Two recombinant proteins, lysosomal acid lipase and constant fragment of human IgG1, were expressed in the M2D-KO and DF-KO cell lines.
34369795	4	12	gly	glycosylated	575:586	arg1	a heavily glycosylated protein	a heavily glycosylated protein				Fterm		protein			Being a heavily glycosylated protein, numerous studies have investigated its glycan composition.
33303137	4	28	gly	glycopeptides	654:666	arg2	intact glycopeptides			intact glycopeptides						glycopeptides	Analysis of intact glycopeptides can provide the information of both the glycan composition and the glycosylation site, which can further help to reveal the difference of glycosylation in the four subtypes of breast cancer.
33303137	4	33	gly	glycosylation	735:747	arg2	the glycosylation site			the glycosylation site						site	Analysis of intact glycopeptides can provide the information of both the glycan composition and the glycosylation site, which can further help to reveal the difference of glycosylation in the four subtypes of breast cancer.
34069622	8	59	part_of	CS/ALG	1633:1638	arg1	the CS/ALG composite	CS		the CS/ALG composite		PUBTATOR	Site	CS	1431	composite	Dynamic mechanical analysis of the CS/ALG composite showed two glass transition temperatures close to those of the original polymers, indicating weak PEC formation.
33750987	7	24	gly	N-glycosylation	1183:1197	arg2	These two N-glycosylation sites			These two N-glycosylation sites						sites	These two N-glycosylation sites have also become crucial for fitness of recent H3N2 strains.
31952476	14	65	part_of	ECM	2337:2339	arg1	ECM composition	ECM		ECM composition		OGER	Site	ECM	Q13201	position	Significant differences between UTCs and TGCs in ECM composition indicate reduced anchoring of TGCs in the surrounding matrix, which might contribute to their migration and their weakly invasive interaction with the maternal endometrium.
35178379	0	55	gly	SARS-CoV-2	57:66	arg1	Human Blood Group A Glycan Structures	From SARS			Human Blood Group A Glycan Structures	OGER		From SARS	P49591		In Planta Production of the Receptor-Binding Domain From SARS-CoV-2 With Human Blood Group A Glycan Structures.
32106961	0	26	gly	neutral/sialylated	99:116	arg1	neutral/sialylated N-glycans				neutral/sialylated N-glycans						Dual isotopic labeling combined with fluorous solid-phase extraction for simultaneous discovery of neutral/sialylated N-glycans as biomarkers for gastric cancer.
34097954	4	48	part_of	PVA	780:782	arg1	PVA composite	PVA		PVA composite		OGER	Site	PVA	P32926	composite	Thermal analysis shows that the processing window of PVA composite is significantly broadened to 131.46 °C.
32535667	5	34	part_of	position	1055:1062	arg1	the protein	protein		position		Fterm	Site	protein		position	Thiol chemistry allowed O-Antigen conjugation only when the carrier protein was activated on the lysines and with a relative high number of linkers, while click chemistry allowed conjugate generation even when just one position on the protein was activated and to both lysine and tyrosine sites.
34364435	6	64	gly	glycopeptides	1141:1153	arg2	296 and 145 intact glycopeptides			296 and 145 intact glycopeptides						glycopeptides	This strategy was applied to analyze the N-glycosylation of rice roots and O-glycosylation of Acinetobacter baumannii ATCC17978, leading to the identification of 296 and 145 intact glycopeptides respectively.
34019602	4	5	gly	glycosylation	619:631	arg2	this glycosylation site			this glycosylation site						site	The absence of this glycosylation site on SARS-CoV-2 RBD may enhance its binding with ACE2.
32437608	5	16	gly	used	957:960	arg2	the catalytic domain 2			the catalytic domain 2						domain	In this work, we observed that the catalytic domain 2 of the L. kunkeei branching sucrase used not only dextran but also IMMP as the acceptor substrate, introducing -(1→3,6)-α-d-Glcp-(1→6)-branches.
33709491	5	50	gly	glycoproteins	708:720	arg1	structurally defined glycans	glycoproteins			structurally defined glycans	Fterm		glycoproteins			Unfortunately, there is no viable method for preparing RBD glycoproteins with structurally defined glycans.
32817216	4	93	gly	glycosylation	1012:1024	arg1	CD4i epitopes			CD4i epitopes						epitopes	BMS-529-complexed gp150 trimers in detergent micelles, which were isolated from CHO cells, bound to bNAbs, including UCA and intermediates of the CD4 binding site (bs) CH103 bNAb lineage, and showed limited exposure of CD4i epitopes and a glycosylation pattern with a preponderance of high-mannose glycans.
34260212	5	57	gly	strain	1135:1140	arg1	the capsular polysaccharide	strain			the capsular polysaccharide	Fterm		strain			To further showcase the application of this protocol, a structurally unique hexasaccharide composed of →3)-β-d-6didoHepp-(1→4)-β-d-GlcpNAc-(1→ units, corresponding to the capsular polysaccharide of C. jejuni strain CG8486 has been assembled for the first time.
34841862	3	18	part_of	Aβ	547:548	arg1	Aβ (1-42) peptides	Aβ (1-42		Aβ (1-42) peptides		PUBTATOR	Site	Aβ (1-42	351	peptides	Here, we chemically synthesized three homogeneously modified isoforms of Aβ (1-42) peptides bearing Tyr10 O-glycosylation, an unusual PTM initially identified from the cerebrospinal fluid samples of AD patients.
34375000	3	4	part_of	SARS-CoV-2	524:533	arg1	the receptor binding domain	SARS		the receptor binding domain		OGER	Site	SARS	P49591	domain	Here we used a comprehensive library of mammalian carbohydrate-binding proteins (lectins) to probe critical sugar residues on the full-length trimeric Spike and the receptor binding domain (RBD) of SARS-CoV-2.
33284290	4	2	part_of	BNC	734:736	arg1	BNC composites	BNC		BNC composites		OGER	Site	BNC	Q01954	composites	The water-holding capability and water vapor transmission rate (WVTR) of BNC composites were significantly improved, particularly in the case of BNC/LF/COL, with a WVTR of 2600 g m-2 d-1, indicating that the composite maintains a moderately moist environment over the wound bed, which would enhance epithelial cell migration during the healing process.
34420737	9	40	gly	glycoproteins	1623:1635	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			Overall, the results demonstrated that the newly established LC-MS/MS MRM method is more effective and powerful than the GLC-based methods reported previously, and it is more suitable for the analysis of highly complex natural polysaccharides, including complex pectins, fructosans, and glycoproteins.
32426967	4	26	part_of	A1AT	808:811	arg1	A1AT glycopeptides	A1AT		A1AT glycopeptides		PUBTATOR	Site	A1AT	5265	glycopeptides	Two tandem mass spectrometry strategies are integrated in this study: a nontargeted stepped HCD strategy for structural analysis of A1AT glycopeptides and a targeted parallel reaction monitoring (PRM) strategy for quantification of site-specific glycoforms of A1AT in HCC and cirrhosis patient sera.
34943050	9	64	gly	sialylated	1456:1465	arg1	α2-6 sialylated structures				α2-6 sialylated structures						An siRNA approach identified St6gal1 as being primarily responsible for the early transient increase of α2-6 sialylated structures in response to hyperoxia.
33534538	5	49	gly	contain	757:763	arg1	glycolipid fragments AND glycans			glycolipid fragments	glycans					fragments	In the second stage, glycolipid fragments from the matched GSL species, which contain both the lipid and glycans and thus shift due to lipid structural changes, are treated according to lipid rule-based matching to characterize the lipid compositions.
32904601	3	22	part_of	sites	577:581	arg1	human angiotensin I converting enzyme 2	angiotensin I converting enzyme 2		sites		PUBTATOR	Site	angiotensin I converting enzyme 2	59272	sites	All seven glycosylation sites in human angiotensin I converting enzyme 2 (hACE2) were found to be completely occupied, mainly by complex N-glycans.
32904601	3	22	part_of	sites	577:581	arg1	hACE2	hACE2		sites		PUBTATOR	Site	hACE2	59272	sites	All seven glycosylation sites in human angiotensin I converting enzyme 2 (hACE2) were found to be completely occupied, mainly by complex N-glycans.
34834161	5	38	gly	N-glycosite	1092:1102	arg2	N-glycosite addition			N-glycosite addition						N-glycosite	We recently implemented this approach in the Fab region of full-size adalimumab and demonstrated that the thermodynamic stability of the Fab domain increases upon N-glycosite addition.
33352114	6	13	gly	glycosylation	946:958	arg2	their closest N-linked glycosylation sites			their closest N-linked glycosylation sites						sites	Frequency distributions of distances between glycoprotein residues and their closest N-linked glycosylation sites in glycoprotein crystal structures suggests relevance of the Parodi limit to UGGT activity in vivo.
33352114	6	14	gly	glycoprotein	897:908	arg1	glycoprotein residues	glycoprotein residues				Fterm		glycoprotein			Frequency distributions of distances between glycoprotein residues and their closest N-linked glycosylation sites in glycoprotein crystal structures suggests relevance of the Parodi limit to UGGT activity in vivo.
33352114	6	25	gly	glycoprotein	969:980	arg1	glycoprotein crystal structures	glycoprotein crystal structures				Fterm		glycoprotein			Frequency distributions of distances between glycoprotein residues and their closest N-linked glycosylation sites in glycoprotein crystal structures suggests relevance of the Parodi limit to UGGT activity in vivo.
34523784	5	40	gly	glycopeptide	643:654	arg2	two peptide and three glycopeptide segments			two peptide and three glycopeptide segments						glycopeptide	EPO was assembled by sequential native chemical ligation of two peptide and three glycopeptide segments.
34611825	0	66	gly	Bean	172:175	arg1	N-Acetyl-D-Glucosamine	Rice Bean			N-Acetyl-D-Glucosamine	OGER		Rice Bean	Q3B7T3		Cloning, Characterization, Expression Analysis, and Agglutination Studies of Novel Gene Encoding β-D-Galactose, N-Acetyl-D-Glucosamine and Lactose-Binding Lectin from Rice Bean (Vigna umbellata).
34611825	0	66	gly	Bean	172:175	arg1	β-D-Galactose	Rice Bean			β-D-Galactose	OGER		Rice Bean	Q3B7T3		Cloning, Characterization, Expression Analysis, and Agglutination Studies of Novel Gene Encoding β-D-Galactose, N-Acetyl-D-Glucosamine and Lactose-Binding Lectin from Rice Bean (Vigna umbellata).
34044019	6	7	gly	afucosylated	1258:1269	arg1	an afucosylated Fc region			an afucosylated Fc region						region	By probing differences in solvent accessibility between native and afucosylated immunoglobulin G1 (IgG1) using hydroxyl radical footprinting-MS, we provide the first solution-phase evidence that an IgG1 bearing an afucosylated Fc region appears to require fewer conformational changes for FcγRIIIa binding.
34806714	3	9	gly	glycopeptide	540:551	arg2	rich glycopeptide data			rich glycopeptide data						glycopeptide	Although bottom-up proteomics readily enables the generation of rich glycopeptide data, the breadth and diversity of glycans observed in prokaryotic species make the identification of bacterial glycosylation events extremely challenging.
33284837	4	55	part_of	gp160	730:734	arg1	envelope (gp160) sequences	gp160		envelope (gp160) sequences		PUBTATOR	Site	gp160	2028	sequences	We have combined operations research and bioinformatics methods to extract key networks of mutations that differentiate founder and chronic stages for 156 subtype B and 107 subtype C envelope (gp160) sequences.
32568312	4	94	part_of	IgGs	950:953	arg1	N-linked intact glycopeptides	IgGs		N-linked intact glycopeptides		Cterm	Site	IgGs		glycopeptides	In this study, we profiled N-linked intact glycopeptides of purified IgGs from 51 PCa patients and 45 BPH patients by our developed N-glycoproteomic method using hydrophilic interaction liquid chromatography enrichment coupled with high resolution LC-MS/MS.
34174476	6	26	part_of	Pro	1020:1022	arg1	CG42782	CG42782		Pro		PUBTATOR	AminoAcid	CG42782	10178908	Pro	In addition, the presence of a penultimate Pro in CG42782 and Met75C will help prevent degradation by carboxypeptidases.
33675758	14	21	gly	deglycosylated	2029:2042	arg1	deglycosylated IgG1	deglycosylated IgG1				OGER		IgG1	P01857		These more variable Fc conformations account for the loss of binding to the Fcγ receptor in deglycosylated IgG1.
32477333	3	46	gly	derived	494:500	arg2	bovine lactoferrin AND N-glycans	bovine lactoferrin			N-glycans	PUBTATOR		lactoferrin	280846		In this study, we assessed the impact of N-glycans derived from bovine lactoferrin (bLF) on the inhibition of TLR-8 activation.
32477333	3	46	gly	derived	494:500	arg1	bLF AND N-glycans	bLF			N-glycans	Cterm		bLF	280846		In this study, we assessed the impact of N-glycans derived from bovine lactoferrin (bLF) on the inhibition of TLR-8 activation.
33556214	1	46	gly	polysaccharides	458:472	arg1	monomer composition			monomer composition	monomer composition		Site			position,	AIMS Investigation of the influence of cultivation time and sea buckthorn press cake (Hippophaë rhamnoides) dosage on mycelium yield of Inonotus obliquus in submerged cultivation and on the yield, monomer composition, and macromolecular properties of the exopolysaccharides (EPS) from culture media and intracellular polysaccharides (IPS) extracted from mycelia.
32568201	7	78	gly	observed	1156:1163	arg2	CSF AND two glycans	CSF			two glycans	OGER		CSF			For all individuals, a single O-linked glycan was observed in plasma, while two glycans (of the same type) per apoE were observed in CSF.
33564762	5	23	gly	O-glycosites	906:917	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.
32223173	5	1	gly	glycopeptide	827:838	arg2	a glycopeptide			a glycopeptide						glycopeptide	We use a linear modeling approach to learn the influence of the glycan composition on the retention time of a glycopeptide and use these models to validate glycopeptides within the same experiment, detecting over 400 incorrect cases during the MS/MS search and correcting 75 cases that could not be identified based on mass alone.
32223173	5	40	gly	glycopeptides	873:885	arg2	glycopeptides			glycopeptides						glycopeptides	We use a linear modeling approach to learn the influence of the glycan composition on the retention time of a glycopeptide and use these models to validate glycopeptides within the same experiment, detecting over 400 incorrect cases during the MS/MS search and correcting 75 cases that could not be identified based on mass alone.
34925381	5	54	gly	glycan-masking	1193:1206	arg1	Ad-S-R158N/Y160T	S			glycan-masking	PUBTATOR		S	Q15517		The use of glycan-masking in Ad-S-R158N/Y160T and Ad-S-D428N antigen design may help develop universal COVID-19 vaccines against current and future emerging SARS-CoV-2 variants.
34859056	9	54	gly	glycoprotein	1720:1731	arg1	glycoprotein glycan core structures				glycoprotein glycan core structures						While the basic biosynthetic pathway that initiates the production of glycoprotein glycan core structures is well-conserved across the teleost fish species examined in this study, species-specific structural differences were detected across the five organisms in terms of their monosaccharide composition, sialylation pattern, fucosylation, and degree of O-acetylation.
32088200	7	32	gly	polysialylation	1001:1015	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			Here, we developed a high-throughput LC-ESI-MS/MS glycoproteomics method to measure site-specific polysialylation of glycoproteins.
32088200	7	58	gly	glycoproteins	1020:1032	arg1	site-specific polysialylation	glycoproteins			site-specific polysialylation	Fterm		glycoproteins			Here, we developed a high-throughput LC-ESI-MS/MS glycoproteomics method to measure site-specific polysialylation of glycoproteins.
33750987	2	74	part_of	protein	368:374	arg1	immunogenic protein epitopes	protein		immunogenic protein epitopes		Fterm	Site	protein		epitopes	As the principal target of the immune response, the hemagglutinin (HA) surface antigen on influenza viruses continuously acquires and replaces N-linked glycosylation sites to shield immunogenic protein epitopes using host-derived glycans.
32066783	3	44	gly	glycoforms	595:604	arg1	PSA	PSA				PUBTATOR		PSA	354		In the present study, we analysed the glycans of PSA obtained from culture medium containing cancer tissue-originated spheroids (CTOS) which have similar characteristics as that of the parent tumour to explore the new candidates for cancer-related glycoforms of PSA.
32066783	3	50	gly	PSA	396:398	arg1	the glycans	PSA			the glycans	PUBTATOR		PSA	354		In the present study, we analysed the glycans of PSA obtained from culture medium containing cancer tissue-originated spheroids (CTOS) which have similar characteristics as that of the parent tumour to explore the new candidates for cancer-related glycoforms of PSA.
32005975	7	80	part_of	O-glycosites	1164:1175	arg1	EPHA2	EPHA2		O-glycosites		PUBTATOR	Site	EPHA2	1969	O-glycosites	O-glycans on EPHA2 were modified by C1GALT1 and both S277A and T429A mutants, which are O-glycosites on EPHA2, dramatically enhanced phosphorylation of Y588, suggesting that not only overall O-glycan structures but also site-specific O-glycosylation can regulate EPHA2 activity.
32106961	3	45	gly	sialylated	879:888	arg1	sialylated glycans				sialylated glycans						The isotopic label of fluorous compound on the reducing end of glycans acts as an enrichment tag and provides mass difference between neutral glycans from different samples, while the isotopic label on the non-reducing end of glycans protects the sialic acid residue and provides additional mass difference for sialylated glycans.
33077685	9	52	gly	N-glycosylation	1117:1131	arg2	each site			each site						site	Our study indicates that the S protein N-glycosylation occurs regularly at each site, albeit the occupied N-glycans were diverse and heterogenous.
32102878	10	18	gly	sugars	1700:1705	arg1	the envelope protein	protein			sugars	Fterm		protein			We discovered that the sugar fructose in semen decreases the activity of a broad and potent class of antiviral agents that target mannose sugars on the envelope protein of HIV-1.
32102970	6	3	gly	deglycopeptides	1266:1280	arg2	3328 unique N-linked deglycopeptides			3328 unique N-linked deglycopeptides						deglycopeptides	From N-linked deglycopeptides data sets, 764 N-linked glycoproteins, 1699 N-linked glycosites and 3328 unique N-linked deglycopeptides were identified.
32102970	6	41	gly	deglycopeptides	1161:1175	arg2	N-linked deglycopeptides data sets			N-linked deglycopeptides data sets						deglycopeptides	From N-linked deglycopeptides data sets, 764 N-linked glycoproteins, 1699 N-linked glycosites and 3328 unique N-linked deglycopeptides were identified.
32102970	6	92	gly	glycoproteins	1201:1213	arg1	764 N-linked glycoproteins	764 N-linked glycoproteins				Fterm		glycoproteins			From N-linked deglycopeptides data sets, 764 N-linked glycoproteins, 1699 N-linked glycosites and 3328 unique N-linked deglycopeptides were identified.
32102970	6	102	gly	glycosites	1230:1239	arg2	1699 N-linked glycosites			1699 N-linked glycosites						glycosites	From N-linked deglycopeptides data sets, 764 N-linked glycoproteins, 1699 N-linked glycosites and 3328 unique N-linked deglycopeptides were identified.
33901620	3	86	gly	epitopes	720:727	arg1	sialylation				sialylation						We have looked at the effects of a commonly used media supplements of manganese, galactose and uridine (MGU) on Mab production from CHO and NS0 cells in enhancing galactosylation and sialylation as well as the generation of these non-human glycan epitopes.
33901620	3	109	gly	sialylation	656:666	arg1	these non-human glycan epitopes			these non-human glycan epitopes							We have looked at the effects of a commonly used media supplements of manganese, galactose and uridine (MGU) on Mab production from CHO and NS0 cells in enhancing galactosylation and sialylation as well as the generation of these non-human glycan epitopes.
34859056	6	100	gly	glycoproteins	1010:1022	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			This biofluid is a useful starting point for glycomic analysis because it is rich in glycoproteins, can be acquired in a sustainable fashion, and its contents reflect dynamic physiologic changes in the organism.
32049016	2	1	gly	carbohydrate	366:377	arg1	Env	Env			carbohydrate	PUBTATOR		Env	100616444		Until now, the dogma has been that HIV-1 lacks O-linked carbohydrate on Env.
33065988	2	65	gly	attached	280:287	arg1	tryptic peptides AND chromatographically separating glycans			tryptic peptides	chromatographically separating glycans					peptides	However, chromatographically separating glycans attached to tryptic peptides enables their site-specific characterization.
33734311	2	9	gly	moiety	353:358	arg1	the Man-α1,3-Man arm			the Man-α1,3-Man arm	the Man-α1,3-Man arm						Previous studies using free N-glycans as acceptor substrates indicated that a terminal β1,2-GlcNAc moiety on the Man-α1,3-Man arm of N-glycan substrates is required for efficient FUT8-catalyzed core-fucosylation.
31915280	6	15	part_of	DPM1	1062:1065	arg1	the DXD motif	DPM1		the DXD motif		PUBTATOR	Site	DPM1	8813	motif	Mutation in the DXD motif of DPM1, which is essential for its catalytic activity, abolished DPMS-mediated DENV infection.
33871970	6	69	gly	glycopeptide	985:996	arg2	Released glycan and glycopeptide analysis			Released glycan and glycopeptide analysis						glycopeptide	Released glycan and glycopeptide analysis were integrated with intact mass analysis, glycan-enzymatic dissection, and top-down sequencing for comprehensive annotation of RBD proteoforms.
33300874	1	44	gly	N-glycosylated	162:175	arg1	N-glycosylated proteins	N-glycosylated proteins				Fterm		proteins			For the unicellular alga Chlamydomonas reinhardtii, the presence of N-glycosylated proteins on the surface of two flagella is crucial for both cell-cell interaction during mating and flagellar surface adhesion.
34342671	5	36	gly	released	900:907	arg1	other glycoproteins AND N-glycans	other glycoproteins			N-glycans	Fterm		glycoproteins			In addition to [M + adduct]- ions (this paper uses phosphate as the adduct) other doubly, triply, and quadruply charged ions of composition [Mn + (H2PO4)n]n- have been observed in mixtures of N-glycans released from viral and other glycoproteins.
34342671	5	50	gly	glycoproteins	930:942	arg1	other glycoproteins	other glycoproteins				Fterm		glycoproteins			In addition to [M + adduct]- ions (this paper uses phosphate as the adduct) other doubly, triply, and quadruply charged ions of composition [Mn + (H2PO4)n]n- have been observed in mixtures of N-glycans released from viral and other glycoproteins.
33077685	7	45	gly	glycosites	970:979	arg2	the glycosites'			the glycosites'						glycosites	Our results revealed that the glycan types were highly determined by the differential processing of N-glycans among human and insect cells, regardless of the glycosites' location.
33712146	7	48	gly	residues	984:991	arg1	HG domain			HG domain	HG domain		Site			domain	Furthermore, the presence of blocks of non-esterified GalA residues and partly methyl-esterified and acetylated GalA residues in HG domain was demonstrated.
33712146	7	56	gly	residues	926:933	arg1	HG domain			HG domain	HG domain		Site			domain	Furthermore, the presence of blocks of non-esterified GalA residues and partly methyl-esterified and acetylated GalA residues in HG domain was demonstrated.
32898175	4	12	part_of	contained	805:813	arg1	132 proteins AND putative O-linked glycosylation sites	132 proteins		putative O-linked glycosylation sites		Cterm	Site	132 proteins	16183	sites	The proteomic analysis identified 618 proteins, 121 of which contained putative N-linked glycosylation sites while 132 proteins contained putative O-linked glycosylation sites.
32898175	4	31	part_of	contained	738:746	arg1	618 proteins AND putative N-linked glycosylation sites	618 proteins		putative N-linked glycosylation sites		Cterm	Site	618 proteins	16183	sites	The proteomic analysis identified 618 proteins, 121 of which contained putative N-linked glycosylation sites while 132 proteins contained putative O-linked glycosylation sites.
33065977	5	23	part_of	protein	889:895	arg1	plasma protein N-glycome composition	protein		plasma protein N-glycome composition		Fterm	Site	protein		position	Significant changes in plasma protein N-glycome composition were observed for antennary fucosylated, tri- and tetrasialylated, tri- and tetragalactosylated, high-branched N-glycans (p-value range 1.66 × 10-2-4.28 × 10-2).
33065977	5	57	part_of	N-glycome	897:905	arg1	plasma protein N-glycome composition	N-glycome		plasma protein N-glycome composition		Cterm	Site	N-glycome		position	Significant changes in plasma protein N-glycome composition were observed for antennary fucosylated, tri- and tetrasialylated, tri- and tetragalactosylated, high-branched N-glycans (p-value range 1.66 × 10-2-4.28 × 10-2).
33591717	5	33	part_of	subunit	996:1002	arg1	the C-3 position	subunit		the C-3 position		Fterm	Site	subunit		position	Recently, an alternative WTA glycosyltransferase, TarP, was identified, which also modifies WTA with β-GlcNAc but at the C-3 position (β1,3-GlcNAc) of the WTA ribitol phosphate (RboP) subunit.
33127550	0	36	gly	O-glycosylation	10:24	arg1	the variable domain			the variable domain						domain	Effect of O-glycosylation on amyloid fibril formation of the variable domain in the Vλ6 light chain mutant Wil.
31949166	6	29	part_of	has	790:792	arg1	FKRP AND C-terminal catalytic domains	FKRP		C-terminal catalytic domains		PUBTATOR	Site	FKRP	79147	domains	FKRP has N-terminal stem and C-terminal catalytic domains, and forms a tetramer both in crystal and in solution.
34355537	7	74	gly	sialylated	1159:1168	arg1	sialylated and asialo mAb1	sialylated and asialo mAb1				Cterm		mAb1	P01857		The ADCC analysis of sialylated and asialo mAb1 provided herein shows evidence that sialic acids have little or no impact on ADCC activity.
32109354	6	38	gly	glycopeptide	1248:1259	arg2	the glycopeptide			the glycopeptide						glycopeptide	Our results indicate that, with our glycopeptide immunogens, standard bolus immunization elicited the strongest HIV Env-binding antibody response, even though higher overall titers to the glycopeptide were elicited by the exponential and pump regimens.
32109354	6	47	gly	glycopeptide	1096:1107	arg2	glycopeptide			glycopeptide						glycopeptide	Our results indicate that, with our glycopeptide immunogens, standard bolus immunization elicited the strongest HIV Env-binding antibody response, even though higher overall titers to the glycopeptide were elicited by the exponential and pump regimens.
34582712	3	5	gly	glycosylated	398:409	arg1	The α-DG subunit	The α-DG subunit				Cterm		DG subunit	Q14118		The α-DG subunit is extensively glycosylated in sequential steps by several specific enzymes and employs such glycan scaffold to tightly bind basement membrane molecules.
34786539	1	0	gly	Glycosylation	91:103	arg1	severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) spike glycoprotein	severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) spike glycoprotein				Fterm		glycoprotein			Glycosylation of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) spike glycoprotein mediates viral entry and immune escape.
34786539	1	60	gly	glycoprotein	175:186	arg1	severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) spike glycoprotein	severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) spike glycoprotein				Fterm		glycoprotein			Glycosylation of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) spike glycoprotein mediates viral entry and immune escape.
34925422	10	26	gly	N-glycoproteins	1477:1491	arg1	these N-glycoproteins	these N-glycoproteins				Fterm		N-glycoproteins			The results obtained from this study facilitate the elucidation of the precise function of these N-glycoproteins and are beneficial for future designing the microalga to produce the functional humanized biopharmaceutical N-glycoproteins for the clinical therapeutics.
34925422	10	73	gly	N-glycoproteins	1601:1615	arg1	the functional humanized biopharmaceutical N-glycoproteins	the functional humanized biopharmaceutical N-glycoproteins				Fterm		N-glycoproteins			The results obtained from this study facilitate the elucidation of the precise function of these N-glycoproteins and are beneficial for future designing the microalga to produce the functional humanized biopharmaceutical N-glycoproteins for the clinical therapeutics.
34893224	4	34	gly	glycoprotein	538:549	arg1	OPS-based glycoprotein	OPS-based glycoprotein				Fterm		glycoprotein			Specifically, OPS and OPS-based glycoprotein were synthesized in glyco-optimized chassis strain, when compared to the unmeasurable level of the parent strain.
34231555	2	23	gly	position	367:374	arg1	the Man α1-6 arm			the Man α1-6 arm	the Man α1-6 arm						Recent studies have demonstrated that glycan isomers with the terminal galactose position on either the Man α1-3 arm or the Man α1-6 arm have an impact on the effector functions and dynamic structure of mAbs.
34231555	2	23	gly	position	367:374	arg1	the Man α1-3 arm			the Man α1-3 arm	the Man α1-3 arm						Recent studies have demonstrated that glycan isomers with the terminal galactose position on either the Man α1-3 arm or the Man α1-6 arm have an impact on the effector functions and dynamic structure of mAbs.
32929138	5	38	part_of	ACE2	1134:1137	arg1	the ACE2 receptor binding domain	ACE2		the ACE2 receptor binding domain		PUBTATOR	Site	ACE2	59272	domain	The 3D structures show that the protein surface is extensively shielded from antibody recognition by glycans, with the notable exception of the ACE2 receptor binding domain, and also that the degree of shielding is largely insensitive to the specific glycoform.
34485242	0	34	gly	O-Glycosylation	16:30	arg1	HKU1 Spike Protein	HKU1 Spike Protein				Fterm		Protein			Deciphering the O-Glycosylation of HKU1 Spike Protein With the Dual-Functional Hydrophilic Interaction Chromatography Materials.
33766368	1	44	gly	utilized	303:310	arg2	Marine green algae biomass residue			Marine green algae biomass residue						residue	Marine green algae biomass residue (ABR), a waste by-product of Dunaliella tertiolecta, left behind after the extraction of oil from the algal biomass, was utilized for the fabrication of cellulose nanocrystals (CNCs).
33547931	1	1	gly	glycoproteins	276:288	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			CRISPR/Cas9-mediated OsXylT and OsFucT mutation caused the elimination of plant-specific β1,2-xylose and α1,3-fucose residues on glycoproteins in rice, which is the first report of OsXylT/OsFucT double KO mutation in rice.
34611825	10	81	gly	N-glycosylation	1466:1480	arg2	four N-glycosylation sites			four N-glycosylation sites						sites	In silico analysis characterized RbL protein as acidic, stable, hydrophobic, and secretary protein with one signal peptide cleavage site (A26-A27) and four N-glycosylation sites.
34000456	4	85	gly	glycoproteins	601:613	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			In this study, an integrated strategy with a combination of transcriptomics, proteomics, glycomics and glycoproteomics was applied to explore the dysregulation of glycogenes, glycan structures and glycoproteins in chemoresistance of breast cancer cells.
34925381	2	38	gly	domain	444:449	arg1	glycan-masking mutants			domain	glycan-masking mutants					domain	This study examined the impact of glycan-masking mutants of the N-terminal domain (NTD) and receptor-binding domain (RBD) of SARS-CoV-2, and found that the antigenic design of the S protein increases the neutralizing antibody titers against the Wuhan-Hu-1 ancestral strain and the recently emerged SARS-CoV-2 variants Alpha (B.1.1.7), Beta (B.1.351), and Delta (B.1.617.2).
34925381	2	44	gly	domain	478:483	arg1	glycan-masking mutants			domain	glycan-masking mutants					domain	This study examined the impact of glycan-masking mutants of the N-terminal domain (NTD) and receptor-binding domain (RBD) of SARS-CoV-2, and found that the antigenic design of the S protein increases the neutralizing antibody titers against the Wuhan-Hu-1 ancestral strain and the recently emerged SARS-CoV-2 variants Alpha (B.1.1.7), Beta (B.1.351), and Delta (B.1.617.2).
33631789	4	74	gly	glycosylation	561:573	arg1	the Fc-fragment	the Fc-fragment				Fterm		Fc-fragment			We investigated whether specific glycosylation patterns of the Fc-fragment would affect the immunogenicity of anti-TNF-alpha antibody in monocyte-derived dendritic cells.
34067878	10	85	gly	glycan	1460:1465	arg1	Asn90			Asn90	Asn90		AminoAcid			Asn90	Furthermore, our simulations reveal how the glycan on Asn90 of ACE2 can play a distinct role in the binding and unbinding of RBD.
33661628	6	48	gly	glycosylated	1257:1268	arg1	FcγRIIIa	FcγRIIIa				PUBTATOR		FcγRIIIa	2214		We then discuss the effects of a protein surface on their structural equilibria based on over 4 μs cumulative MD sampling of the fully glycosylated CD16a Fc γ receptor (FcγRIIIa), where the type of glycosylation is known to modulate its binding affinity for IgG1s, regulating the antibody-dependent cellular cytotoxicity (ADCC).
33661628	6	48	gly	glycosylated	1257:1268	arg1	the fully glycosylated CD16a Fc γ receptor	the fully glycosylated CD16a Fc γ receptor				PUBTATOR		CD16a Fc γ receptor	2214		We then discuss the effects of a protein surface on their structural equilibria based on over 4 μs cumulative MD sampling of the fully glycosylated CD16a Fc γ receptor (FcγRIIIa), where the type of glycosylation is known to modulate its binding affinity for IgG1s, regulating the antibody-dependent cellular cytotoxicity (ADCC).
33157282	8	37	gly	glycoprotein	1500:1511	arg1	the glycoprotein	the glycoprotein				Fterm		glycoprotein			The results confirmed that successful modification of the goat mammary gland secretion pathway could be achieved by co-expressing glycoenzymes together with the glycoprotein of interest.
32205858	1	26	gly	glycoprotein	84:95	arg1	Glycodelin	Glycodelin				PUBTATOR		Glycodelin	5047		Glycodelin is a major glycoprotein expressed in reproductive tissues, like secretory and decidualized endometrium.
32205858	1	26	gly	glycoprotein	84:95	arg1	a major glycoprotein	a major glycoprotein				Fterm		glycoprotein	43565		Glycodelin is a major glycoprotein expressed in reproductive tissues, like secretory and decidualized endometrium.
32339582	4	68	gly	α-amylase	731:739	arg1	The glucose adsorption capacity	-amylase			The glucose adsorption capacity	PUBTATOR		-amylase	100792499		The glucose adsorption capacity, glucose dialysis retardation index and the α-amylase activity inhibition ration of soybean soluble polysaccharides increased significantly, promotes intestinal flora growth in vitro after fermentation of mixed bacteria and microwave treatment.
33142651	5	46	gly	regions	886:892	arg1	1,4-linked α-d-galacturonic acid residues			regions	1,4-linked α-d-galacturonic acid residues					regions	Monosaccharide composition and methylation analysis confirmed that both WSP-p and WSP-n were pectic polysaccharides, containing rhamnogalacturonan-I-type polysaccharides with 1,4-linked α-d-galacturonic acid residues and homogalacturonan regions with 1,4-GalpA linkages.
32025672	0	16	gly	glycosylated	58:69	arg1	glycosylated soybean proteins	glycosylated soybean proteins				Fterm		proteins			Effects of irradiation on the structure and properties of glycosylated soybean proteins.
32155332	6	70	gly	O-glycosylation	1344:1358	arg1	TTX motifs			motifs						motifs	An antiadhesive microarray displaying synthetic MUC2 derivatives elicited the presence of natural autoantibodies to MUC2 with impaired O-glycosylation at TTX motifs in sera of healthy volunteers and patients diagnosed with early stage colorectal cancer (CRC).
32066783	0	52	gly	glycosylation	9:21	arg1	prostate-specific antigen	prostate-specific antigen				PUBTATOR		prostate-specific antigen	354		Study of glycosylation of prostate-specific antigen secreted by cancer tissue-originated spheroids reveals new candidates for prostate cancer detection.
33937925	10	116	gly	glycosylation	1942:1954	arg2	more partially (<95%) occupied glycosylation sites			more partially (<95%) occupied glycosylation sites						sites	KEY POINTS: • For the H3N2 and B strains, MDCK-derived HAs contained more partially (<95%) occupied glycosylation sites.
32929138	3	28	gly	glycoprotein	679:690	arg1	the S glycoprotein	the S glycoprotein				Cterm		S glycoprotein	43740568		These models were subjected to molecular dynamics (MD) simulation to determine the extent to which glycan microheterogeneity impacts the antigenicity of the S glycoprotein.
32126781	3	3	gly	peptide	558:564	arg1	the monosaccharide connectivity			peptide	the monosaccharide connectivity					peptide	The end goal of such measurements is to determine the monosaccharide connectivity of the glycan, the amino acid sequence of the peptide, and the site of glycosylation for each glycopeptide of interest.
32126781	3	3	gly	peptide	558:564	arg1	the glycan			peptide	the glycan					peptide	The end goal of such measurements is to determine the monosaccharide connectivity of the glycan, the amino acid sequence of the peptide, and the site of glycosylation for each glycopeptide of interest.
32126781	3	68	gly	glycopeptide	606:617	arg2	each glycopeptide			each glycopeptide						glycopeptide	The end goal of such measurements is to determine the monosaccharide connectivity of the glycan, the amino acid sequence of the peptide, and the site of glycosylation for each glycopeptide of interest.
32126781	3	80	gly	glycosylation	583:595	arg2	the site			the site						site	The end goal of such measurements is to determine the monosaccharide connectivity of the glycan, the amino acid sequence of the peptide, and the site of glycosylation for each glycopeptide of interest.
32126781	3	80	gly	glycosylation	583:595	arg2	the peptide			the peptide						peptide	The end goal of such measurements is to determine the monosaccharide connectivity of the glycan, the amino acid sequence of the peptide, and the site of glycosylation for each glycopeptide of interest.
34122956	6	37	gly	O-glycosylation	1672:1686	arg1	immunodominant mucin domains			domains						domains	We demonstrate that this method accelerates dramatically the development of a new class of designated antibodies targeting a variety of "dynamic neoepitopes" elaborated by disease-specific O-glycosylation in the immunodominant mucin domains and mucin-like sequences found in intrinsically disordered regions of many proteins.
34122956	6	37	gly	O-glycosylation	1672:1686	arg1	mucin-like sequences			sequences						sequences	We demonstrate that this method accelerates dramatically the development of a new class of designated antibodies targeting a variety of "dynamic neoepitopes" elaborated by disease-specific O-glycosylation in the immunodominant mucin domains and mucin-like sequences found in intrinsically disordered regions of many proteins.
33157282	1	81	gly	glycoproteins	90:102	arg1	Complex recombinant glycoproteins	Complex recombinant glycoproteins				Fterm		glycoproteins			Complex recombinant glycoproteins produced as potential biopharmaceuticals in goat's milk have an aberrant pattern of N-glycosylation due to the lack of multi-antennary structures.
34189908	5	64	gly	glycoprotein	793:804	arg1	a new glycoprotein synthesis method	a new glycoprotein synthesis method				Fterm		glycoprotein			This efficient coupling reaction enabled us to develop a new glycoprotein synthesis method, such as the bifunctional thioacid-mediated strategy, which can couple two peptides with the N- and C-termini of glycosyl asparagine thioacid.
34083726	1	1	gly	sialylated	185:194	arg1	O-glycans				O-glycans						The terminal galactose residues of N- and O-glycans in animal glycoproteins are often sialylated and/or fucosylated, but sulfation, such as 3-O-sulfated galactose (3-O-SGal), represents an additional, but poorly understood modification.
34083726	1	1	gly	sialylated	185:194	arg1	N-				N-						The terminal galactose residues of N- and O-glycans in animal glycoproteins are often sialylated and/or fucosylated, but sulfation, such as 3-O-sulfated galactose (3-O-SGal), represents an additional, but poorly understood modification.
34083726	1	1	gly	sialylated	185:194	arg1	The terminal galactose residues				The terminal galactose residues						The terminal galactose residues of N- and O-glycans in animal glycoproteins are often sialylated and/or fucosylated, but sulfation, such as 3-O-sulfated galactose (3-O-SGal), represents an additional, but poorly understood modification.
34083726	1	21	gly	O-glycans	141:149	arg1	animal glycoproteins	glycoproteins			O-glycans	Fterm		glycoproteins			The terminal galactose residues of N- and O-glycans in animal glycoproteins are often sialylated and/or fucosylated, but sulfation, such as 3-O-sulfated galactose (3-O-SGal), represents an additional, but poorly understood modification.
34083726	1	27	gly	N-	134:135	arg1	animal glycoproteins	glycoproteins			N-	Fterm		glycoproteins			The terminal galactose residues of N- and O-glycans in animal glycoproteins are often sialylated and/or fucosylated, but sulfation, such as 3-O-sulfated galactose (3-O-SGal), represents an additional, but poorly understood modification.
34083726	1	53	gly	residues	122:129	arg1	animal glycoproteins	glycoproteins			residues	Fterm		glycoproteins			The terminal galactose residues of N- and O-glycans in animal glycoproteins are often sialylated and/or fucosylated, but sulfation, such as 3-O-sulfated galactose (3-O-SGal), represents an additional, but poorly understood modification.
34083726	1	54	gly	glycoproteins	161:173	arg1	animal glycoproteins	glycoproteins			O-glycans	Fterm		glycoproteins			The terminal galactose residues of N- and O-glycans in animal glycoproteins are often sialylated and/or fucosylated, but sulfation, such as 3-O-sulfated galactose (3-O-SGal), represents an additional, but poorly understood modification.
34083726	1	54	gly	glycoproteins	161:173	arg1	animal glycoproteins	glycoproteins			N-	Fterm		glycoproteins			The terminal galactose residues of N- and O-glycans in animal glycoproteins are often sialylated and/or fucosylated, but sulfation, such as 3-O-sulfated galactose (3-O-SGal), represents an additional, but poorly understood modification.
34083726	1	54	gly	glycoproteins	161:173	arg1	animal glycoproteins	glycoproteins			The terminal galactose residues	Fterm		glycoproteins			The terminal galactose residues of N- and O-glycans in animal glycoproteins are often sialylated and/or fucosylated, but sulfation, such as 3-O-sulfated galactose (3-O-SGal), represents an additional, but poorly understood modification.
34122956	3	38	gly	glycopeptides	799:811	arg2	homogeneous synthetic MUC1 glycopeptides			homogeneous synthetic MUC1 glycopeptides						glycopeptides	Here we present a general strategy that allows for the creation of antibodies interacting specifically with glycopeptidic neoepitopes by using homogeneous synthetic MUC1 glycopeptides designed for the streamlined process of immunization, antibody screening, three-dimensional structure analysis, epitope mapping and biochemical analysis.
35178379	0	75	part_of	Receptor-Binding	28:43	arg1	the Receptor-Binding Domain	Receptor-Binding		the Receptor-Binding Domain		Cterm		Receptor-Binding			In Planta Production of the Receptor-Binding Domain From SARS-CoV-2 With Human Blood Group A Glycan Structures.
34101384	10	54	gly	glycoprotein	1915:1926	arg1	glycoprotein structures	glycoprotein structures				Fterm		glycoprotein			Basic Protocol 1: Preparing the NanoMonitor surface for glycan biosensing Support Protocol: Synthesis of glycoform variants of fetuin Basic Protocol 2: Performing Electrochemical Impedance Spectroscopy (EIS) for analyzing glycoprotein structures.
34000456	9	40	gly	glycoproteins	1531:1543	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			Systematically integrative multi-omic analysis is expected to facilitate the discovery of the aberrant glycosyltransferases, N-glycosylation and glycoproteins in tumor progression and chemoresistance.
34067878	10	12	part_of	ACE2	1479:1482	arg1	Asn90	ACE2		Asn90		PUBTATOR	AminoAcid	ACE2	Q9BYF1	Asn90	Furthermore, our simulations reveal how the glycan on Asn90 of ACE2 can play a distinct role in the binding and unbinding of RBD.
32535667	2	47	gly	glycosylation	484:496	arg2	glycosylation site			glycosylation site						site	Herein, different conjugation methods were investigated with the aim of controlling glycosylation site and glycosylation density on the carrier protein.
32568312	0	126	gly	glycopeptide	36:47	arg2	N-linked intact glycopeptide signatures			N-linked intact glycopeptide signatures						glycopeptide	Characterization of N-linked intact glycopeptide signatures of plasma IgGs from patients with prostate carcinoma and benign prostatic hyperplasia for diagnosis pre-stratification.
33091476	3	19	part_of	strain	568:573	arg1	The compositions	strain		The compositions		Fterm	Site	strain		positions	The compositions of monosaccharides (mannose, glucuronic acid and galactose) in the purified EPS (U9-EPS) from the U9 strain contained 3.79:1:5.52 while those in the purified EPS (V19-EPS) were 3.94:1:6.29.
33091476	3	29	part_of	compositions	454:465	arg1	the U9 strain	strain		compositions		Fterm	Site	strain		positions	The compositions of monosaccharides (mannose, glucuronic acid and galactose) in the purified EPS (U9-EPS) from the U9 strain contained 3.79:1:5.52 while those in the purified EPS (V19-EPS) were 3.94:1:6.29.
32423029	3	35	gly	glycans	573:579	arg1	NOTCH2	NOTCH2			glycans	PUBTATOR		NOTCH2	4853		Here, we analyzed O-Glc glycans on NOTCH1 and NOTCH2 expressed in HEK293T cells using an Orbitrap Fusion mass spectrometer and successfully revealed the structures and stoichiometries of all 17 EGF repeats of NOTCH1 with the O-Glc consensus sequence (C1-X-S-X-(P/A)-C2), and 16 out of 17 EGF repeats of NOTCH2 with the same consensus sequence.
32423029	3	35	gly	glycans	573:579	arg1	NOTCH1	NOTCH1			glycans	PUBTATOR		NOTCH1	4851		Here, we analyzed O-Glc glycans on NOTCH1 and NOTCH2 expressed in HEK293T cells using an Orbitrap Fusion mass spectrometer and successfully revealed the structures and stoichiometries of all 17 EGF repeats of NOTCH1 with the O-Glc consensus sequence (C1-X-S-X-(P/A)-C2), and 16 out of 17 EGF repeats of NOTCH2 with the same consensus sequence.
32423029	3	67	gly	NOTCH1	758:763	arg1	all 17 EGF repeats	NOTCH1			all 17 EGF repeats	PUBTATOR		NOTCH1	4851		Here, we analyzed O-Glc glycans on NOTCH1 and NOTCH2 expressed in HEK293T cells using an Orbitrap Fusion mass spectrometer and successfully revealed the structures and stoichiometries of all 17 EGF repeats of NOTCH1 with the O-Glc consensus sequence (C1-X-S-X-(P/A)-C2), and 16 out of 17 EGF repeats of NOTCH2 with the same consensus sequence.
32423029	3	67	gly	NOTCH1	758:763	arg1	16 out of 17 EGF repeats	NOTCH1			16 out of 17 EGF repeats	PUBTATOR		NOTCH1	4851		Here, we analyzed O-Glc glycans on NOTCH1 and NOTCH2 expressed in HEK293T cells using an Orbitrap Fusion mass spectrometer and successfully revealed the structures and stoichiometries of all 17 EGF repeats of NOTCH1 with the O-Glc consensus sequence (C1-X-S-X-(P/A)-C2), and 16 out of 17 EGF repeats of NOTCH2 with the same consensus sequence.
32423029	3	72	gly	NOTCH1	758:763	arg1	the O-Glc consensus sequence	NOTCH1			the O-Glc consensus sequence	PUBTATOR		NOTCH1	4851		Here, we analyzed O-Glc glycans on NOTCH1 and NOTCH2 expressed in HEK293T cells using an Orbitrap Fusion mass spectrometer and successfully revealed the structures and stoichiometries of all 17 EGF repeats of NOTCH1 with the O-Glc consensus sequence (C1-X-S-X-(P/A)-C2), and 16 out of 17 EGF repeats of NOTCH2 with the same consensus sequence.
32423029	3	95	gly	NOTCH2	852:857	arg1	all 17 EGF repeats	NOTCH2			all 17 EGF repeats	PUBTATOR		NOTCH2	4853		Here, we analyzed O-Glc glycans on NOTCH1 and NOTCH2 expressed in HEK293T cells using an Orbitrap Fusion mass spectrometer and successfully revealed the structures and stoichiometries of all 17 EGF repeats of NOTCH1 with the O-Glc consensus sequence (C1-X-S-X-(P/A)-C2), and 16 out of 17 EGF repeats of NOTCH2 with the same consensus sequence.
32423029	3	95	gly	NOTCH2	852:857	arg1	16 out of 17 EGF repeats	NOTCH2			16 out of 17 EGF repeats	PUBTATOR		NOTCH2	4853		Here, we analyzed O-Glc glycans on NOTCH1 and NOTCH2 expressed in HEK293T cells using an Orbitrap Fusion mass spectrometer and successfully revealed the structures and stoichiometries of all 17 EGF repeats of NOTCH1 with the O-Glc consensus sequence (C1-X-S-X-(P/A)-C2), and 16 out of 17 EGF repeats of NOTCH2 with the same consensus sequence.
32149324	5	0	gly	sialylated	905:914	arg1	the observed glycan compositions				the observed glycan compositions						Capillary electrophoresis was particularly useful in identifying charged glycans; over 40% of the observed glycan compositions were sialylated.
34143599	9	0	gly	glycosylation	1591:1603	arg1	protein structure	protein structure				Fterm		protein			This imaging technique provides a powerful platform for studying the effects of glycosylation on the protein structure and function, which helps to elucidate its role in disease processes.
33076454	8	8	gly	sialylated	1221:1230	arg1	sialylated structures				sialylated structures						Defects in proteins involved in Golgi trafficking (COG5-CDG) and CMP-sialic acid transport (SLC35A1-CDG) resulted in lower levels of sialylated structures on plasma proteins as compared to healthy controls.
33076454	8	63	gly	structures	1232:1241	arg1	plasma proteins	proteins			structures	Fterm		proteins			Defects in proteins involved in Golgi trafficking (COG5-CDG) and CMP-sialic acid transport (SLC35A1-CDG) resulted in lower levels of sialylated structures on plasma proteins as compared to healthy controls.
32427862	0	16	gly	contain	46:52	arg1	Arabinogalactan-proteins AND unique glycan structures	Arabinogalactan-proteins			unique glycan structures	Fterm		Arabinogalactan-proteins			Arabinogalactan-proteins of Zostera marina L. contain unique glycan structures and provide insight into adaption processes to saline environments.
33772592	7	2	gly	glycosylated	944:955	arg1	The purified glycosylated CH2 domain			The purified glycosylated CH2 domain						domain	The purified glycosylated CH2 domain elicited polyclonal antibodies in mouse, recognizing not only the CH2 domain, but also recombinant human Fc and the commercial IgG1 antibody Rituxan.
34523784	2	53	gly	EPO	242:244	arg1	carbohydrate-dependent	EPO			carbohydrate-dependent	PUBTATOR		EPO	2056		The in-vivo activity of EPO is carbohydrate-dependent with the number of sialic acid residues regulating its circulatory half-life.
34051603	3	33	gly	β-Galp-	635:641	arg1	monosaccharide residues	Galp			monosaccharide residues	OGER		Galp	Q9UBC7		In addition, a small part of the main chain carries monosaccharide residues of β-Galp-(1→ in position C-2.
32306337	3	26	part_of	have	408:411	arg1	CRT AND similar N-terminal luminal domains	CRT		similar N-terminal luminal domains		Cterm	Site	CRT	P27797	domains	CNX and CRT have similar N-terminal luminal domains and share the same jelly roll tertiary structure as legume lectins.
32306337	3	26	part_of	have	408:411	arg1	CNX AND similar N-terminal luminal domains	CNX		similar N-terminal luminal domains		Cterm	Site	CNX	P27824	domains	CNX and CRT have similar N-terminal luminal domains and share the same jelly roll tertiary structure as legume lectins.
34633372	0	20	gly	Glycoproteins	22:34	arg1	N-glycan Profiling	proteins			N-glycan Profiling	Fterm		proteins			N-glycan Profiling of Glycoproteins by Hydrophilic Interaction Liquid Chromatography with Fluorescence and Mass Spectrometric Detection.
32817216	8	92	gly	trimers	2037:2043	arg1	noncomplexed trimers.IMPORTANCE Soluble forms	trimers			noncomplexed trimers.IMPORTANCE Soluble forms	Fterm		trimers			These results demonstrated that stabilization of Env trimer conformation with BMS-529 improved the immunogenicity of select chimeric SOSIP trimers and elicited tier 2 neutralizing antibodies of higher potency than noncomplexed trimers.IMPORTANCE Soluble forms of HIV-1 envelope trimers exhibit conformational heterogeneity and undergo CD4-induced (CD4i) exposure of epitopes of non-neutralizing antibodies that can potentially hinder induction of broad neutralizing antibody responses.
32535667	2	4	part_of	site	498:501	arg1	the carrier protein	protein		site		Fterm	Site	protein		site	Herein, different conjugation methods were investigated with the aim of controlling glycosylation site and glycosylation density on the carrier protein.
34127537	10	86	gly	glycopeptides	1396:1408	arg2	glycopeptides			glycopeptides						glycopeptides	Finally, glycopeptides were a better predictor of IgAN and glomerular function than galactose-deficient IgA1 levels measured by lectin-based ELISA.
34069622	4	3	part_of	CS	1046:1047	arg1	the thermal decomposition	CS		the thermal decomposition		PUBTATOR	Site	CS	1431	position	Thermogravimetric analysis of the CS/SEC film registers a high-temperature peak associated with the thermal decomposition of crystalline CS in the PEC composition.
33564762	4	54	gly	entities	768:775	arg1	human cell-produced ectodomains			human cell-produced ectodomains						ectodomains	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).
33564762	4	66	gly	glycosylation	729:741	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).
34015330	10	25	gly	proteins	1399:1406	arg1	sialylation	proteins			sialylation	Fterm		proteins			When we restricted the binding site of SLC35A1 by introducing the bulky residues present in SLC35A4, the mutant transporter was unable to support sialylation of proteins in cells but still supported ribitol phosphorylation.
34015330	10	42	gly	sialylation	1384:1394	arg1	proteins	proteins				Fterm		proteins			When we restricted the binding site of SLC35A1 by introducing the bulky residues present in SLC35A4, the mutant transporter was unable to support sialylation of proteins in cells but still supported ribitol phosphorylation.
32678978	4	13	part_of	SARS-CoV-2	861:870	arg1	its docking site	Both SARS		its docking site		OGER	Site	Both SARS	P49591	site	Both SARS-CoV-2 spike protein (S-protein), a critical element of the viral entry to the host cell, and ACE2, its docking site on the host cell surface, are extensively glycosylated, making them challenging targets for native MS. However, supplementing native MS with a gas-phase ion manipulation technique (limited charge reduction) allows meaningful information to be obtained on the noncovalent complexes formed by ACE2 and the receptor-binding domain (RBD) of the S-protein.
32678978	4	48	part_of	S-protein	1323:1331	arg1	the receptor-binding domain	S-protein		the receptor-binding domain		PUBTATOR	Site	S-protein	7448	domain	Both SARS-CoV-2 spike protein (S-protein), a critical element of the viral entry to the host cell, and ACE2, its docking site on the host cell surface, are extensively glycosylated, making them challenging targets for native MS. However, supplementing native MS with a gas-phase ion manipulation technique (limited charge reduction) allows meaningful information to be obtained on the noncovalent complexes formed by ACE2 and the receptor-binding domain (RBD) of the S-protein.
32678978	4	89	part_of	receptor-binding	1286:1301	arg1	the receptor-binding domain	receptor		the receptor-binding domain		Fterm	Site	receptor		domain	Both SARS-CoV-2 spike protein (S-protein), a critical element of the viral entry to the host cell, and ACE2, its docking site on the host cell surface, are extensively glycosylated, making them challenging targets for native MS. However, supplementing native MS with a gas-phase ion manipulation technique (limited charge reduction) allows meaningful information to be obtained on the noncovalent complexes formed by ACE2 and the receptor-binding domain (RBD) of the S-protein.
32678978	4	91	part_of	spike	872:876	arg1	its docking site	spike protein		its docking site		PUBTATOR	Site	spike protein	43740568	site	Both SARS-CoV-2 spike protein (S-protein), a critical element of the viral entry to the host cell, and ACE2, its docking site on the host cell surface, are extensively glycosylated, making them challenging targets for native MS. However, supplementing native MS with a gas-phase ion manipulation technique (limited charge reduction) allows meaningful information to be obtained on the noncovalent complexes formed by ACE2 and the receptor-binding domain (RBD) of the S-protein.
32109354	2	25	part_of	HMP	391:393	arg1	evolved HMP mimic glycopeptides	HMP		evolved HMP mimic glycopeptides		OGER	Site	HMP	Q16891	glycopeptides	In our previous efforts, vaccinating rabbits with evolved HMP mimic glycopeptides containing Man9 resulted in an overall antibody response targeting the glycan core and linker rather than the full glycan or Manα1→2Man tips of Man9 glycans.
35178379	2	61	gly	glycosylated	242:253	arg1	The SARS-CoV-2 spike protein	The SARS-CoV-2 spike protein				PUBTATOR		spike protein	43740568		The SARS-CoV-2 spike protein is heavily glycosylated and host-derived glycan modifications contribute to the formation of specific immunogenic epitopes, enhance the virus-cell interaction or affect virus transmission.
32902264	9	90	gly	N-glycoproteins	1433:1447	arg1	α-galactosyl N-glycoproteins	α-galactosyl N-glycoproteins				Fterm		N-glycoproteins			Using this method, we could screen for α-galactosyl N-glycoproteins from mice spleen, lungs, and plasma samples in a highly sensitive and specific manner.
32066783	4	70	gly	PSA	636:638	arg1	The glycan profile	PSA			The glycan profile	PUBTATOR		PSA	354		The glycan profile of PSA from CTOS was determined by comparing with PSA from normal seminal plasma and cancer cell lines (LNCaP and 22Rv1) using lectin chromatography and mass spectrometry.
34494876	13	5	gly	deglycosylation	2062:2076	arg1	S	S				PUBTATOR		S	43740568		In this study, we showed that deglycosylation of both ACE2 and S had a minimal effect on the spike-ACE2 interaction.
34494876	13	5	gly	deglycosylation	2062:2076	arg1	ACE2	ACE2				PUBTATOR		ACE2	Q9BYF1		In this study, we showed that deglycosylation of both ACE2 and S had a minimal effect on the spike-ACE2 interaction.
32623356	11	14	gly	non-glycosylated	1706:1721	arg1	the non-glycosylated protein	the non-glycosylated protein				Fterm		protein			The calculations indicate that binding of 18α/β-GLR to the HMG box is generally reduced when the protein is N-glycosylated vs. the non-glycosylated protein.
32623356	11	76	gly	N-glycosylated	1683:1696	arg1	the protein	the protein				Fterm		protein			The calculations indicate that binding of 18α/β-GLR to the HMG box is generally reduced when the protein is N-glycosylated vs. the non-glycosylated protein.
32828279	4	51	gly	peptide	674:680	arg1	the sialyl biantennary glycans			peptide	the sialyl biantennary glycans					peptide	Endo-CC N180H transferred the sialyl biantennary glycans from the sialylglyco peptide to pNP-GlcNAc and narigenin-7-O-glucoside.
34019795	2	11	gly	glycosylated	256:267	arg1	Env	Env				PUBTATOR		Env	100616444		We studied the evolution of glycan-reactive B cells of rhesus macaques and humans using glycosylated HIV-1 envelope (Env) as a model antigen.
32904601	2	3	part_of	glycosites	419:428	arg1	HCoV-19 spike protein	protein		glycosites		Fterm	Site	protein		glycosites	In this mass spectrometry (MS)-based study, we reveal that out of 21 possible glycosites in the HCoV-19 spike protein (S protein), 20 are completely occupied by N-glycans, predominantly of the oligomannose type.
32904601	2	3	part_of	glycosites	419:428	arg1	S protein	S protein		glycosites		OGER	Site	S protein	Q15517	glycosites	In this mass spectrometry (MS)-based study, we reveal that out of 21 possible glycosites in the HCoV-19 spike protein (S protein), 20 are completely occupied by N-glycans, predominantly of the oligomannose type.
33644825	6	6	gly	glycosylation	932:944	arg2	glycosylation site(s)			glycosylation site(s)						site	Comparing it to control samples, we have observed Tf under-occupancy of glycosylation site(s) typical of a defective N-glycan assembly and the occurrence of oligomannose and hybrid type N-glycans.
34834161	7	61	part_of	Fab	1357:1359	arg1	the Fab domain	Fab		the Fab domain		PUBTATOR	Site	Fab	2187	domain	Herein, we mutated previously identified candidate positions on the Fab domain of Trastuzumab and employed tandem mass spectrometry to confirm attachment and obtain a detailed N-glycosylation profile of the mutants.
32321401	11	61	gly	structures	1777:1786	arg1	COPD	COPD			structures	OGER		COPD	P48444		Also, some increase in the afucosylated-galactosylated-biantennary structure in all three disease types and afucosylated-galactosylated-triantennary structures in COPD and LC were observed in comparison to the control group.
32321401	11	72	gly	structure	1695:1703	arg1	COPD	COPD			structure	OGER		COPD	P48444		Also, some increase in the afucosylated-galactosylated-biantennary structure in all three disease types and afucosylated-galactosylated-triantennary structures in COPD and LC were observed in comparison to the control group.
33231436	3	63	gly	glycoproteins	536:548	arg1	homogeneous glycoproteins	homogeneous glycoproteins				Fterm		glycoproteins			However, there are no chemical or biological methods to obtain homogeneous glycoproteins via the intentional alteration of the antennary form of N-glycans.
33564762	2	82	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.
32568312	3	87	gly	glycopeptides	638:650	arg2	characterizing N-linked intact glycopeptides	IgGs		glycopeptides		Cterm		IgGs		glycopeptides	Hence, characterizing N-linked intact glycopeptides of IgGs that correspond to the N-glycan structure with specific site information might enable a better understanding of the molecular pathogenesis and discovery of novel signatures in preoperative discrimination of BPH from PCa.
33915325	4	43	gly	glycosylation	489:501	arg1	the CH2 domain			the CH2 domain						domain	Herein, we verified that glycosylation of the CH2 domain decreased both, its tendency to aggregate and its immunogenicity in mice, suggesting that aggregation and immunogenicity are related.
32902264	3	55	gly	N-glycoproteins	645:659	arg1	N-glycoproteins	N-glycoproteins				Fterm		N-glycoproteins			Due to an identical glycan composition and molecular mass between α-galactosyl N-glycans and hybrid/high-mannose-type N-glycans, it is challenging to characterize α-galactosyl epitopes in N-glycoproteins using mass spectrometry.
32737218	5	21	gly	fucosylated	771:781	arg1	neutral fucosylated and agalactosylated glycans				neutral fucosylated and agalactosylated glycans						The pediatric urinary N-glycome was found to contain a higher level of high-mannose (HM), asialylated/afucosylated glycans (excluding HM), neutral fucosylated and agalactosylated glycans, and a lower level of trisialylated glycans compared with the adult.
32737218	5	64	gly	trisialylated	833:845	arg1	trisialylated glycans				trisialylated glycans						The pediatric urinary N-glycome was found to contain a higher level of high-mannose (HM), asialylated/afucosylated glycans (excluding HM), neutral fucosylated and agalactosylated glycans, and a lower level of trisialylated glycans compared with the adult.
32737218	5	66	gly	asialylated/afucosylated	714:737	arg1	asialylated/afucosylated glycans				asialylated/afucosylated glycans						The pediatric urinary N-glycome was found to contain a higher level of high-mannose (HM), asialylated/afucosylated glycans (excluding HM), neutral fucosylated and agalactosylated glycans, and a lower level of trisialylated glycans compared with the adult.
32426967	6	57	gly	glycopeptides	1179:1191	arg2	Ten site-specific glycopeptides	A1AT		glycopeptides		PUBTATOR		A1AT	5265	glycopeptides	Ten site-specific glycopeptides of A1AT were identified with stepped HCD-MS/MS in patient samples, 7 of which were further quantified using HCD-PRM-MS among patient samples.
33534538	4	16	gly	contain	557:563	arg1	carbohydrate fragments AND only glycans			carbohydrate fragments	only glycans						In the first stage, carbohydrate fragments, which contain only glycans and thus are conserved within a GSL species, are directly matched to yield a species identification.
34445285	8	18	gly	N-glycosylation	986:1000	arg2	identified N-glycosylation sites			identified N-glycosylation sites						sites	Sequence alignment of identified N-glycosylation sites that displayed bisecting GlcNAc suggested that GnT-III does not recognize a specific primary amino acid sequence.
34925422	3	14	gly	N-glycopeptides	422:436	arg2	863 different N-glycopeptides			863 different N-glycopeptides						N-glycopeptides	In total, 863 different N-glycopeptides corresponding to 639 N-glycoproteins were identified from P. tricornutum.
34925422	3	61	gly	N-glycoproteins	459:473	arg1	639 N-glycoproteins	639 N-glycoproteins				Fterm		N-glycoproteins			In total, 863 different N-glycopeptides corresponding to 639 N-glycoproteins were identified from P. tricornutum.
34067878	4	69	gly	glycosylated	463:474	arg1	ACE2	ACE2				PUBTATOR		ACE2	Q9BYF1		Both the Spike and ACE2 are densely glycosylated, and it is unclear how distinctive glycan types may modulate the interaction of RBD and ACE2.
34067878	4	69	gly	glycosylated	463:474	arg1	the Spike	the Spike				PUBTATOR		Spike	43740568		Both the Spike and ACE2 are densely glycosylated, and it is unclear how distinctive glycan types may modulate the interaction of RBD and ACE2.
34876606	2	10	gly	glycosylated	383:394	arg1	The spike protein	The spike protein				PUBTATOR		spike protein	43740568		The spike protein on the surface of the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), the virus that causes COVID-19, is heavily glycosylated and the major target for developing vaccines, therapeutic drugs and diagnostic tests.
33547931	4	4	gly	glycoproteins	690:702	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			In plant-specific manner, β1,2-xylose and α1,3-fucose residues are transferred to N-glycan core structure on glycoproteins by β1,2-xylosyltransferase (β1,2-XylT) and α1,3-fucosyltransferase (α1,3-FucT), respectively.
33547931	4	73	gly	structure	677:685	arg1	glycoproteins	glycoproteins			structure	Fterm		glycoproteins			In plant-specific manner, β1,2-xylose and α1,3-fucose residues are transferred to N-glycan core structure on glycoproteins by β1,2-xylosyltransferase (β1,2-XylT) and α1,3-fucosyltransferase (α1,3-FucT), respectively.
33657316	1	65	part_of	spike	229:233	arg1	the spike (S) region	spike		the spike (S) region		PUBTATOR	Site	spike	43740568	region	The heterogeneity associated with glycosylation of the 66 N-glycan sites on the protein trimer making up the spike (S) region of the SARS-CoV-2 virus has been assessed by charge detection mass spectrometry (CDMS).
33303137	6	23	gly	glycopeptides	1132:1144	arg2	26 intact glycopeptides			26 intact glycopeptides						glycopeptides	In total, 7 glycosylation sites and 12 glycan types corresponding to 26 intact glycopeptides were characterized from the four subtypes of breast cancer.
33303137	6	40	gly	glycosylation	1065:1077	arg2	7 glycosylation sites			7 glycosylation sites						sites	In total, 7 glycosylation sites and 12 glycan types corresponding to 26 intact glycopeptides were characterized from the four subtypes of breast cancer.
33063473	1	4	gly	glycosylated	75:86	arg1	PD-1	PD-1				OGER		PD-1	P18621		PD-1 is a highly glycosylated inhibitory receptor expressed mainly on T cells.
33063473	1	4	gly	glycosylated	75:86	arg1	a highly glycosylated inhibitory receptor	a highly glycosylated inhibitory receptor				Fterm		receptor			PD-1 is a highly glycosylated inhibitory receptor expressed mainly on T cells.
33065988	0	3	part_of	Hemopexin	69:77	arg1	Hemopexin and Immunoglobulin G Glycopeptides	Hemopexin		Hemopexin and Immunoglobulin G Glycopeptides		PUBTATOR	Site	Hemopexin	3263	Glycopeptides	Comparison of Different HILIC Stationary Phases in the Separation of Hemopexin and Immunoglobulin G Glycopeptides and Their Isomers.
33065988	0	6	part_of	G	98:98	arg1	Hemopexin and Immunoglobulin G Glycopeptides	Immunoglobulin G		Hemopexin and Immunoglobulin G Glycopeptides		Cterm	Site	Immunoglobulin G		Glycopeptides	Comparison of Different HILIC Stationary Phases in the Separation of Hemopexin and Immunoglobulin G Glycopeptides and Their Isomers.
32477333	10	42	gly	desialylated	1798:1809	arg1	the partially demannosylated and partially desialylated N-glycans				the partially demannosylated and partially desialylated N-glycans						Furthermore, the partially demannosylated and partially desialylated N-glycans showed stronger inhibition of IL-6 production compared with the native N-glycans.
32477333	10	80	gly	demannosylated	1769:1782	arg1	the partially demannosylated and partially desialylated N-glycans				the partially demannosylated and partially desialylated N-glycans						Furthermore, the partially demannosylated and partially desialylated N-glycans showed stronger inhibition of IL-6 production compared with the native N-glycans.
34685527	10	29	part_of	ASG	1518:1520	arg1	ASG composition	ASG		ASG composition		OGER	Site	ASG	Q96EG1	position	The generation of a range of phenotypic effects, simultaneously within a single cell type, demonstrates that the adjustment of the SG and ASG composition of cellular membranes by UGT80A2 and UGT80B1 tailors polysaccharide accumulation in Arabidopsis seeds.
32477333	0	96	gly	Lactoferrin	52:62	arg1	Dietary N-Glycans	Lactoferrin			Dietary N-Glycans	PUBTATOR		Lactoferrin	280846		Inhibitory Effects of Dietary N-Glycans From Bovine Lactoferrin on Toll-Like Receptor 8; Comparing Efficacy With Chloroquine.
29532110	10	16	gly	glycosylated	1822:1833	arg1	the glycosylated proteins	the glycosylated proteins				Fterm		proteins			Finally, this chapter covers new strategies and future directions of CHO cell glycoengineering, such as the application of glycoproteomics, glycomics, and the integration of 'omics' approaches to identify, quantify, and characterize the glycosylated proteins in CHO cells.
32898301	7	53	gly	fucosylation	1085:1096	arg1	N-glycans				N-glycans						RESULTS In PDAC patients a higher level of branching (OR 6.19, P-value 9.21 × 10-11 ) and (antenna)fucosylation (OR 13.27, P-value 2.31 × 10-9 ) of N-glycans was found.
33564762	8	50	gly	O-glycosylation	1392:1406	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.
34791559	3	38	gly	fucosylated	721:731	arg1	fucosylated glycans				fucosylated glycans						The expression pattern of fucosylated glycans and the composition of the endothelial glycocalyx are normally close to the expression pattern and composition of the syncytiotrophoblast glycocalyx; in case of mild and severe PE, the expression pattern of fucosylated glycans was changed uniformly, and α1,2-fucose-containing glycans significantly prevailed in the endothelial glycocalyx.
34791559	3	68	gly	fucosylated	948:958	arg1	fucosylated glycans				fucosylated glycans						The expression pattern of fucosylated glycans and the composition of the endothelial glycocalyx are normally close to the expression pattern and composition of the syncytiotrophoblast glycocalyx; in case of mild and severe PE, the expression pattern of fucosylated glycans was changed uniformly, and α1,2-fucose-containing glycans significantly prevailed in the endothelial glycocalyx.
32896318	1	64	gly	glycoproteins	97:109	arg1	Cell surface glycoproteins	Cell surface glycoproteins				Fterm		glycoproteins			Cell surface glycoproteins in plants were first described more than 50 years ago, and yet, the precise mechanisms by which they operate remain elusive to this day.
32928962	3	58	gly	glycans	465:471	arg1	lubricin	lubricin			glycans	PUBTATOR		lubricin	10216		The glycans on lubricin have also been suggested to be involved in crosslinking and stabilization of the lubricating superficial layer of cartilage by mediating interaction between lubricin and galectin-3.
34248947	2	56	gly	glycosylation	273:285	arg1	serum IgG	serum IgG				PUBTATOR		IgG	668542		This study aims to investigate the glycosylation profile of serum IgG in PBC patients using high-throughput lectin microarrays technology.
32309832	4	12	gly	glycosylated	655:666	arg1	highly glycosylated proteins	highly glycosylated proteins				Fterm		proteins			Of particular interest is the brain extracellular matrix (ECM), which has been called the "final Frontier" in neuroscience, which consists of highly glycosylated proteins.
34122956	1	20	gly	O-glycosylation	126:140	arg1	proteins	proteins				Fterm		proteins			Aberrantly truncated immature O-glycosylation in proteins occurs in essentially all types of epithelial cancer cells, which was demonstrated to be a common feature of most adenocarcinomas and strongly associated with cancer proliferation and metastasis.
32502344	10	88	part_of	containing	1419:1428	arg1	a substrate peptide AND a reporter peptide	a substrate peptide		a reporter peptide						peptide	Correspondingly, the glycan probe had a DNA sequence complementary to that of the capture DNA, a substrate peptide containing a reporter peptide, and a tryptic cleavage site, and could be covalently linked with the terminal Gal/GalNAc.
33130264	0	55	gly	residue	145:151	arg1	alkali-extracted water-soluble polysaccharide			residue	alkali-extracted water-soluble polysaccharide					residue	Structural characterization and inhibitions on α-glucosidase and α-amylase of alkali-extracted water-soluble polysaccharide from Annona squamosa residue.
32321401	12	8	gly	glycoprotein	1945:1956	arg1	glycoprotein specific molecular diagnostic potential	glycoprotein specific molecular diagnostic potential				Fterm		glycoprotein			CONCLUSION Our results suggested that changes in the desialylated human serum Nglycome hold glycoprotein specific molecular diagnostic potential for malignant and inflammatory lung diseases, which can be modeled with the five-protein mixture.
34285147	2	76	part_of	IgG	347:349	arg1	the IgG glycome composition	IgG		the IgG glycome composition		PUBTATOR	Site	IgG	668542	position	The aim of this study is to investigate whether the IgG glycome begins to change prior to hypertension diagnosis by analysing the IgG glycome composition in a large population-based female cohort with two independent replication samples.
32973324	5	33	gly	SIgA	626:629	arg1	enzymatically removed N-glycans	IgA			enzymatically removed N-glycans	Cterm		IgA	973		Here, we used a germ-free antibody-free newborn piglets model to compare the protective effect of SIgA, SIgA with enzymatically removed N-glycans, Fab, and Fc containing the secretory component (Fc-SC) during oral necrotoxigenic E. coli O55 challenge.
32973324	5	60	gly	SIgA	620:623	arg1	enzymatically removed N-glycans	IgA			enzymatically removed N-glycans	Cterm		IgA	973		Here, we used a germ-free antibody-free newborn piglets model to compare the protective effect of SIgA, SIgA with enzymatically removed N-glycans, Fab, and Fc containing the secretory component (Fc-SC) during oral necrotoxigenic E. coli O55 challenge.
31941772	1	3	gly	glycoprotein	158:169	arg1	Env	Env				PUBTATOR		Env			Extensive studies with subtype A BG505-derived HIV envelope glycoprotein (Env) immunogens have revealed that the dominant autologous neutralizing epitope in rabbits is located in an exposed region of the heavily glycosylated trimer that lacks potential N-linked glycosylation sites at positions 230, 241, and 289.
31941772	1	3	gly	glycoprotein	158:169	arg1	A BG505-derived HIV envelope glycoprotein	A BG505-derived HIV envelope glycoprotein				Fterm		glycoprotein	100616444		Extensive studies with subtype A BG505-derived HIV envelope glycoprotein (Env) immunogens have revealed that the dominant autologous neutralizing epitope in rabbits is located in an exposed region of the heavily glycosylated trimer that lacks potential N-linked glycosylation sites at positions 230, 241, and 289.
31941772	1	58	gly	glycosylated	310:321	arg1	the heavily glycosylated trimer	the heavily glycosylated trimer				Fterm		trimer	100616444		Extensive studies with subtype A BG505-derived HIV envelope glycoprotein (Env) immunogens have revealed that the dominant autologous neutralizing epitope in rabbits is located in an exposed region of the heavily glycosylated trimer that lacks potential N-linked glycosylation sites at positions 230, 241, and 289.
31941772	1	73	gly	glycosylation	360:372	arg2	potential N-linked glycosylation sites			potential N-linked glycosylation sites						sites	Extensive studies with subtype A BG505-derived HIV envelope glycoprotein (Env) immunogens have revealed that the dominant autologous neutralizing epitope in rabbits is located in an exposed region of the heavily glycosylated trimer that lacks potential N-linked glycosylation sites at positions 230, 241, and 289.
32743578	3	11	gly	glycoproteins	630:642	arg1	both glycoproteins	both glycoproteins				Fterm		glycoproteins			We combined this information with bioinformatic analyses of natural variants and with existing 3D-structures of both glycoproteins to generate molecular dynamics simulations of each glycoprotein alone and interacting with one another.
32743578	3	46	gly	glycoprotein	695:706	arg1	each glycoprotein	each glycoprotein				Fterm		glycoprotein			We combined this information with bioinformatic analyses of natural variants and with existing 3D-structures of both glycoproteins to generate molecular dynamics simulations of each glycoprotein alone and interacting with one another.
32178593	4	22	part_of	glycoprotein	767:778	arg1	the S1 domain	glycoprotein		the S1 domain		Fterm	Site	glycoprotein		domain	Furthermore, our study also highlights the key finding that the S1 domain of COVID-19 spike glycoprotein potentially interacts with the human CD26, a key immunoregulatory factor for hijacking and virulence.
34424958	5	26	part_of	sites	868:872	arg1	the CDR	CDR		sites		OGER	Site	CDR	Q06455	sites	This markedly contrasts with the activated B-cell-like DLBCL Ig, which rarely has sites in the CDR and does not seem to acquire oligomannose-type structures.
32955262	6	61	part_of	α1-antichymotrypsin	1014:1032	arg1	all five glycosylated regions	α1-antichymotrypsin		all five glycosylated regions		Fterm	Site	α1-antichymotrypsin	12	regions	When used in an HDX-MS workflow, PNGase H+ allowed the extraction of HDX data from all five glycosylated regions of the serpin α1-antichymotrypsin.
32149324	11	88	part_of	sites	1661:1665	arg1	350 N-glycoproteins	N-glycoproteins		sites		Fterm	Site	N-glycoproteins		sites	We also used HPLC coupled with tandem mass spectrometry to identify 611 N-glycosylation sites on 350 N-glycoproteins at the early stage developmental stage 1 (fertilized egg), and 1682 N-glycosylation sites on 1023 N-glycoproteins at stage 41 (late tailbud stage).
32149324	11	20	part_of	sites	1774:1778	arg1	1023 N-glycoproteins	N-glycoproteins		sites		Fterm	Site	N-glycoproteins		sites	We also used HPLC coupled with tandem mass spectrometry to identify 611 N-glycosylation sites on 350 N-glycoproteins at the early stage developmental stage 1 (fertilized egg), and 1682 N-glycosylation sites on 1023 N-glycoproteins at stage 41 (late tailbud stage).
34246313	12	63	gly	sialylated	1922:1931	arg1	fully sialylated biantennary glycans				fully sialylated biantennary glycans						Total serum N-glycome depicted a distinct pattern for the three patients, with increased levels of undergalactosylated and undersialylated precursors of fully sialylated biantennary glycans, including the monosialo-monogalacto-biantennary species A2G1S1.
34246313	12	72	gly	undersialylated	1886:1900	arg1	undergalactosylated and undersialylated precursors	undergalactosylated and undersialylated precursors				Fterm		precursors			Total serum N-glycome depicted a distinct pattern for the three patients, with increased levels of undergalactosylated and undersialylated precursors of fully sialylated biantennary glycans, including the monosialo-monogalacto-biantennary species A2G1S1.
35662980	8	19	gly	glycosites	1500:1509	arg2	selected glycosites			selected glycosites						glycosites	This confirmed that core fucosylation mainly occurs on complex-type N-glycans, although clearly only at selected glycosites.
33675758	13	58	gly	deglycosylated	1875:1888	arg1	deglycosylated IgG1	deglycosylated IgG1				OGER		IgG1	P01857		The Fc region in glycosylated IgG1 showed a restricted range of conformations relative to the Fab regions, whereas the Fc region in deglycosylated IgG1 showed a broader conformational spectrum.
33675758	13	87	gly	glycosylated	1760:1771	arg1	glycosylated IgG1	glycosylated IgG1				OGER		IgG1	P01857		The Fc region in glycosylated IgG1 showed a restricted range of conformations relative to the Fab regions, whereas the Fc region in deglycosylated IgG1 showed a broader conformational spectrum.
34767672	3	46	part_of	CGA	671:673	arg1	cell wall composition	CGA		cell wall composition		OGER	Site	CGA	P01215	position	Sequential extraction of cell walls of Nitellopsis obtusa (Charophyceae) and Spirogyra pratensis (Zygnematophyceae) offered a comparative overview on cell wall composition of late branching CGA.
33688648	1	50	gly	glycosylated	225:236	arg1	an extensively glycosylated surface spike (S) protein	an extensively glycosylated surface spike (S) protein				Fterm		protein			Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) utilizes an extensively glycosylated surface spike (S) protein to mediate host cell entry and the S protein glycosylation is strongly implicated in altering viral binding/function and infectivity.
32126781	10	81	gly	O-glycopeptides	1723:1737	arg2	O-glycopeptides			O-glycopeptides						O-glycopeptides	Thus, deliberately obtaining either glycan or peptide dissociation is a more delicate undertaking for O-glycopeptides.
33065002	6	27	gly	glycosylated	853:864	arg1	the glycosylated Vo subunits	the glycosylated Vo subunits				Cterm		Vo subunits	537		The glycolipids and the glycosylated Vo subunits form a luminal glycan coat critical for V-ATPase folding, localization, and stability.
33459939	1	18	gly	glycans	186:192	arg1	α2,6-linkage	2			glycans	PUBTATOR		2	170589		Sialic acids occur ubiquitously throughout vertebrate glycomes and often endcap glycans in either α2,3- or α2,6-linkage with diverse biological roles.
33459939	1	18	gly	glycans	186:192	arg1	α2,3-	2,3-			glycans	PUBTATOR		2,3-	28923		Sialic acids occur ubiquitously throughout vertebrate glycomes and often endcap glycans in either α2,3- or α2,6-linkage with diverse biological roles.
33262351	6	23	gly	glycosites	963:972	arg2	glycosites			glycosites						glycosites	In addition, we study the expression of mRNAs, proteins, glycosites, and intact glycopeptides, as well as the expression levels of glycosylation enzymes involved in glycoprotein biosynthesis pathways in each tumor.
33262351	6	52	gly	glycopeptides	986:998	arg2	intact glycopeptides			intact glycopeptides						glycopeptides	In addition, we study the expression of mRNAs, proteins, glycosites, and intact glycopeptides, as well as the expression levels of glycosylation enzymes involved in glycoprotein biosynthesis pathways in each tumor.
33262351	6	90	gly	glycoprotein	1071:1082	arg1	glycoprotein biosynthesis pathways	glycoprotein biosynthesis pathways				Fterm		glycoprotein			In addition, we study the expression of mRNAs, proteins, glycosites, and intact glycopeptides, as well as the expression levels of glycosylation enzymes involved in glycoprotein biosynthesis pathways in each tumor.
31907284	1	13	gly	glycoproteins	145:157	arg1	glycoproteins	glycoproteins				PUBTATOR		e glycoproteins	51428		Abs are glycoproteins that carry a conserved N-linked carbohydrate attached to the Fc whose presence and fine structure profoundly impacts on their in vivo immunogenicity, pharmacokinetics, and functional attributes.
31907284	1	13	gly	glycoproteins	145:157	arg1	Abs	Abs				OGER		Abs	Q9UJV9		Abs are glycoproteins that carry a conserved N-linked carbohydrate attached to the Fc whose presence and fine structure profoundly impacts on their in vivo immunogenicity, pharmacokinetics, and functional attributes.
31907284	1	39	gly	attached	204:211	arg1	the Fc AND a conserved N-linked carbohydrate	the Fc			a conserved N-linked carbohydrate	PUBTATOR		e Fc	51428		Abs are glycoproteins that carry a conserved N-linked carbohydrate attached to the Fc whose presence and fine structure profoundly impacts on their in vivo immunogenicity, pharmacokinetics, and functional attributes.
31907284	1	60	gly	carry	164:168	arg1	glycoproteins AND a conserved N-linked carbohydrate	glycoproteins			a conserved N-linked carbohydrate	PUBTATOR		e glycoproteins	51428		Abs are glycoproteins that carry a conserved N-linked carbohydrate attached to the Fc whose presence and fine structure profoundly impacts on their in vivo immunogenicity, pharmacokinetics, and functional attributes.
31907284	1	60	gly	carry	164:168	arg1	Abs AND a conserved N-linked carbohydrate	Abs			a conserved N-linked carbohydrate	OGER		Abs	Q9UJV9		Abs are glycoproteins that carry a conserved N-linked carbohydrate attached to the Fc whose presence and fine structure profoundly impacts on their in vivo immunogenicity, pharmacokinetics, and functional attributes.
32125558	3	7	gly	2,6	606:608	arg1	two N-acetylneuraminic acid-based key enzymes	(2,6)-sialyltransferase			two N-acetylneuraminic acid-based key enzymes	PUBTATOR		(2,6)-sialyltransferase	100689389		Taking these findings together, we aimed to establish CHO cell lines that highly produce sialic acid terminals by overexpressing two N-acetylneuraminic acid-based key enzymes, α(2,6)-sialyltransferase and UDP-N-acetylglucosamine 2-epimerase/N-acetylmannosamine kinase using dihydrofolate reductase/methotrexate gene amplification method.
34015330	2	15	gly	attached	231:238	arg1	this protein AND A unique glycan structure	this protein			A unique glycan structure	Fterm		protein			A unique glycan structure attached to this protein is required for its interaction with extracellular matrix proteins such as laminin.
32902264	1	44	gly	glycoproteins	207:219	arg1	glycoproteins	glycoproteins			a terminal N-glycan moiety	Fterm		glycoproteins			The α-galactosyl epitope is a terminal N-glycan moiety of glycoproteins found in mammals except in humans, and thus, it is recognized as an antigen that provokes an immunogenic response in humans.
33871970	2	40	part_of	receptor-binding	379:394	arg1	its receptor-binding domain	receptor		its receptor-binding domain		Fterm	Site	receptor		domain	The spike (S) protein, and particularly its receptor-binding domain (RBD), mediates the interaction with the angiotensin-converting enzyme 2 (ACE2) receptor on host cells and may be modulated by its structural features.
32147470	3	4	gly	IgG-	490:493	arg1	different polysaccharide-based biogels	IgG			different polysaccharide-based biogels	Cterm		IgG			To gain insights into the chemistries that support Ab-matrix interactions, we systematically evaluated IgG- and IgM-mediated trapping of nanoparticles in different polysaccharide-based biogels with unique chemical features.
32126781	4	15	gly	glycoprotein	711:722	arg1	the intact glycoprotein	the intact glycoprotein				Fterm		glycoprotein			In turn, this allows inferences with respect to the glycoprofile of the intact glycoprotein.
32904601	2	69	gly	glycosites	419:428	arg2	21 possible glycosites			21 possible glycosites						glycosites	In this mass spectrometry (MS)-based study, we reveal that out of 21 possible glycosites in the HCoV-19 spike protein (S protein), 20 are completely occupied by N-glycans, predominantly of the oligomannose type.
32088200	9	35	gly	glycopeptides	1288:1300	arg2	PSA-modified glycopeptides			PSA-modified glycopeptides						glycopeptides	PSA-modified glycopeptides are not detectable by LC-ESI-MS/MS, but become detectable after desialylation, allowing measurement of site-specific PSA occupancy.
33657316	0	39	gly	Heterogeneity	0:12	arg1	Glycan Processing				Glycan Processing						Heterogeneity of Glycan Processing on Trimeric SARS-CoV-2 Spike Protein Revealed by Charge Detection Mass Spectrometry.
34424958	1	22	part_of	immunoglobulin	148:161	arg1	the surface immunoglobulin (Ig) variable region	immunoglobulin		the surface immunoglobulin (Ig) variable region		Fterm	Site	immunoglobulin		region	Glycosylation of the surface immunoglobulin (Ig) variable region is a remarkable follicular lymphoma-associated feature rarely seen in normal B cells.
34523784	7	0	gly	glycopeptide	836:847	arg2	glycopeptide			glycopeptide						glycopeptide	Enzymatic introduction of the sialic acids was readily accomplished at the level of the glycopeptide segments but even more efficiently on the refolded glycoprotein.
34523784	7	13	gly	glycoprotein	900:911	arg1	the refolded glycoprotein	the refolded glycoprotein				Fterm		glycoprotein			Enzymatic introduction of the sialic acids was readily accomplished at the level of the glycopeptide segments but even more efficiently on the refolded glycoprotein.
34127537	10	32	part_of	IgAN	1437:1440	arg1	glycopeptides	IgAN		glycopeptides		PUBTATOR	Site	IgAN	60498	glycopeptides	Finally, glycopeptides were a better predictor of IgAN and glomerular function than galactose-deficient IgA1 levels measured by lectin-based ELISA.
32577644	4	49	gly	glycosylated	609:620	arg1	glycosylated SARS-CoV-2 S protein	glycosylated SARS-CoV-2 S protein				OGER		S protein	Q15517		Here, we built a full-length model of glycosylated SARS-CoV-2 S protein, both in the open and closed states, augmenting the available structural and biological data.
32059888	5	38	gly	spp	997:999	arg1	polysaccharides	spp			polysaccharides	OGER		spp	Q8TCT9		This study provided a systematic profiling of polysaccharides of Polygonatum spp.
33077685	2	0	gly	N-glycosylation	298:312	arg1	S protein	S protein				PUBTATOR		S protein	Q15517		Herein, we characterized the site-specific N-glycosylation of S protein at the level of intact glycopeptides.
33077685	2	41	gly	glycopeptides	350:362	arg2	intact glycopeptides			intact glycopeptides						glycopeptides	Herein, we characterized the site-specific N-glycosylation of S protein at the level of intact glycopeptides.
31915280	8	48	gly	glycoproteins	1488:1500	arg1	the viral prM and E glycoproteins	the viral prM and E glycoproteins				Fterm		glycoproteins			We also established that in cells deficient for DPMS activity, viral RNA amplification is hampered and truncated oligosaccharides are transferred to the viral prM and E glycoproteins, affecting their proper folding.
34318818	8	3	gly	glycosylated	1438:1449	arg1	the glycosylated and unglycosylated protein	the glycosylated and unglycosylated protein				Fterm		protein			Moreover, the results obtained by comparing the glycosylated and unglycosylated protein indicated that the glycan moiety imparts stability to the protein by forming intramolecular hydrogen bond interactions with the protein residues.
34318818	8	13	gly	unglycosylated	1455:1468	arg1	the glycosylated and unglycosylated protein	the glycosylated and unglycosylated protein				Fterm		protein			Moreover, the results obtained by comparing the glycosylated and unglycosylated protein indicated that the glycan moiety imparts stability to the protein by forming intramolecular hydrogen bond interactions with the protein residues.
33709491	2	19	gly	glycoprotein	292:303	arg1	The RBD glycoprotein	The RBD glycoprotein				Fterm		glycoprotein			The RBD glycoprotein is a critical target for the development of neutralizing antibodies and vaccines against SARS-CoV-2.
32213588	7	48	gly	α-1,2-mannosylated	1329:1346	arg1	therapeutic targets				therapeutic targets						The results provide support that α-1,2-mannosylated N-glycans present on cancer cell membrane proteins may serve as therapeutic targets for preventing metastasis.
32213588	7	48	gly	α-1,2-mannosylated	1329:1346	arg1	α-1,2-mannosylated N-glycans present				α-1,2-mannosylated N-glycans present						The results provide support that α-1,2-mannosylated N-glycans present on cancer cell membrane proteins may serve as therapeutic targets for preventing metastasis.
34122956	4	41	gly	glycopeptide	1068:1079	arg2	the antigenic glycopeptide			the antigenic glycopeptide						glycopeptide	The X-ray crystal structure of the anti-MUC1 monoclonal antibody SN-101 complexed with the antigenic glycopeptide provides for the first time evidence that SN-101 recognises specifically the essential epitope by forming multiple hydrogen bonds both with the proximal peptide and GalNAc linked to the threonine residue, concurrently.
33772592	2	52	part_of	G	335:335	arg1	The CH2 domain	human Immunoglobulin G		The CH2 domain		Cterm	Site	human Immunoglobulin G		domain	The CH2 domain of human Immunoglobulin G (IgG) is a promising scaffold for developing novel therapeutics.
34834161	4	3	gly	N-glycosylation	722:736	arg2	N-glycosylation sequons			N-glycosylation sequons							It was shown that the insertion of N-glycosylation sequons on amino acids proximal to an aggregation-prone region can increase the physical stability of the protein by shielding the APR, thus preventing self-association of antibody monomers.
32178593	3	13	gly	N-	497:498	arg1	sites			sites						sites	We also predict the unique N- and O-linked glycosylation sites of spike glycoprotein that distinguish it from the SARS and underlines shielding and camouflage of COVID-19 from the host the defence system.
32178593	3	30	gly	glycoprotein	542:553	arg1	spike glycoprotein	spike glycoprotein				Fterm		glycoprotein			We also predict the unique N- and O-linked glycosylation sites of spike glycoprotein that distinguish it from the SARS and underlines shielding and camouflage of COVID-19 from the host the defence system.
32178593	3	43	gly	glycosylation	513:525	arg1	spike glycoprotein	spike glycoprotein				Fterm		glycoprotein			We also predict the unique N- and O-linked glycosylation sites of spike glycoprotein that distinguish it from the SARS and underlines shielding and camouflage of COVID-19 from the host the defence system.
34000456	7	50	gly	glycoproteins	1074:1086	arg1	Several target glycoproteins	Several target glycoproteins				Fterm		glycoproteins			Several target glycoproteins bearing suppressed levels of multi-antennary branching structures were identified, and ERK signaling pathway was strongly suppressed in PTX resistant MCF7 cells.
34669426	7	35	gly	glycoproteins	1362:1374	arg1	the trimeric envelope glycoproteins	the trimeric envelope glycoproteins				Fterm		glycoproteins			The sole target for antibodies that can neutralize the virus are the trimeric envelope glycoproteins (Envs) located on the viral surface.
32817216	4	102	part_of	CD4	919:921	arg1	CD4 binding site	CD4		CD4 binding site		PUBTATOR	Site	CD4	920	site	BMS-529-complexed gp150 trimers in detergent micelles, which were isolated from CHO cells, bound to bNAbs, including UCA and intermediates of the CD4 binding site (bs) CH103 bNAb lineage, and showed limited exposure of CD4i epitopes and a glycosylation pattern with a preponderance of high-mannose glycans.
33525574	2	35	gly	glycoproteins	349:361	arg1	various glycoproteins	various glycoproteins				Fterm		glycoproteins			For the evaluation of high-mannose glycans present on various glycoproteins, a three-dimensional (3D) model of the chimera was designed from the crystal structures of recombinant banana lectin (BanLec, Protein Data Bank entry (PDB): 5EXG) and an enhanced green fluorescent protein (eGFP, PDB 4EUL) by applying molecular modeling and molecular mechanics and expressed in Escherichia coli.
33525574	2	78	gly	present	330:336	arg1	various glycoproteins AND high-mannose glycans	various glycoproteins			high-mannose glycans	Fterm		glycoproteins			For the evaluation of high-mannose glycans present on various glycoproteins, a three-dimensional (3D) model of the chimera was designed from the crystal structures of recombinant banana lectin (BanLec, Protein Data Bank entry (PDB): 5EXG) and an enhanced green fluorescent protein (eGFP, PDB 4EUL) by applying molecular modeling and molecular mechanics and expressed in Escherichia coli.
34494876	9	117	gly	deglycosylation	1355:1369	arg1	ACE2	ACE2				PUBTATOR		ACE2	Q9BYF1		Our data also revealed that binding of SARS-CoV or SARS-CoV-2 S protein to porcine or human ACE2 was not affected by deglycosylation of ACE2 or S proteins, suggesting that N-glycosylation does not play a role in the interaction between SARS coronaviruses and the ACE2 receptor.
34494876	9	117	gly	deglycosylation	1355:1369	arg1	S proteins	S proteins				Cterm		S proteins	43740568		Our data also revealed that binding of SARS-CoV or SARS-CoV-2 S protein to porcine or human ACE2 was not affected by deglycosylation of ACE2 or S proteins, suggesting that N-glycosylation does not play a role in the interaction between SARS coronaviruses and the ACE2 receptor.
34485242	7	14	gly	glycans	851:857	arg1	each HKU1 S1 site			each HKU1 S1 site	each HKU1 S1 site		Site			site	Moreover, the O-linked glycans and their abundance on each HKU1 S1 site were analyzed.
31907284	0	7	part_of	Fc	78:79	arg1	the Fc Region	e Fc		the Fc Region		PUBTATOR		e Fc	51428		Choice of Host Cell Line Is Essential for the Functional Glycosylation of the Fc Region of Human IgG1 Inhibitors of Influenza B Viruses.
32109354	1	21	gly	protein	145:151	arg1	The high mannose patch	HIV envelope protein			The high mannose patch	PUBTATOR		HIV envelope protein	64006		The high mannose patch (HMP) of the HIV envelope protein (Env) is the structure most frequently targeted by broadly neutralizing antibodies; therefore, many researchers have attempted to use mimics of this region as a vaccine immunogen.
33065977	2	13	gly	attachment	303:312	arg1	targeted proteins AND complex sugars	targeted proteins			complex sugars	Fterm		proteins			Previous studies have implicated N-glycosylation, a highly regulated enzymatic attachment of complex sugars to targeted proteins, in MS pathogenesis.
32126781	7	67	gly	glycopeptides	1174:1186	arg2	N-linked glycopeptides			N-linked glycopeptides						glycopeptides	While these energy-resolved fragmentation pathways have been the subject of several studies on N-linked glycopeptides, there remains a dearth of similar work on O-linked glycopeptides.
32126781	7	69	gly	glycopeptides	1240:1252	arg2	O-linked glycopeptides			O-linked glycopeptides						glycopeptides	While these energy-resolved fragmentation pathways have been the subject of several studies on N-linked glycopeptides, there remains a dearth of similar work on O-linked glycopeptides.
34823411	7	13	gly	chain	1231:1235	arg1	a single α-D-Glcp branch	chain			a single α-D-Glcp branch	OGER		chain	77683		The structure of GLP80-1 was deduced to be a homogenous glucan, comprised a main chain of (1→4)-linked-α-D-Glcp with a single α-D-Glcp branch substituted at C-6.
32045434	14	81	gly	sialylated	1932:1941	arg1	sialylated structures				sialylated structures						In terms of terminal epitopes, GTD-hCG had increased signals for sialylated structures, while LewisX antigens were of very minor abundance.
33756033	4	5	gly	glycoforms	475:484	arg1	Nine IL-6 glycoforms	Nine IL-6 glycoforms				PUBTATOR		IL-6	24498		Nine IL-6 glycoforms were synthesized, seven of which were evaluated for in vivo plasma clearance in rats and compared to non-glycosylated recombinant IL-6 from E. coli.
33756033	4	41	gly	non-glycosylated	587:602	arg1	non-glycosylated recombinant IL-6	non-glycosylated recombinant IL-6				PUBTATOR		IL-6	24498		Nine IL-6 glycoforms were synthesized, seven of which were evaluated for in vivo plasma clearance in rats and compared to non-glycosylated recombinant IL-6 from E. coli.
33777069	13	55	gly	glycoproteins	2035:2047	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			The data provided here comprises the so far first attempt at identifying Lewis A bearing glycoproteins across different species and will help to shed more light on the role of Lewis A structures in plants.
34758294	4	30	gly	isoforms	583:590	arg1	the leucine-rich repeat domain	isoforms			the leucine-rich repeat domain	Fterm		isoforms			A single thrombospondin type 1-repeat (TSR) domain of BAIs binds to the leucine-rich repeat domain of all three RTN4-receptor isoforms with nanomolar affinity.
34758294	4	41	gly	leucine-rich	529:540	arg1	the leucine-rich repeat domain			leucine	the leucine-rich repeat domain					leucine	A single thrombospondin type 1-repeat (TSR) domain of BAIs binds to the leucine-rich repeat domain of all three RTN4-receptor isoforms with nanomolar affinity.
33578865	4	31	gly	monosaccharides	974:988	arg1	a pre-determined composition			a pre-determined composition	a pre-determined composition		Site			position	Quantification was then carried out directly on the fresh hydrolysate using enzyme kits corresponding to the main monosaccharides in a pre-determined composition of the polysaccharides under analysis.
35662980	3	60	gly	enzyme	468:473	arg1	an Asn-linked oligosaccharide	FUT8 enzyme			an Asn-linked oligosaccharide	PUBTATOR		FUT8 enzyme	2530		Here, we explored the FUT8 enzyme with a series of N-glycan oligosaccharides, N-glycopeptides, and an Asn-linked oligosaccharide.
35662980	3	77	gly	Asn-linked	543:552	arg1	an Asn-linked oligosaccharide			Asn	an Asn-linked oligosaccharide					Asn	Here, we explored the FUT8 enzyme with a series of N-glycan oligosaccharides, N-glycopeptides, and an Asn-linked oligosaccharide.
35662980	3	103	gly	N-glycopeptides	519:533	arg1	N-glycan oligosaccharides			N-glycopeptides	N-glycan oligosaccharides					N-glycopeptides	Here, we explored the FUT8 enzyme with a series of N-glycan oligosaccharides, N-glycopeptides, and an Asn-linked oligosaccharide.
32426967	6	55	part_of	A1AT	1196:1199	arg1	Ten site-specific glycopeptides	A1AT		Ten site-specific glycopeptides		PUBTATOR	Site	A1AT	5265	glycopeptides	Ten site-specific glycopeptides of A1AT were identified with stepped HCD-MS/MS in patient samples, 7 of which were further quantified using HCD-PRM-MS among patient samples.
33068214	11	2	gly	O-glycopeptide	2146:2159	arg2	O-glycopeptide release			O-glycopeptide release						O-glycopeptide	Glycopeptides are enriched by SPE column, followed by release of N-glycans, collection of higher MW O-glycopeptides via MW cut-off filter, O-glycopeptide release via O-protease, and finally detected by LC-MS/MS using EThcD.
33068214	11	96	gly	O-glycopeptides	2107:2121	arg2	higher MW O-glycopeptides			higher MW O-glycopeptides						O-glycopeptides	Glycopeptides are enriched by SPE column, followed by release of N-glycans, collection of higher MW O-glycopeptides via MW cut-off filter, O-glycopeptide release via O-protease, and finally detected by LC-MS/MS using EThcD.
33065988	4	15	gly	glycoproteins	769:781	arg1	hemopexin and Immunoglobulin G glycoproteins	hemopexin and Immunoglobulin G glycoproteins				Fterm		glycoproteins			Three different HILIC stationary phases, i.e., HALO® penta-HILIC, Glycan ethylene bridged hybrid (BEH) Amide, and ZIC-HILIC, were compared in the separation of complex N-glycopeptides of hemopexin and Immunoglobulin G glycoproteins.
33065988	4	37	gly	N-glycopeptides	719:733	arg2	complex N-glycopeptides	glycoproteins		N-glycopeptides		Fterm		glycoproteins		N-glycopeptides	Three different HILIC stationary phases, i.e., HALO® penta-HILIC, Glycan ethylene bridged hybrid (BEH) Amide, and ZIC-HILIC, were compared in the separation of complex N-glycopeptides of hemopexin and Immunoglobulin G glycoproteins.
33262351	3	22	gly	glycopeptides	566:578	arg2	intact glycopeptides			intact glycopeptides						glycopeptides	Cluster analysis of intact glycoproteomic profiles delineates 3 major tumor clusters and 5 groups of intact glycopeptides.
32024769	4	60	gly	fucosylation	976:987	arg1	IgG core fucosylation				IgG core fucosylation						The study revealed an inverse association of IgG core fucosylation with TPOAb and AITD, as well as decreased peripheral blood mononuclear cells antennary α1,2 fucosylation in AITD, but no shared genetic variance between AITD and glycosylation.
33835347	6	24	gly	glycopeptide	882:893	arg2	complete N-linked glycopeptide database search engine			complete N-linked glycopeptide database search engine						glycopeptide	This research is based on the developed complete N-linked glycopeptide database search engine GPSeeker, combined with liquid-mass spectrometry and stable diethyl isotope labeling, providing a benchmark of site- and structure-specific quantitative tissue N-glycoproteomics for discovery of potential N-glycoprotein markers.
33835347	6	85	gly	N-glycoprotein	1123:1136	arg1	potential N-glycoprotein markers	potential N-glycoprotein markers				Fterm		N-glycoprotein			This research is based on the developed complete N-linked glycopeptide database search engine GPSeeker, combined with liquid-mass spectrometry and stable diethyl isotope labeling, providing a benchmark of site- and structure-specific quantitative tissue N-glycoproteomics for discovery of potential N-glycoprotein markers.
32102970	6	15	part_of	N-linked	1221:1228	arg1	1699 N-linked glycosites	1699 N-linked		1699 N-linked glycosites		Cterm	Site	1699 N-linked		glycosites	From N-linked deglycopeptides data sets, 764 N-linked glycoproteins, 1699 N-linked glycosites and 3328 unique N-linked deglycopeptides were identified.
32102970	6	112	part_of	N-linked	1257:1264	arg1	3328 unique N-linked deglycopeptides	N-linked		3328 unique N-linked deglycopeptides		Cterm	Site	N-linked		deglycopeptides	From N-linked deglycopeptides data sets, 764 N-linked glycoproteins, 1699 N-linked glycosites and 3328 unique N-linked deglycopeptides were identified.
33077685	1	21	gly	spike	106:110	arg1	a determinant	spike			a determinant	PUBTATOR		spike	43740568		The glycoprotein spike (S) on the surface of severe acute respiratory syndrome coronavirus (SARS-CoV-2) is a determinant for viral invasion and host immune response.
33077685	1	17	gly	glycoprotein	93:104	arg1	a determinant	glycoprotein			a determinant	Fterm		glycoprotein			The glycoprotein spike (S) on the surface of severe acute respiratory syndrome coronavirus (SARS-CoV-2) is a determinant for viral invasion and host immune response.
33876795	1	4	gly	glycoproteins	218:230	arg1	endoplasmic reticulum (ER) glycoproteins	endoplasmic reticulum (ER) glycoproteins				Fterm		glycoproteins			A tri-antennary Man9GlcNAc2 glycan on the surface of endoplasmic reticulum (ER) glycoproteins functions as a glycoprotein secretion or degradation signal after regioselective cleavage of the terminal α-1,2-mannose residue of each branch.
33876795	1	68	gly	glycoprotein	247:258	arg1	a glycoprotein secretion or degradation signal	glycoprotein			A tri-antennary Man9GlcNAc2 glycan	Fterm		glycoprotein			A tri-antennary Man9GlcNAc2 glycan on the surface of endoplasmic reticulum (ER) glycoproteins functions as a glycoprotein secretion or degradation signal after regioselective cleavage of the terminal α-1,2-mannose residue of each branch.
33792699	0	9	gly	Bisecting-GlcNAc	0:15	arg1	Asn388			Asn388	Asn388		AminoAcid			Asn388	Bisecting-GlcNAc on Asn388 is characteristic to ERC/mesothelin expressed on epithelioid mesothelioma cells.
32898175	4	34	gly	glycosylation	766:778	arg2	putative N-linked glycosylation sites			putative N-linked glycosylation sites						sites	The proteomic analysis identified 618 proteins, 121 of which contained putative N-linked glycosylation sites while 132 proteins contained putative O-linked glycosylation sites.
32898175	4	49	gly	glycosylation	833:845	arg2	putative O-linked glycosylation sites			putative O-linked glycosylation sites						sites	The proteomic analysis identified 618 proteins, 121 of which contained putative N-linked glycosylation sites while 132 proteins contained putative O-linked glycosylation sites.
34494876	7	107	gly	N-glycosylation	996:1010	arg1	its carboxiprotease activity	its carboxiprotease activity				Fterm		carboxiprotease			The elimination of N-glycosylation by tunicamycin (TM) treatment, or mutagenesis, showed that N-glycosylation is critical for the proper cell surface expression of ACE2 but not for its carboxiprotease activity.
34494876	7	107	gly	N-glycosylation	996:1010	arg1	ACE2	ACE2				PUBTATOR		ACE2	Q9BYF1		The elimination of N-glycosylation by tunicamycin (TM) treatment, or mutagenesis, showed that N-glycosylation is critical for the proper cell surface expression of ACE2 but not for its carboxiprotease activity.
33566602	6	12	gly	N-glycosites	934:945	arg2	The N-glycosites			The N-glycosites						N-glycosites	The N-glycosites enriched in the apolipoprotein B β2 domain in CEVM were significantly changed, which may contribute to lipid composition modifications during storage.
32929138	4	69	gly	glycoprotein	738:749	arg1	the S glycoprotein	the S glycoprotein				Cterm		S glycoprotein	43740568		Lastly, we have identified peptides in the S glycoprotein that are likely to be presented in human leukocyte antigen (HLA) complexes, and discuss the role of S protein glycosylation in potentially modulating the innate and adaptive immune response to the SARS-CoV-2 virus or to a related vaccine.
33915325	1	18	part_of	G	174:174	arg1	the human Immunoglobulin G (IgG) constant region	human Immunoglobulin G		the human Immunoglobulin G (IgG) constant region		Cterm	Site	human Immunoglobulin G		region	The CH2 domain is a critical element of the human Immunoglobulin G (IgG) constant region.
32102970	9	127	part_of	N-linked	1704:1711	arg1	N-linked intact glycopeptides	N-linked		N-linked intact glycopeptides		Cterm	Site	N-linked		glycopeptides	A database containing 739 N-glycan masses was constructed and utilized during spectral library search for the identification of N-linked intact glycopeptides.
32475574	4	15	gly	MRP-P1	678:683	arg1	polysaccharides	MRP-P1			polysaccharides	PUBTATOR		MRP-P1	54931		The surface morphology of polysaccharides and functional groups of MRP-P1 were determined by employing scanning electron microscopy and Fourier-transform infrared spectroscopy, respectively.
32236230	1	13	gly	glycosylation	143:155	arg1	therapeutic glycoproteins	therapeutic glycoproteins				Fterm		glycoproteins			Terminal α-2,6-sialylation of N-glycans is a humanized glycosylation that affects the properties and efficacy of therapeutic glycoproteins.
32236230	1	55	gly	glycoproteins	213:225	arg1	therapeutic glycoproteins	therapeutic glycoproteins				Fterm		glycoproteins			Terminal α-2,6-sialylation of N-glycans is a humanized glycosylation that affects the properties and efficacy of therapeutic glycoproteins.
32236230	1	78	gly	α-2,6-sialylation	97:113	arg1	N-glycans				N-glycans						Terminal α-2,6-sialylation of N-glycans is a humanized glycosylation that affects the properties and efficacy of therapeutic glycoproteins.
34127537	5	36	gly	N-glycosylation	710:724	arg1	IgAN	IgAN				PUBTATOR		IgAN	60498		To date, limited detail is known about IgA O- and N-glycosylation in IgAN.
34019602	1	1	gly	receptor	152:159	arg1	the glycans	receptor			the glycans	Fterm		receptor			We report a distinct difference in the interactions of the glycans of the host-cell receptor, ACE2, with SARS-CoV-2 and SARS-CoV S-protein receptor-binding domains (RBDs).
32651818	2	17	gly	Compositions	221:232	arg1	sulfated polysaccharides			positions	sulfated polysaccharides					positions	Compositions with sulfated polysaccharides from brown alga Fucus evanescens (native fucoidan in combination with polyphenols, and a product of fucoidan enzymatic hydrolysis) induced multiple productions of antigen-specific antibodies - total IgG, its isotypes IgG1 and, especially, IgG2a, in comparison with an individual ovalbumin.
33910735	3	43	part_of	CSNPs-BNC	646:654	arg1	chitosan nanoparticles-embedded bacterial nanocellulose (CSNPs-BNC) composites	BNC		chitosan nanoparticles-embedded bacterial nanocellulose (CSNPs-BNC) composites		OGER	Site	BNC	Q01954	composites	In this study, the three-dimensional fibrillar network of BNC was utilized as a template for the first time to homogeneously disperse CS to form nanoparticles (CSNPs) in BNC matrix via ionic gelation method, to develop chitosan nanoparticles-embedded bacterial nanocellulose (CSNPs-BNC) composites.
32248235	1	17	gly	glycoproteins	213:225	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			Like sialylation, fucose usually locates at the nonreducing ends of various glycans on glycoproteins and constitutes important glycan epitopes.
32248235	1	49	gly	glycans	202:208	arg1	glycoproteins	glycoproteins			glycans	Fterm		glycoproteins			Like sialylation, fucose usually locates at the nonreducing ends of various glycans on glycoproteins and constitutes important glycan epitopes.
32433878	6	79	part_of	β-Gal	1604:1608	arg1	the α-Glc and β-Gal residues	Gal		the α-Glc and β-Gal residues		OGER	Site	Gal	P22466	residues	To this purpose, collagen polymers underwent one step reductive amination with maltose (Glc(α1-4)α-Glc) and lactose (Gal(β1-4)β-Glc) so that the pyranosidic structure of the reducing sugar could be sacrificed (acting as a linker) and the α-Glc and β-Gal residues exposed, respectively.
31952476	12	9	gly	sialylated	1912:1921	arg1	sialylated short-chain O-glycans				sialylated short-chain O-glycans						Furthermore, there was some evidence that O-glycan biosynthesis in TGCs may produce sialylated short-chain O-glycans (Tn antigen, core 1 O-glycans), while the synthesis of other O-glycan core structures required for the formation of complex (i.e., branched and long-chain) O-glycans appears to be decreased in TGCs.
31952476	12	9	gly	sialylated	1912:1921	arg1	Tn antigen				Tn antigen						Furthermore, there was some evidence that O-glycan biosynthesis in TGCs may produce sialylated short-chain O-glycans (Tn antigen, core 1 O-glycans), while the synthesis of other O-glycan core structures required for the formation of complex (i.e., branched and long-chain) O-glycans appears to be decreased in TGCs.
32280962	2	11	gly	glycosylation	390:402	arg2	seven potential N-linked glycosylation sites			seven potential N-linked glycosylation sites						sites	PSG1 has seven potential N-linked glycosylation sites across its four domains.
33675758	2	7	part_of	Fab	251:253	arg1	two Fab regions	Fab		two Fab regions		PUBTATOR	Site	Fab	2187	regions	IgG1 is composed of two Fab regions connected to a Fc region through a 15-residue hinge peptide.
33675758	2	49	part_of	15-residue	298:307	arg1	a 15-residue hinge peptide	a 15		a 15-residue hinge peptide		OGER	Site	a 15	P41732	peptide	IgG1 is composed of two Fab regions connected to a Fc region through a 15-residue hinge peptide.
33484712	4	57	gly	glycosylated	862:873	arg1	a fully glycosylated S-protein	a fully glycosylated S-protein				PUBTATOR		S-protein	Q15517		Here, we performed all-atom molecular dynamics simulations of both down and up forms of a fully glycosylated S-protein in solution as well as targeted molecular dynamics simulations between them to elucidate key interdomain interactions for stabilizing each form and inducing the large-scale conformational transitions.
34350945	6	31	gly	fucosylation	1266:1277	arg1	N-glycans				N-glycans						Glycomics analyses revealed other major differences in fucosylation and sialylation of N-glycans between these cell types.
34350945	6	41	gly	sialylation	1283:1293	arg1	N-glycans				N-glycans						Glycomics analyses revealed other major differences in fucosylation and sialylation of N-glycans between these cell types.
32426967	9	103	gly	motif	1846:1850	arg1	the sialic acid/galactose linkage				the sialic acid/galactose linkage						Further analysis showed that the difference may be related to the sialic acid/galactose linkage of the glycan motif.
34151424	4	31	gly	deglycosylated	639:652	arg1	deglycosylated OVM	deglycosylated OVM				PUBTATOR		OVM	416236		However, the OVM glycated by mannosan (MOS) and deglycosylated OVM exhibited higher allergenicity than native OVM.
33196194	2	38	gly	glycoproteins	253:265	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			Most of the approved therapeutic proteins are glycoproteins.
33196194	2	38	gly	glycoproteins	253:265	arg1	the approved therapeutic proteins	the approved therapeutic proteins				Fterm		proteins			Most of the approved therapeutic proteins are glycoproteins.
34583196	0	9	gly	glycoforms	63:72	arg1	α-dystroglycan lacking matriglycans				α-dystroglycan lacking matriglycans						Establishment of a novel monoclonal antibody against truncated glycoforms of α-dystroglycan lacking matriglycans.
32423029	0	24	part_of	NOTCH1	70:75	arg1	the Extracellular Domain	NOTCH1		the Extracellular Domain		PUBTATOR		NOTCH1	4851		Xylosyl Extension of O-Glucose Glycans on the Extracellular Domain of NOTCH1 and NOTCH2 Regulates Notch Cell Surface Trafficking.
32423029	0	28	part_of	NOTCH2	81:86	arg1	the Extracellular Domain	NOTCH2		the Extracellular Domain		PUBTATOR		NOTCH2	4853		Xylosyl Extension of O-Glucose Glycans on the Extracellular Domain of NOTCH1 and NOTCH2 Regulates Notch Cell Surface Trafficking.
32423029	0	91	part_of	Extracellular	46:58	arg1	the Extracellular Domain	Extracellular		the Extracellular Domain		Cterm		Extracellular			Xylosyl Extension of O-Glucose Glycans on the Extracellular Domain of NOTCH1 and NOTCH2 Regulates Notch Cell Surface Trafficking.
32929138	2	8	gly	glycoproteins	375:387	arg1	the nascent glycoproteins	the nascent glycoproteins				Fterm		glycoproteins			We also analyze structures for glycoforms representing those present in the nascent glycoproteins (prior to enzymatic modifications in the Golgi), as well as those that are commonly observed on antigens present in other viruses.
32088229	3	17	gly	strain	484:489	arg1	the obtained exo-polysaccharide	strain			the obtained exo-polysaccharide	Fterm		strain			Also, the results of methylation analysis, monosaccharide composition, FTIR, NMR and XRD confirmed that the obtained exo-polysaccharide from the mentioned strain was pullulan.
32799357	2	74	part_of	pectin	709:714	arg1	the homogalacturonan (pectin) fragment	pectin		the homogalacturonan (pectin) fragment		Fterm	Site	pectin		fragment	We discover that these isozymes catalyse the transglycosylation reactions with the chemically defined donor and acceptor substrates, specifically with the xyloglucan donor and the penta-galacturonide [α(1-4)GalAp]5 acceptor - the homogalacturonan (pectin) fragment.
34834161	9	60	part_of	Fab	1787:1789	arg1	Fab N-glycosites	Fab		Fab N-glycosites		PUBTATOR	Site	Fab	2187	N-glycosites	These findings suggest that Fab N-glycosites have higher accessibility to enzymes responsible for glycan maturation.
34094206	5	6	gly	glycoprotein	916:927	arg1	the glycoprotein	the glycoprotein				Fterm		glycoprotein			We also computationally predict the structure of the selected aptamer and characterize its complex with the glycoprotein by docking and molecular dynamics calculations, further supporting the binary recognition event.
33871776	9	85	part_of	multi-layer	1670:1680	arg1	both single and hybrid multi-layer composites	multi		both single and hybrid multi-layer composites		OGER	Site	multi		composites	The transient behavior of water productivity of both single and hybrid multi-layer composites reached its maximum at 1:00 o'clock PM.
33871988	7	36	gly	glycopeptides	1203:1215	arg2	these modified glycopeptides			these modified glycopeptides						glycopeptides	We characterized the mass spectrometric signatures of these modified glycopeptides and their signature residues left by bioorthogonal reporter reagents.
32024769	2	67	gly	glycoproteins	437:449	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			Immunoglobulins and cell-surface receptors are glycoproteins with distinctive glycosylation patterns that play a structural role in maintaining and modulating their functions.
32024769	2	67	gly	glycoproteins	437:449	arg1	cell-surface receptors	cell-surface receptors				Fterm		receptors			Immunoglobulins and cell-surface receptors are glycoproteins with distinctive glycosylation patterns that play a structural role in maintaining and modulating their functions.
32681153	5	24	gly	glycopeptides	805:817	arg2	O-linked glycopeptides			O-linked glycopeptides						glycopeptides	We recently developed a mass spectrometry-based method called extraction of O-linked glycopeptides (EXoO) that enables large-scale mapping of site-specific mucin-type O-GalNAcylation sites.
33065988	7	25	gly	sialylated	1338:1347	arg1	sialylated glycoforms				sialylated glycoforms						Moreover, we showed the potential of these HILIC columns for the isomeric separation of fucosylated and sialylated glycoforms.
34583196	3	42	gly	CDP-Gro	602:608	arg1	TagD	CDP			TagD	PUBTATOR		CDP	4878		Here, we found that forced expression of the bacterial CDP-Gro synthase, TagD, from Bacillus subtilis could result in the overproduction of CDP-Gro in human colon carcinoma HCT116 cells.
33835347	0	83	gly	N-glycoprotein	107:120	arg1	potential N-glycoprotein markers	potential N-glycoprotein markers				Fterm		N-glycoprotein			Benchmark of site- and structure-specific quantitative tissue N-glycoproteomics for discovery of potential N-glycoprotein markers: a case study of pancreatic cancer.
31967297	4	84	part_of	CD16a	782:786	arg1	position 48	CD16a		position 48		PUBTATOR	SpecificSite	CD16a	2214	leucine at position 48	In this study, we identified variations in N45 glycan structures associated with a polymorphism coding for histidine instead of leucine at position 48 of CD16a from two heterozygous donors.
33657316	2	73	gly	glycosylated	529:540	arg1	the heavily glycosylated S protein trimer	the heavily glycosylated S protein trimer				PUBTATOR		S protein trimer	7448		CDMS allows simultaneous measurement of the mass-to-charge ratio and charge of individual ions, so that mass distributions can be determined for highly heterogeneous proteins such as the heavily glycosylated S protein trimer.
33234415	10	18	gly	sialylated	1835:1844	arg1	fully sialylated forms				fully sialylated forms						Jimaixin™ and Epotin™ presented also a lower amount of fully sialylated forms.
33080533	6	57	gly	6700 psi	1064:1071	arg1	10 min	10 min			6700 psi	Fterm		10 min			The advantage of the UHT-PGC column was its high peak capacity with gradient elution in 10 min at 190 °C, 6700 psi, and a 250 μL/min flow rate for native glycan analysis.
33376194	3	93	gly	glycoprotein	516:527	arg1	glycoprotein and glycolipid glycosylation	glycoprotein and glycolipid glycosylation				Fterm		glycoprotein			These approaches have proven extremely useful for profiling the structural diversity of glycoprotein and glycolipid glycosylation but require the availability of glycan standards and secondary orthogonal degradation strategies to validate structural assignments.
32104808	6	73	gly	glycoproteins	1127:1139	arg1	mammalian glycoproteins	mammalian glycoproteins				Fterm		glycoproteins			We present proof-of-principle data from a moderately complex yeast cell wall glycoproteome and a simple mixture of mammalian glycoproteins.
32104808	5	8	gly	glycoproteins	930:942	arg1	mammalian glycoproteins	mammalian glycoproteins				Fterm		glycoproteins			We show that DIALib theoretical ion libraries can identify and measure diverse N- and O-glycopeptides from yeast and mammalian glycoproteins without prior knowledge of the glycan structures present.
32104808	5	59	gly	O-glycopeptides	889:903	arg1	mammalian glycoproteins	glycoproteins		O-glycopeptides		Fterm		glycoproteins		O-glycopeptides	We show that DIALib theoretical ion libraries can identify and measure diverse N- and O-glycopeptides from yeast and mammalian glycoproteins without prior knowledge of the glycan structures present.
32162920	0	46	gly	Transferrin	43:53	arg1	the Glycan Profile	Mouse Transferrin			the Glycan Profile	PUBTATOR		Mouse Transferrin	22041		Alterations in the Glycan Profile of Mouse Transferrin: New Insights in Collagen-Induced Arthritis.
34189908	2	57	gly	glycoproteins	376:388	arg1	homogeneous glycoproteins	homogeneous glycoproteins				Fterm		glycoproteins			To understand the biological processes arising from each glycoform, the preparation of homogeneous glycoproteins is essential for extensive biological experiments.
34288669	3	56	gly	glycoprotein	494:505	arg1	The glycoprotein	The glycoprotein				Fterm		glycoprotein			The glycoprotein utilized as a model system in this study, human chorionic gonadotropin (hCG), exists as a heterodimer composed of two heavily glycosylated subunits.
34288669	3	75	gly	glycosylated	633:644	arg1	two heavily glycosylated subunits	two heavily glycosylated subunits				Fterm		subunits			The glycoprotein utilized as a model system in this study, human chorionic gonadotropin (hCG), exists as a heterodimer composed of two heavily glycosylated subunits.
34288669	5	74	gly	glycoforms	1163:1172	arg1	hCG glycoforms	hCG glycoforms				PUBTATOR		hCG	1511		Starting from the deconvoluted mass spectrum of dimeric hCG comprising about 50 signals, it was possible to explore the chemical space of hCG glycoforms and elucidate the complexity that hides behind just 50 signals.
32568312	6	101	gly	glycopeptides	1406:1418	arg2	four aberrantly expressed N-linked intact glycopeptides			four aberrantly expressed N-linked intact glycopeptides						glycopeptides	As a result, we found four aberrantly expressed N-linked intact glycopeptides across different IgG subclasses.
32280962	2	13	part_of	has	361:363	arg1	PSG1 AND seven potential N-linked glycosylation sites	PSG1		seven potential N-linked glycosylation sites		PUBTATOR	Site	PSG1	5669	sites	PSG1 has seven potential N-linked glycosylation sites across its four domains.
32205858	0	40	gly	glycosylation	8:20	arg1	glycodelin	glycodelin				PUBTATOR		glycodelin in	5047		Altered glycosylation of glycodelin in endometrial carcinoma.
34445285	7	40	gly	modified	921:928	arg1	32 N-glycosylation sites AND bisecting GlcNAc			32 N-glycosylation sites	bisecting GlcNAc					sites	We identified 32 N-glycosylation sites (Asn-Xaa-Ser/Thr, Xaa ≠ Pro) that were modified with bisecting GlcNAc.
34445285	7	46	gly	sites	876:880	arg1	Pro			Pro						Pro	We identified 32 N-glycosylation sites (Asn-Xaa-Ser/Thr, Xaa ≠ Pro) that were modified with bisecting GlcNAc.
34445285	7	46	gly	sites	876:880	arg1	Asn-Xaa-Ser/Thr			Asn-Xaa-Ser/Thr						Asn	We identified 32 N-glycosylation sites (Asn-Xaa-Ser/Thr, Xaa ≠ Pro) that were modified with bisecting GlcNAc.
34445285	7	69	gly	N-glycosylation	860:874	arg2	32 N-glycosylation sites			32 N-glycosylation sites						sites	We identified 32 N-glycosylation sites (Asn-Xaa-Ser/Thr, Xaa ≠ Pro) that were modified with bisecting GlcNAc.
33688648	2	4	gly	found	466:470	arg2	the S protein regional-binding domain AND the new O-glycans	S		domain	the new O-glycans	PUBTATOR		S	43740568	domain	However, the structures and relative abundance of the new O-glycans found on the S protein regional-binding domain (S-RBD) remain cryptic because of the challenges in intact glycoform analysis.
31907284	2	55	gly	heterogeneity	552:564	arg1	the final IgG-Fc glycosylation profile	the final IgG-Fc glycosylation profile				PUBTATOR		e	51428		The host cell line used to produce IgG plays a major role in this glycosylation, as different systems express different glycosylation enzymes and transporters that contribute to the specificity and heterogeneity of the final IgG-Fc glycosylation profile.
34890647	8	53	gly	has	1548:1550	arg1	the Fab domain AND glycan-protein binding contacts			the Fab domain	glycan-protein binding contacts					domain	Moreover, HDX-MS data evince that the Fab domain has glycan-protein binding contacts within the IgG1-FcγRI complex.
33650863	1	2	gly	glycoprotein	75:86	arg1	The glycoprotein uromodulin	The glycoprotein uromodulin				Fterm		glycoprotein			The glycoprotein uromodulin (UMOD) is the most abundant protein in urine, and N-glycans are critical for many biological functions of UMOD.
34834161	8	87	gly	N-glycosylation	1678:1692	arg2	a single N-glycosylation site			a single N-glycosylation site						site	The Trastuzumab glycomutants displayed a glycan profile with significantly higher structural heterogeneity compared to the HEK Trastuzumab antibody, which contains a single N-glycosylation site per heavy chain located in the CH2 domain of the Fc region.
33130264	0	13	part_of	α-amylase	65:73	arg1	Annona squamosa residue	α-amylase		Annona squamosa residue		Fterm	Site	α-amylase		residue	Structural characterization and inhibitions on α-glucosidase and α-amylase of alkali-extracted water-soluble polysaccharide from Annona squamosa residue.
33130264	0	24	part_of	α-glucosidase	47:59	arg1	Annona squamosa residue	α-glucosidase		Annona squamosa residue		Fterm	Site	α-glucosidase		residue	Structural characterization and inhibitions on α-glucosidase and α-amylase of alkali-extracted water-soluble polysaccharide from Annona squamosa residue.
33130264	0	55	part_of	residue	145:151	arg1	α-glucosidase	α-glucosidase		residue		Fterm	Site	α-glucosidase		residue	Structural characterization and inhibitions on α-glucosidase and α-amylase of alkali-extracted water-soluble polysaccharide from Annona squamosa residue.
33130264	0	55	part_of	residue	145:151	arg1	α-amylase	α-amylase		residue		Fterm	Site	α-amylase		residue	Structural characterization and inhibitions on α-glucosidase and α-amylase of alkali-extracted water-soluble polysaccharide from Annona squamosa residue.
33064451	7	66	gly	proteins	1286:1293	arg1	N-glycan profiles	spike proteins			N-glycan profiles	PUBTATOR		spike proteins	43740568		In addition, we compared N-glycan profiles of the recombinant spike proteins produced from different expression systems, including human embryonic kidney (HEK 293) cells and Spodoptera frugiperda (SF9) insect cells.
34389393	0	9	gly	pumpkin	50:56	arg1	a neutral polysaccharide	pumpkin			a neutral polysaccharide	Fterm		pumpkin			Characterization of a neutral polysaccharide from pumpkin (Cucurbita moschata Duch) with potential immunomodulatory activity.
32441772	3	58	part_of	lignin	612:617	arg1	the deposition	lignin		the deposition		Fterm	Site	lignin		position	Cell wall characterization revealed that salt stress modulated the deposition of cellulose, matrix polysaccharides and lignin in seedling roots, plant roots and stems.
34000456	11	82	gly	glycoprotein	1874:1885	arg1	unique glycan-related protein, glycan and glycoprotein signatures				unique glycan-related protein, glycan and glycoprotein signatures						In this multi-omic analysis, we identified unique glycan-related protein, glycan and glycoprotein signatures defining PTX chemoresistance in BC.
32568312	3	100	part_of	IgGs	655:658	arg1	characterizing N-linked intact glycopeptides	IgGs		characterizing N-linked intact glycopeptides		Cterm	Site	IgGs		glycopeptides	Hence, characterizing N-linked intact glycopeptides of IgGs that correspond to the N-glycan structure with specific site information might enable a better understanding of the molecular pathogenesis and discovery of novel signatures in preoperative discrimination of BPH from PCa.
32438810	5	46	gly	glycoprotein	852:863	arg1	the sole whey glycoprotein	the sole whey glycoprotein				Fterm		glycoprotein			GlyCAM-1 is the sole whey glycoprotein carrying tri- and tetra-antennary structures, with a high degree of fucosylation and sialylation.
32438810	5	46	gly	glycoprotein	852:863	arg1	GlyCAM-1	GlyCAM-1				PUBTATOR		GlyCAM-1	282430		GlyCAM-1 is the sole whey glycoprotein carrying tri- and tetra-antennary structures, with a high degree of fucosylation and sialylation.
32438810	5	58	gly	carrying	865:872	arg1	the sole whey glycoprotein AND tri- and tetra-antennary structures	the sole whey glycoprotein			tri- and tetra-antennary structures	Fterm		glycoprotein			GlyCAM-1 is the sole whey glycoprotein carrying tri- and tetra-antennary structures, with a high degree of fucosylation and sialylation.
32438810	5	58	gly	carrying	865:872	arg1	GlyCAM-1 AND tri- and tetra-antennary structures	GlyCAM-1			tri- and tetra-antennary structures	PUBTATOR		GlyCAM-1	282430		GlyCAM-1 is the sole whey glycoprotein carrying tri- and tetra-antennary structures, with a high degree of fucosylation and sialylation.
34925422	5	25	gly	N-glycosylation	728:742	arg1	the protein N-glycosylation pathway	the protein N-glycosylation pathway				Fterm		protein			Twelve proteins participating in the N-glycosylation pathway were identified as N-glycoproteins, indicating that the N-glycosylation of these proteins might be important for the protein N-glycosylation pathway.
34925422	5	25	gly	N-glycosylation	728:742	arg1	the protein N-glycosylation pathway	the protein N-glycosylation pathway				Cterm		N-glycosylation			Twelve proteins participating in the N-glycosylation pathway were identified as N-glycoproteins, indicating that the N-glycosylation of these proteins might be important for the protein N-glycosylation pathway.
34925422	5	25	gly	N-glycosylation	728:742	arg1	these proteins	these proteins				Fterm		proteins			Twelve proteins participating in the N-glycosylation pathway were identified as N-glycoproteins, indicating that the N-glycosylation of these proteins might be important for the protein N-glycosylation pathway.
34925422	5	52	gly	N-glycoproteins	691:705	arg1	Twelve proteins	Twelve proteins				Fterm		proteins			Twelve proteins participating in the N-glycosylation pathway were identified as N-glycoproteins, indicating that the N-glycosylation of these proteins might be important for the protein N-glycosylation pathway.
34925422	5	52	gly	N-glycoproteins	691:705	arg1	N-glycoproteins	N-glycoproteins				Fterm		N-glycoproteins			Twelve proteins participating in the N-glycosylation pathway were identified as N-glycoproteins, indicating that the N-glycosylation of these proteins might be important for the protein N-glycosylation pathway.
32149355	7	34	gly	3-position	1238:1247	arg1	the nonreducing GlcA			position	the nonreducing GlcA					position	Our data strongly support a tissue specific mechanism in which HNK-1ST regulates polymer length by competing with LARGE for the 3-position on the nonreducing GlcA of matriglycan.
34102345	5	61	gly	glycoproteins	675:687	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			Furthermore, we also compared both N-glycosylation and glycoproteins between human and bovine milk, which may provide new ideas for the composition adjustment of infant formula in the food industry.
32102970	2	109	gly	glycoproteins	568:580	arg1	N-linked glycoproteins	N-linked glycoproteins				Fterm		glycoproteins			In this regard, a spectral library search method was presented for the identification of N-linked intact glycopeptides from N-linked glycoproteins in human serum with target-decoy and motif-specific false discovery rate (FDR) control.
32102970	2	44	gly	glycopeptides	540:552	arg2	N-linked intact glycopeptides	glycoproteins		glycopeptides		Fterm		glycoproteins		glycopeptides	In this regard, a spectral library search method was presented for the identification of N-linked intact glycopeptides from N-linked glycoproteins in human serum with target-decoy and motif-specific false discovery rate (FDR) control.
32737362	4	64	gly	glycoproteins	554:566	arg1	the salivary glycoproteins	glycoproteins			N-glycans	Fterm		glycoproteins			Here, we characterised the profile of N-glycans from the salivary glycoproteins of Lutzomyia longipalpis, vector of visceral leishmaniasis in the Americas.
33979146	1	32	part_of	adiponectin	137:147	arg1	The homogeneously glycosylated 76-amino acid adiponectin collagenous domains	adiponectin		The homogeneously glycosylated 76-amino acid adiponectin collagenous domains		PUBTATOR	Site	adiponectin	11450	domains	The homogeneously glycosylated 76-amino acid adiponectin collagenous domains (ACDs) with all of the possible 15 glycoforms have been chemically and individually synthesized using stereoselective glycan synthesis and chemical peptide ligation.
34890647	6	45	gly	glycoprotein	1271:1282	arg1	intermolecular glycoprotein interactions	intermolecular glycoprotein interactions				Fterm		glycoprotein			These results indicate that stability of IgG1-FcγRIa complexes correlate with the presence of intermolecular glycoprotein interactions between the IgG1 glycans and the 173KHR175 motif within the FG-loop of FcγRIa.
33423189	0	6	part_of	glycoprotein	80:91	arg1	the Fc fragment	glycoprotein		the Fc fragment		Fterm	Site	glycoprotein		fragment	NMR assignments of the N-glycans of the Fc fragment of mouse immunoglobulin G2b glycoprotein.
33423189	0	50	part_of	Fc	40:41	arg1	the Fc fragment	Fc		the Fc fragment		Cterm	Site	Fc		fragment	NMR assignments of the N-glycans of the Fc fragment of mouse immunoglobulin G2b glycoprotein.
34823411	5	49	gly	GLP	963:965	arg1	The monosaccharide composition	GLP			The monosaccharide composition	PUBTATOR		GLP	77683		The monosaccharide composition of GLP was glucose, glucuronic acid, galactose and arabinose with molar ratios of 0.91:0.04:0.03:0.02, respectively.
34823411	5	49	gly	GLP	963:965	arg1	glucose	GLP			glucose	PUBTATOR		GLP	77683		The monosaccharide composition of GLP was glucose, glucuronic acid, galactose and arabinose with molar ratios of 0.91:0.04:0.03:0.02, respectively.
33662421	3	0	gly	composed	400:407	arg1	1→ residues			1→ residues						residues	The backbone of CM3-SII was composed of →4)-β-D-Manp(1→, →6)-β-D-Manp(1→, and →6)-α-D-Manp(1→ glycosyls, and branching at the O-4 positions of →6)-β-D-Manp(1→ glycosyls with β-D-Galp, (1→2) linked-β-D-Galf, and →2,6)-α-D-Manp(1→ residues.
34523784	3	39	gly	carries	354:360	arg1	EPO AND three N-glycans	EPO			three N-glycans	PUBTATOR		EPO	2056		EPO carries three N-glycans and thus obtaining pure glycoforms provides a major challenge.
33915325	3	30	gly	non-glycosylated	398:413	arg1	CH2 domain			CH2 domain						domain	Recently, we succeeded in preparing glycosylated and non-glycosylated CH2 domain in the host organism Pichia pastoris.
34931806	7	14	gly	mucin	1090:1094	arg1	GalNAz	mucin O-linked			GalNAz	PUBTATOR		mucin O-linked	100508689		The most widely applied MCR for mucin O-linked glycosylation, GalNAz, can be enzymatically epimerized at the 4-hydroxyl to give GlcNAz.
34931806	7	29	gly	O-linked	1096:1103	arg1	GalNAz	mucin O-linked			GalNAz	PUBTATOR		mucin O-linked	100508689		The most widely applied MCR for mucin O-linked glycosylation, GalNAz, can be enzymatically epimerized at the 4-hydroxyl to give GlcNAz.
33077685	6	18	gly	contained	751:759	arg1	the insect cell-expressed S protein AND 38 N-glycans	the insect cell-expressed S protein			38 N-glycans	PUBTATOR		S protein	Q15517		In contrast, the insect cell-expressed S protein contained 38 N-glycans, completely of the high-mannose type.
32973324	7	18	gly	deglycosylation	998:1012	arg1	SIgA	SIgA				Cterm		IgA	973		In vitro analyses indicated that deglycosylation of SIgA did not reduce agglutination of E. coli O55.
33858566	5	48	gly	predominant	659:669	arg1	the monomeric composition AND Xylose			the monomeric composition	Xylose					position	Xylose was predominant in the monomeric composition of the obtained hemicelluloses, building low-branched (arabino)glucuronoxylan, in WS exclusively, while in PP some xyloglucan as well.
32426967	5	91	gly	glycopeptide	1021:1032	arg2	glycopeptide identification			glycopeptide identification						glycopeptide	Accordingly, pGlyco2.0 software was used for glycopeptide identification, and Skyline software was used for glycoform quantification using the Y1 ion (peptide+GlcNAc) in MS/MS spectra.
34355537	5	26	gly	IgG1	846:849	arg1	sialic acid-enriched species	IgG1			sialic acid-enriched species	OGER		IgG1	P01857		In our study, we tested sialic acid-enriched species from a chimeric murine/human kappa light chain IgG1 (mAb1) with known Fcγ receptor IIIa binding and ADCC activities.
33892026	7	45	gly	used	1030:1033	arg2	the nanocomposites			the nanocomposites						nanocomposites	Furthermore, the nanocomposites in terms of coating or films were used to keep fresh-cut potatoes, where they exhibited different efficiencies in food preservation with the order: PAXO coating + CaCl2 ≈ PAXO coating > PAXO film > sterile water.
32485649	4	44	gly	glycopeptides	674:686	arg2	glycopeptides			glycopeptides						glycopeptides	We observed lower solubility in larger glycans attached to the same peptide backbone, and we demonstrated that glycopeptides containing sialic acids precipitate more readily than those without sialic acid.
32485649	4	0	gly	containing	688:697	arg1	glycopeptides AND sialic acids			glycopeptides	sialic acids					glycopeptides	We observed lower solubility in larger glycans attached to the same peptide backbone, and we demonstrated that glycopeptides containing sialic acids precipitate more readily than those without sialic acid.
32817216	2	29	part_of	trimers	408:414	arg1	intact transmembrane domain	trimers		intact transmembrane domain		Fterm	Site	trimers		domain	Here, we show that the binding of BMS-529 to clade C soluble chimeric gp140 SOSIP (ch.SOSIP) and membrane-bound trimers with intact transmembrane domain (gp150) prevented trimer conformational transitions and enhanced their immunogenicity.
32817216	2	77	part_of	SOSIP	372:376	arg1	intact transmembrane domain	gp140 SOSIP		intact transmembrane domain		Cterm	Site	gp140 SOSIP		domain	Here, we show that the binding of BMS-529 to clade C soluble chimeric gp140 SOSIP (ch.SOSIP) and membrane-bound trimers with intact transmembrane domain (gp150) prevented trimer conformational transitions and enhanced their immunogenicity.
33142561	1	28	part_of	hyaluronan	221:230	arg1	aggrecan globular domain 1	hyaluronan binding protein		aggrecan globular domain 1		PUBTATOR	Site	hyaluronan binding protein	3026	domain	Hyaluronan specifically binds to aggrecan globular domain 1, which is often referred to as just hyaluronan binding protein (HABP), however, the hyaluronan carbohydrate structure recognized by HABP had not been studied in detail.
33142561	1	30	part_of	binding	232:238	arg1	aggrecan globular domain 1	hyaluronan binding protein		aggrecan globular domain 1		PUBTATOR	Site	hyaluronan binding protein	3026	domain	Hyaluronan specifically binds to aggrecan globular domain 1, which is often referred to as just hyaluronan binding protein (HABP), however, the hyaluronan carbohydrate structure recognized by HABP had not been studied in detail.
31975691	2	5	gly	detritus	358:365	arg1	the region			the region	the region		Site			region	Increased macroalgal productivity due to warmer temperatures and reduced sea-ice cover contribute a significant amount of polysaccharide-rich detritus in the region.
31975691	2	27	gly	region	374:379	arg1	polysaccharide-rich detritus			region	polysaccharide-rich detritus					region	Increased macroalgal productivity due to warmer temperatures and reduced sea-ice cover contribute a significant amount of polysaccharide-rich detritus in the region.
32827618	9	22	gly	used	1292:1295	arg2	these composites			these composites						composites	Thus, these composites could potentially be used as dressing materials with antioxidant activity.
33065988	8	0	gly	glycoproteins	1437:1449	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			Therefore, HILIC is a useful tool for the comprehensive characterization of glycoproteins and their isomers.
32102970	9	72	gly	glycopeptides	1720:1732	arg2	N-linked intact glycopeptides			N-linked intact glycopeptides						glycopeptides	A database containing 739 N-glycan masses was constructed and utilized during spectral library search for the identification of N-linked intact glycopeptides.
32102970	9	139	gly	containing	1587:1596	arg1	A database AND 739 N-glycan masses	A database			739 N-glycan masses	Fterm		database			A database containing 739 N-glycan masses was constructed and utilized during spectral library search for the identification of N-linked intact glycopeptides.
33591717	5	33	gly	subunit	996:1002	arg1	β1,3-GlcNAc	subunit			β1,3-GlcNAc	Fterm		subunit			Recently, an alternative WTA glycosyltransferase, TarP, was identified, which also modifies WTA with β-GlcNAc but at the C-3 position (β1,3-GlcNAc) of the WTA ribitol phosphate (RboP) subunit.
32066783	5	22	gly	sialylated	830:839	arg1	PSA	PSA				PUBTATOR		PSA	354		PSA from CTOS was mostly sialylated and the content of Wisteria floribunda agglutinin reactive glycan (LacdiNAc) was similar to that of PSA derived from seminal plasma and 22Rv1.
32205858	6	28	gly	isoform	1028:1034	arg1	previously reported glycan structures	glycodelin isoform			previously reported glycan structures	PUBTATOR		glycodelin isoform	5047		However, several differences, as compared with previously reported glycan structures of normal human decidualized endometrium-derived glycodelin isoform, glycodelin-A (GdA), were also found.
33675758	4	79	gly	glycosylated	481:492	arg1	monoclonal human IgG1	monoclonal human IgG1				OGER		IgG1	P01857		Here, we subjected glycosylated and deglycosylated monoclonal human IgG1 (designated as A33) to a comparative multidisciplinary structural study of both forms.
33675758	4	83	gly	deglycosylated	498:511	arg1	monoclonal human IgG1	monoclonal human IgG1				OGER		IgG1	P01857		Here, we subjected glycosylated and deglycosylated monoclonal human IgG1 (designated as A33) to a comparative multidisciplinary structural study of both forms.
32162920	5	21	gly	sialylated	930:939	arg1	highly sialylated structures				highly sialylated structures						Partial least-squares discriminant analysis (PLS-DA) revealed that five out of fifteen mTf glycan isomers could be potential biomarkers of CIA, most of them corresponding to highly sialylated structures (H6N5S3_2, H6N5S3_3, and H5N4S3_2).
34367227	7	69	gly	glycoproteins	1252:1264	arg1	model glycoproteins	model glycoproteins				Fterm		glycoproteins			Building on previous work, we transiently expressed model glycoproteins from HIV and Marburg virus in Nicotiana benthamiana and mammalian cells.
32477333	9	2	gly	desialylated	1695:1706	arg1	partially demannosylated (0.3-fold, p < 0.0001) and partially desialylated (0.4-fold, p < 0.0001) N-glycans				partially demannosylated (0.3-fold, p < 0.0001) and partially desialylated (0.4-fold, p < 0.0001) N-glycans						The inhibition of TLR-8 in MoDCs resulted in a significant decrease of IL-6 when cells were treated with the unmodified (0.5-fold, p < 0.0001), partially demannosylated (0.3-fold, p < 0.0001) and partially desialylated (0.4-fold, p < 0.0001) N-glycans.
32477333	9	92	gly	demannosylated	1643:1656	arg1	partially demannosylated (0.3-fold, p < 0.0001) and partially desialylated (0.4-fold, p < 0.0001) N-glycans				partially demannosylated (0.3-fold, p < 0.0001) and partially desialylated (0.4-fold, p < 0.0001) N-glycans						The inhibition of TLR-8 in MoDCs resulted in a significant decrease of IL-6 when cells were treated with the unmodified (0.5-fold, p < 0.0001), partially demannosylated (0.3-fold, p < 0.0001) and partially desialylated (0.4-fold, p < 0.0001) N-glycans.
33141553	8	101	gly	content	1587:1593	arg1	serum CLU	CLU			content	PUBTATOR		CLU	1191		The characterization of oligosaccharide content in serum CLU derived from patients with ATTRwt amyloidosis is novel data.
33245474	12	18	gly	glycoprotein	1646:1657	arg1	SARS-CoV-2 S glycoprotein stimulation	SARS-CoV-2 S glycoprotein stimulation				PUBTATOR		S glycoprotein	43740568		Miglustat produced no statistically significant effects on cytokine production following SARS-CoV-2 S glycoprotein stimulation of PBMC.
33484712	3	20	gly	attached	638:645	arg1	the S-protein AND glycans	the S-protein			glycans	PUBTATOR		S-protein	Q15517		Extensive structural and functional studies on this protein have rapidly advanced our understanding of the S-protein structure at atomic resolutions, although most of these structural studies overlook the effect of glycans attached to the S-protein on the conformational stability and functional motions between the inactive down and active up forms.
31964828	5	59	gly	sialylated	750:759	arg1	a triantennary sialylated poly-N-acetyllactosamine-containing N-glycan				a triantennary sialylated poly-N-acetyllactosamine-containing N-glycan						We found that meningococcal Tfp specifically recognize a triantennary sialylated poly-N-acetyllactosamine-containing N-glycan exposed on the human receptor CD147/Basigin, while fucosylated derivatives of this N-glycan impaired bacterial adhesion.
31907375	7	86	gly	fucosylated	1010:1020	arg1	core fucosylated N-glycans				core fucosylated N-glycans						The prominent changes in advanced disease stages were mostly observed in core fucosylated N-glycans with additional fucose (Fuc) residue/s and enhanced branching with non-galactosylated N-acetyl-glucosamine (GlcNAc) units.
31954796	4	21	part_of	chitin	666:671	arg1	the composition	chitin		the composition		Fterm	Site	chitin		position	FChNF nanopapers are potentially applicable in packaging films, composites, or membranes for water treatment due to their distinct surface properties inherited from the composition of chitin and glucan.
32321762	0	17	part_of	site	78:81	arg1	human prion protein	protein		site		Fterm	Site	protein		site	α2,3 linkage of sialic acid to a GPI anchor and an unpredicted GPI attachment site in human prion protein.
32321762	0	31	part_of	GPI	63:65	arg1	an unpredicted GPI attachment site	GPI		an unpredicted GPI attachment site		OGER	Site	GPI	P06744	site	α2,3 linkage of sialic acid to a GPI anchor and an unpredicted GPI attachment site in human prion protein.
32102970	4	35	gly	glycopeptides	960:972	arg2	the enriched N-linked intact glycopeptides			the enriched N-linked intact glycopeptides						glycopeptides	After digestion, the N-linked intact glycopeptides were enriched by hydrophilic interaction liquid chromatography (HILIC) and a portion of the enriched N-linked intact glycopeptides were processed by Peptide-N-Glycosidase F (PNGase F) to generate N-linked deglycopeptides.
32102970	4	67	gly	glycopeptides	829:841	arg2	the N-linked intact glycopeptides			the N-linked intact glycopeptides						glycopeptides	After digestion, the N-linked intact glycopeptides were enriched by hydrophilic interaction liquid chromatography (HILIC) and a portion of the enriched N-linked intact glycopeptides were processed by Peptide-N-Glycosidase F (PNGase F) to generate N-linked deglycopeptides.
32102970	4	75	gly	deglycopeptides	1048:1062	arg2	N-linked deglycopeptides			N-linked deglycopeptides						deglycopeptides	After digestion, the N-linked intact glycopeptides were enriched by hydrophilic interaction liquid chromatography (HILIC) and a portion of the enriched N-linked intact glycopeptides were processed by Peptide-N-Glycosidase F (PNGase F) to generate N-linked deglycopeptides.
32800953	3	56	gly	Se-SPP	691:696	arg1	carbohydrate	Se-SPP			carbohydrate	OGER		Se-SPP	Q8TCT9		The contents of carbohydrate, protein, uronic acid, sulfate and elements (including Se, C, H, O, N, and S) as well as the monosaccharide composition, molecular weight, surface morphology and FT-IR spectra of Se-SPP was compared to that of selenium-free polysaccharide (SPP).
32800953	3	56	gly	Se-SPP	691:696	arg1	the monosaccharide composition	Se-SPP			the monosaccharide composition	OGER		Se-SPP	Q8TCT9		The contents of carbohydrate, protein, uronic acid, sulfate and elements (including Se, C, H, O, N, and S) as well as the monosaccharide composition, molecular weight, surface morphology and FT-IR spectra of Se-SPP was compared to that of selenium-free polysaccharide (SPP).
33878161	7	53	gly	proteins	1065:1072	arg1	hybrid-type N-glycans	proteins			hybrid-type N-glycans	Fterm		proteins			Our results suggest that these cell lines are suitable for the production of therapeutic proteins with hybrid-type N-glycans.
34189908	6	5	gly	glycoproteins	1161:1173	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			Previous glycoprotein synthesis methods required valuable glycosyl asparagine in the early stage and subsequent multiple glycoprotein synthesis routes, whereas the developed concept can generate glycoproteins within a few steps from peptide and glycosyl asparagine thioacid.
34189908	6	75	gly	glycoprotein	1087:1098	arg1	subsequent multiple glycoprotein synthesis	subsequent multiple glycoprotein synthesis				Fterm		glycoprotein			Previous glycoprotein synthesis methods required valuable glycosyl asparagine in the early stage and subsequent multiple glycoprotein synthesis routes, whereas the developed concept can generate glycoproteins within a few steps from peptide and glycosyl asparagine thioacid.
34189908	6	77	gly	glycoprotein	975:986	arg1	Previous glycoprotein synthesis methods	Previous glycoprotein synthesis methods				Fterm		glycoprotein			Previous glycoprotein synthesis methods required valuable glycosyl asparagine in the early stage and subsequent multiple glycoprotein synthesis routes, whereas the developed concept can generate glycoproteins within a few steps from peptide and glycosyl asparagine thioacid.
32896318	5	5	gly	glycoprotein	961:972	arg1	recombinant glycoprotein production	recombinant glycoprotein production				Fterm		glycoprotein			First, we discuss the advantages and disadvantages of using plants as homologous expression systems for recombinant glycoprotein production.
33319171	3	10	gly	glycosylated	384:395	arg1	fully glycosylated HIV-1 Env	fully glycosylated HIV-1 Env				PUBTATOR		HIV-1 Env	64006		Here we have integrated high-throughput atomistic modeling of fully glycosylated HIV-1 Env with graph theory to capture immunologically important features of the shield topology.
33952698	7	37	gly	glycoprotein	1161:1172	arg1	glycoprotein	glycoprotein				Fterm		glycoprotein			The composition of these heterooligomers is dependent on the concentration of Gal-3 as well as on the concentration and type of glycoprotein.
34189908	4	14	gly	glycopeptides	717:729	arg2	yielded glycopeptides			yielded glycopeptides						glycopeptides	We found that diacyl disulfide coupling (DDC) formed with glycosyl asparagine thioacid and peptide thioacid yielded glycopeptides.
34189908	4	48	gly	thioacid	679:686	arg1	yielded glycopeptides			yielded glycopeptides						glycopeptides	We found that diacyl disulfide coupling (DDC) formed with glycosyl asparagine thioacid and peptide thioacid yielded glycopeptides.
33761173	1	22	part_of	proteins	139:146	arg1	specific sites	proteins		specific sites		Fterm	Site	proteins		sites	Identification of N- and O-glycosylation on specific sites of proteins, along with glycan structural information, is necessary to determine the roles glycoproteins play in normal and pathologic cellular functions.
30099598	1	24	gly	glycoproteins	274:286	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			Bacteria have garnered increased interest in recent years as a platform for the biosynthesis of a variety of glycomolecules such as soluble oligosaccharides, surface-exposed carbohydrates, and glycoproteins.
34424958	6	56	part_of	CDR-located	959:969	arg1	CDR-located acceptor sites	CDR		CDR-located acceptor sites		OGER	Site	CDR	Q06455	sites	Acquisition of CDR-located acceptor sites associates with mutations of epigenetic regulators and BCL2 translocations, indicating an origin shared with follicular lymphoma.
32155332	8	17	gly	O-glycosylation	1830:1844	arg2	TTX motifs			motifs						motifs	Our results uncovered the structural basis of the creation of dynamic epitopes by immature O-glycosylation at TTX motifs in mucins that facilitates the identification of high-potential targets for cancer diagnosis and therapy.
34122956	2	49	part_of	MUC1	594:597	arg1	the proximal MUC1 peptide region	MUC1		the proximal MUC1 peptide region		OGER	Site	MUC1	P15941	region	Although extensive efforts have been made toward the development of anticancer antibodies targeting MUC1, one of the most studied mucins having cancer-relevant immature O-glycans, no anti-MUC1 antibody recognises carbohydrates and the proximal MUC1 peptide region, concurrently.
34127537	6	84	gly	N-glycosylation	784:798	arg1	IgA2	IgA2				PUBTATOR		IgA2	973		METHODS To gain insights into the complex O- and N-glycosylation of serum IgA1 and IgA2 in IgAN, we used liquid chromatography-mass spectrometry (LC-MS) for the analysis of tryptic glycopeptides of serum IgA from 83 patients with IgAN and 244 age- and sex-matched healthy controls.
34127537	6	84	gly	N-glycosylation	784:798	arg1	serum IgA1	serum IgA1				PUBTATOR		IgA1	P01876		METHODS To gain insights into the complex O- and N-glycosylation of serum IgA1 and IgA2 in IgAN, we used liquid chromatography-mass spectrometry (LC-MS) for the analysis of tryptic glycopeptides of serum IgA from 83 patients with IgAN and 244 age- and sex-matched healthy controls.
34127537	6	10	gly	glycopeptides	916:928	arg1	serum IgA	IgA		glycopeptides		PUBTATOR		IgA	973	glycopeptides	METHODS To gain insights into the complex O- and N-glycosylation of serum IgA1 and IgA2 in IgAN, we used liquid chromatography-mass spectrometry (LC-MS) for the analysis of tryptic glycopeptides of serum IgA from 83 patients with IgAN and 244 age- and sex-matched healthy controls.
33118822	6	32	gly	glycosylation	1261:1273	arg2	the glycosylation site			the glycosylation site						site	The main glycan structure and relative abundance level were determined, and the glycosylation site was confirmed to be on the Fc fragment Asn 61.
33118822	6	70	gly	fragment	1310:1317	arg1	Asn 61			Asn 61						fragment Asn 61	The main glycan structure and relative abundance level were determined, and the glycosylation site was confirmed to be on the Fc fragment Asn 61.
34761861	7	45	gly	epitope	1485:1491	arg1	Glc				Glc						These results may offer a promising proof-of-concept for the selective purification of high affinity autoantibodies from sera of autoimmune patients, in general, and of specific high affinity antibodies against a minimally glcosylated epitope Asn(Glc) from sera of multiple sclerosis (MS) patients, in particular.
34761861	7	45	gly	epitope	1485:1491	arg1	a minimally glcosylated epitope Asn				a minimally glcosylated epitope Asn						These results may offer a promising proof-of-concept for the selective purification of high affinity autoantibodies from sera of autoimmune patients, in general, and of specific high affinity antibodies against a minimally glcosylated epitope Asn(Glc) from sera of multiple sclerosis (MS) patients, in particular.
33459939	7	29	gly	prerequisite	1409:1420	arg1	common sialic acid derivatization protocols			prerequisite	common sialic acid derivatization protocols					prerequisite	The results unambiguously show that in common sialic acid derivatization protocols prior lactone formation is a prerequisite for the efficient, linkage-specific amidation of α2,3-linked sialic acids, which proceeds predominantly via direct aminolysis.
32420732	2	20	gly	glycosylation	402:414	arg2	the eight glycosylation sites			the eight glycosylation sites						sites	The method has over 97% sequence coverage, including seven of the eight glycosylation sites, and has been used to study the impact of glycosylation on backbone proton exchange.
34834161	5	53	part_of	Fab	1066:1068	arg1	the Fab domain	Fab		the Fab domain		PUBTATOR	Site	Fab	2187	domain	We recently implemented this approach in the Fab region of full-size adalimumab and demonstrated that the thermodynamic stability of the Fab domain increases upon N-glycosite addition.
34834161	5	74	part_of	Fab	974:976	arg1	the Fab region	Fab		the Fab region		PUBTATOR	Site	Fab	2187	region	We recently implemented this approach in the Fab region of full-size adalimumab and demonstrated that the thermodynamic stability of the Fab domain increases upon N-glycosite addition.
34529436	6	10	part_of	S	1152:1152	arg1	S protein receptor binding domains	S protein		S protein receptor binding domains		OGER	Site	S protein	Q15517	domains	In addition, we explored the antibody binding modes and the influences of antibody on the motion of S protein receptor binding domains.
34529436	6	20	part_of	protein	1154:1160	arg1	S protein receptor binding domains	S protein		S protein receptor binding domains		OGER	Site	S protein	Q15517	domains	In addition, we explored the antibody binding modes and the influences of antibody on the motion of S protein receptor binding domains.
32973204	4	16	gly	O-glycopeptide	835:848	arg2	O-glycopeptide chemistry			O-glycopeptide chemistry						O-glycopeptide	In combination with O-glycopeptide chemistry, enzyme kinetics, and computational methods we unveil the molecular mechanism of O-glycan recognition and specificity for OgpA.
34094206	3	39	gly	glycosylation	608:620	arg2	the glycosylation site	protein		site		Fterm		protein		site	Here we report a method for selecting aptamers toward the glycosylation site of a protein.
32544320	8	27	gly	glycoprotein	1169:1180	arg1	extensive glycoprotein analysis	extensive glycoprotein analysis				Fterm		glycoprotein			Glycosylation analysis of human AGP revealed the potential use of PGC-LC-MS for extensive glycoprotein analysis for biomarker discovery.
34375000	0	42	part_of	SARS-CoV-2	49:58	arg1	conserved SARS-CoV-2 glycosylation sites	SARS		conserved SARS-CoV-2 glycosylation sites		OGER	Site	SARS	P49591	sites	Identification of lectin receptors for conserved SARS-CoV-2 glycosylation sites.
33756033	7	21	gly	non-glycosylated	946:961	arg1	non-glycosylated IL-6	non-glycosylated IL-6				PUBTATOR		IL-6	24498		Compared to non-glycosylated IL-6 the plasma clearance of IL-6 glycoforms was delayed in the presence of larger and multibranched N-glycans in most cases.
33756033	7	48	gly	glycoforms	997:1006	arg1	IL-6 glycoforms	IL-6 glycoforms				PUBTATOR		IL-6	24498		Compared to non-glycosylated IL-6 the plasma clearance of IL-6 glycoforms was delayed in the presence of larger and multibranched N-glycans in most cases.
32045434	5	62	gly	hyperglycosylated	803:819	arg1	hyperglycosylated hCG	hyperglycosylated hCG				OGER		hCG			In this study, we perform comparative N-glycomic analysis of hCG expressed in the same individuals during early and late pregnancy to help provide new insights into hCG function, reveal new targets for diagnostics and clarify the identity of hyperglycosylated hCG.
34611825	1	10	gly	glycoproteins	208:220	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			Lectins are glycoproteins and known for their peculiar carbohydrate-binding activity and their insect-pest-resistant properties.
33735360	9	53	gly	fucosylated	1705:1715	arg1	two fucosylated compositions			two fucosylated compositions						positions	It was found that mainly high mannose N-glycans, including H5N2, H6N2, and H7N2, and two fucosylated compositions (H3N3F1 and H5N5F1) showed strong discrimination between IDC and controls.
34369795	5	61	gly	protein	740:746	arg1	the isomeric glycan distribution	protein			the isomeric glycan distribution	Fterm		protein			However, none of the studies have explored the isomeric glycan distribution of this protein.
34424958	1	58	gly	Glycosylation	119:131	arg1	the surface immunoglobulin (Ig) variable region			the surface immunoglobulin (Ig) variable region						region	Glycosylation of the surface immunoglobulin (Ig) variable region is a remarkable follicular lymphoma-associated feature rarely seen in normal B cells.
31961140	10	55	gly	glycoproteins	1858:1870	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			Finally, we show how the comparison of the reactivity of CUPRA substrates and glycan substrates present on glycoproteins, measured simultaneously, affords a unique opportunity to quantitatively study how the structure and protein environment of natural glycoconjugate substrates influences CAZyme activity.
32216024	6	26	gly	proteinaceous	1349:1361	arg1	carbohydrates	proteinaceous			carbohydrates	Fterm		proteinaceous			The extracellular polymeric matrix (EPM) produced by the biofilm cells was mostly proteinaceous, with a small amount of carbohydrates (up to 3%).
32102970	7	52	gly	deglycopeptides	1396:1410	arg2	the N-linked deglycopeptides			the N-linked deglycopeptides						deglycopeptides	Four types of N-linked glycosylation motifs (NXS/T/C/V, X≠P) were used to recognize the N-linked deglycopeptides.
32102970	7	131	gly	glycosylation	1322:1334	arg2	N-linked glycosylation motifs			N-linked glycosylation motifs						motifs	Four types of N-linked glycosylation motifs (NXS/T/C/V, X≠P) were used to recognize the N-linked deglycopeptides.
32309832	11	14	part_of	proteins	1787:1794	arg1	higher peptide-coverage	proteins		higher peptide-coverage		Fterm	Site	proteins		peptide-coverage	The method is more efficient (single-pot) than available parallel (multi-pot) release methods, and removal of GAGs facilitates the identification of the proteins with higher peptide-coverage than using conventional-proteomics.
32088200	9	11	part_of	PSA-modified	1275:1286	arg1	PSA-modified glycopeptides	PSA		PSA-modified glycopeptides		OGER	Site	PSA	Q9Y617	glycopeptides	PSA-modified glycopeptides are not detectable by LC-ESI-MS/MS, but become detectable after desialylation, allowing measurement of site-specific PSA occupancy.
34364435	1	54	gly	glycopeptides	278:290	arg2	intact glycopeptides			intact glycopeptides						glycopeptides	Mass spectrometry (MS)-based strategies and related software tools using glycan mass lists have greatly facilitated the analysis of intact glycopeptides.
32477333	4	28	gly	desialylated	691:702	arg1	its partially demannosylated and partially desialylated form				its partially demannosylated and partially desialylated form						We investigated the effects of N-glycans in their native form, as well as in its partially demannosylated and partially desialylated form, on HEK293 cells expressing TLR-8, and in human monocyte-derived dendritic cells (MoDCs).
32477333	4	75	gly	demannosylated	662:675	arg1	its partially demannosylated and partially desialylated form				its partially demannosylated and partially desialylated form						We investigated the effects of N-glycans in their native form, as well as in its partially demannosylated and partially desialylated form, on HEK293 cells expressing TLR-8, and in human monocyte-derived dendritic cells (MoDCs).
33835347	8	54	gly	N-glycopeptides	1481:1495	arg2	52 differentially expressed intact N-glycopeptides			52 differentially expressed intact N-glycopeptides						N-glycopeptides	With the criteria of ≥1.5-fold change and p value<0.05, 52 differentially expressed intact N-glycopeptides (DEGPs) were found in pancreatic cancer tussues relative to control, where 38 up-regulated and 14 down-regulated, respectively.
32871472	15	70	gly	N-glycosylated	1724:1737	arg1	N-glycosylated and ubiquitinated PD-L1	N-glycosylated and ubiquitinated PD-L1				PUBTATOR		PD-L1	29126		These models of N-glycosylated and ubiquitinated PD-L1 will be useful to study other PD-L1 protein complexes.
32756606	2	16	part_of	S	418:418	arg1	the receptor-binding domain	Spike Protein S		the receptor-binding domain		PUBTATOR	Site	Spike Protein S	43740568	domain	These models are tested in their interaction with a fragment of the receptor-binding domain (RBD) of the Spike Protein S of the SARS-CoV-2 virus, via atomistic molecular dynamics simulations.
32756606	2	38	part_of	receptor-binding	367:382	arg1	the receptor-binding domain	receptor		the receptor-binding domain		Fterm	Site	receptor		domain	These models are tested in their interaction with a fragment of the receptor-binding domain (RBD) of the Spike Protein S of the SARS-CoV-2 virus, via atomistic molecular dynamics simulations.
32544320	7	19	gly	glycopeptide	993:1004	arg2	glycopeptide			glycopeptide						glycopeptide	The specific structures of the glycopeptide isomers were identified and confirmed through exoglycosidase digestions.
34925381	4	63	gly	Ad-S-D428N	1010:1019	arg1	Glycan-masking	S			Glycan-masking	PUBTATOR		S	Q15517		Glycan-masking of Ad-S-D428N in the RBD resulted in a 3.0-fold and 2.0-fold increase in the IC-50 neutralization titer against the Alpha (B.1.1.7) and Beta (B.1.351) variants, respectively.
34494876	15	79	gly	deglycosylation	2351:2365	arg1	ACE2	ACE2				PUBTATOR		ACE2	Q9BYF1		Our data suggest that the role of deglycosylation of ACE2 on reducing infection is likely due to a reduced expression of the viral receptor on the cell surface.
31949166	7	12	part_of	subunit	1084:1090	arg1	the stem domain	subunit		the stem domain		OGER	Site	subunit	79147	domain	In the acceptor complex, the phosphate group of RboP is recognized by the catalytic domain of one subunit, and a phosphate group on O-mannose is recognized by the stem domain of another subunit.
31949166	7	20	part_of	subunit	996:1002	arg1	the catalytic domain	subunit		the catalytic domain		OGER	Site	subunit	79147	domain	In the acceptor complex, the phosphate group of RboP is recognized by the catalytic domain of one subunit, and a phosphate group on O-mannose is recognized by the stem domain of another subunit.
34767945	9	87	gly	PGD-	1560:1563	arg1	significantly increased IgG1 N-glycan signatures	PGD			significantly increased IgG1 N-glycan signatures	OGER		PGD	P52209		COPD-LTx recipients who developed PGD had significantly increased IgG1 N-glycan signatures as compared PGD- recipients.
33077685	3	19	gly	N-glycosites	382:393	arg2	All 22 potential N-glycosites			All 22 potential N-glycosites						N-glycosites	All 22 potential N-glycosites were identified in the S-protein protomer and were found to be preserved among the 753 SARS-CoV-2 genome sequences.
35662980	9	43	gly	glycosylation	1554:1566	arg1	KO mgat1	KO mgat1				OGER		KO mgat1	Q91ZV4		Eliminating the capacity for complex-type glycosylation in cells (KO mgat1) revealed that glycosites with complex-type N-glycans when converted to high mannose lost the core Fuc.
35662980	9	106	gly	glycosites	1602:1611	arg2	glycosites			glycosites	complex-type N-glycans					glycosites	Eliminating the capacity for complex-type glycosylation in cells (KO mgat1) revealed that glycosites with complex-type N-glycans when converted to high mannose lost the core Fuc.
32178593	0	23	gly	glycoprotein	87:98	arg1	spike glycoprotein	spike glycoprotein				Fterm		glycoprotein			Emerging WuHan (COVID-19) coronavirus: glycan shield and structure prediction of spike glycoprotein and its interaction with human CD26.
32799357	2	36	gly	acceptor	676:683	arg1	the homogalacturonan (pectin) fragment			the homogalacturonan (pectin) fragment						fragment	We discover that these isozymes catalyse the transglycosylation reactions with the chemically defined donor and acceptor substrates, specifically with the xyloglucan donor and the penta-galacturonide [α(1-4)GalAp]5 acceptor - the homogalacturonan (pectin) fragment.
33564762	0	37	gly	O-glycosylation	14:28	arg1	SARS-CoV-2 spike protein	SARS-CoV-2 spike protein				PUBTATOR		spike protein	43740568		Site-specific O-glycosylation analysis of SARS-CoV-2 spike protein produced in insect and human cells.
34000456	8	69	gly	glycoproteins	1353:1365	arg1	their target glycoproteins	their target glycoproteins				Fterm		glycoproteins			Our findings demonstrated the aberrant levels of multi-antennary branching structures and their target glycoproteins on PTX resistance.
33064451	0	21	gly	Proteins	68:75	arg1	the Glycan Complement	Spike Proteins			the Glycan Complement	PUBTATOR		Spike Proteins	43740568		Comprehensive Analysis of the Glycan Complement of SARS-CoV-2 Spike Proteins Using Signature Ions-Triggered Electron-Transfer/Higher-Energy Collisional Dissociation (EThcD) Mass Spectrometry.
33952698	6	58	gly	glycoproteins	946:958	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			We showed that Gal-3 oligomerization triggered by binding to glycoproteins is a dynamic process analogous to liquid-liquid phase separation (LLPS).
32216024	2	107	part_of	strain	440:445	arg1	biopolymers composition	strain		biopolymers composition		Fterm	Site	strain		position	METHODS AND RESULTS Differences in biopolymers composition from planktonic and biofilm cells of H. lusitanum strain P6-12 were analysed using Fourier transform infrared spectroscopy (FTIR), sodium dodecyl sulphate-polyacrylamide gel electrophoresis, gas-liquid chromatography and spectrophotometry.
32438810	4	21	gly	fucosylated	753:763	arg1	fucosylated di-antennary glycans				fucosylated di-antennary glycans						We identified specific signature glycans for these main proteins; lactoferrin contributes oligomannose-type glycans, while IgG carries fucosylated di-antennary glycans with Gal-β(1,4)-GlcNAc (LacNAc) motifs.
32438810	4	43	gly	carries	745:751	arg1	IgG AND fucosylated di-antennary glycans	IgG			fucosylated di-antennary glycans	Cterm		IgG			We identified specific signature glycans for these main proteins; lactoferrin contributes oligomannose-type glycans, while IgG carries fucosylated di-antennary glycans with Gal-β(1,4)-GlcNAc (LacNAc) motifs.
32959924	2	16	part_of	GLMP	372:375	arg1	the luminal domain	GLMP		the luminal domain		PUBTATOR	Site	GLMP	112770	domain	We here refined the molecular interaction of the two proteins and found that the luminal domain of GLMP alone, but not its transmembrane domain or its short cytosolic tail, conveys protection and mediates the interaction with MFSD1.
32149324	2	84	gly	N-glycosylated	428:441	arg1	N-glycosylated peptides			N-glycosylated peptides						peptides	We now report the first quantitative studies of both the expression of N-linked glycans at six early development stages and the expression of N-glycosylated peptides at two early development stages in Xenopus laevis, the African clawed frog.
34758294	5	8	gly	O-fucosylation	718:731	arg1	tryptophan			tryptophan						tryptophan	In the 1.65 Å crystal structure of the BAI1/RTN4-receptor complex, C-mannosylation of tryptophan and O-fucosylation of threonine in the BAI TSR-domains creates a RTN4-receptor/BAI interface shaped by unusual glycoconjugates that enables high-affinity interactions.
34758294	5	8	gly	O-fucosylation	718:731	arg1	threonine			threonine						threonine	In the 1.65 Å crystal structure of the BAI1/RTN4-receptor complex, C-mannosylation of tryptophan and O-fucosylation of threonine in the BAI TSR-domains creates a RTN4-receptor/BAI interface shaped by unusual glycoconjugates that enables high-affinity interactions.
34758294	5	26	gly	C-mannosylation	684:698	arg1	tryptophan			tryptophan						tryptophan	In the 1.65 Å crystal structure of the BAI1/RTN4-receptor complex, C-mannosylation of tryptophan and O-fucosylation of threonine in the BAI TSR-domains creates a RTN4-receptor/BAI interface shaped by unusual glycoconjugates that enables high-affinity interactions.
34758294	5	26	gly	C-mannosylation	684:698	arg1	threonine			threonine						threonine	In the 1.65 Å crystal structure of the BAI1/RTN4-receptor complex, C-mannosylation of tryptophan and O-fucosylation of threonine in the BAI TSR-domains creates a RTN4-receptor/BAI interface shaped by unusual glycoconjugates that enables high-affinity interactions.
34758294	5	28	gly	threonine	736:744	arg1	O-fucosylation			threonine	O-fucosylation					threonine	In the 1.65 Å crystal structure of the BAI1/RTN4-receptor complex, C-mannosylation of tryptophan and O-fucosylation of threonine in the BAI TSR-domains creates a RTN4-receptor/BAI interface shaped by unusual glycoconjugates that enables high-affinity interactions.
34758294	5	28	gly	threonine	736:744	arg1	C-mannosylation			threonine	C-mannosylation					threonine	In the 1.65 Å crystal structure of the BAI1/RTN4-receptor complex, C-mannosylation of tryptophan and O-fucosylation of threonine in the BAI TSR-domains creates a RTN4-receptor/BAI interface shaped by unusual glycoconjugates that enables high-affinity interactions.
34758294	5	42	gly	tryptophan	703:712	arg1	O-fucosylation			tryptophan	O-fucosylation					tryptophan	In the 1.65 Å crystal structure of the BAI1/RTN4-receptor complex, C-mannosylation of tryptophan and O-fucosylation of threonine in the BAI TSR-domains creates a RTN4-receptor/BAI interface shaped by unusual glycoconjugates that enables high-affinity interactions.
34758294	5	42	gly	tryptophan	703:712	arg1	C-mannosylation			tryptophan	C-mannosylation					tryptophan	In the 1.65 Å crystal structure of the BAI1/RTN4-receptor complex, C-mannosylation of tryptophan and O-fucosylation of threonine in the BAI TSR-domains creates a RTN4-receptor/BAI interface shaped by unusual glycoconjugates that enables high-affinity interactions.
34758294	5	52	gly	O-fucosylation	718:731	arg1	the BAI TSR-domains			TSR-domains	the BAI TSR-domains		Site			TSR-domains	In the 1.65 Å crystal structure of the BAI1/RTN4-receptor complex, C-mannosylation of tryptophan and O-fucosylation of threonine in the BAI TSR-domains creates a RTN4-receptor/BAI interface shaped by unusual glycoconjugates that enables high-affinity interactions.
34758294	5	47	gly	C-mannosylation	684:698	arg1	the BAI TSR-domains			TSR-domains	the BAI TSR-domains		Site			TSR-domains	In the 1.65 Å crystal structure of the BAI1/RTN4-receptor complex, C-mannosylation of tryptophan and O-fucosylation of threonine in the BAI TSR-domains creates a RTN4-receptor/BAI interface shaped by unusual glycoconjugates that enables high-affinity interactions.
33093110	4	9	gly	O-glycans	620:628	arg1	proximal colon-derived Muc2	Muc2			O-glycans	PUBTATOR		Muc2	Q02817		In turn, O-glycans on proximal colon-derived Muc2 modulate the structure and function of the microbiota as well as transcription in the colon mucosa.
34633372	3	41	gly	glycoproteins	384:396	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			Most commercially available biopharmaceutical proteins are glycoproteins.
34633372	3	41	gly	glycoproteins	384:396	arg1	Most commercially available biopharmaceutical proteins	Most commercially available biopharmaceutical proteins				Fterm		proteins			Most commercially available biopharmaceutical proteins are glycoproteins.
32902264	7	85	gly	N-glycopeptides	1240:1254	arg2	α-galactosyl N-glycopeptides			α-galactosyl N-glycopeptides						N-glycopeptides	The measure of [I/I > 0.3] enabled a clear-cut determination of α-galactosyl N-glycopeptides with high accuracy.
32335838	8	38	part_of	BNC-CaCO3	1388:1396	arg1	BNC-CaCO3 composite	BNC		BNC-CaCO3 composite		OGER	Site	BNC	Q01954	composite	Overall, the above results suggest that cellulose produced by K. xylinus strain SGP8 showed excellent material properties, and modified BNC (BNC-CaCO3 composite) could effectively be used for remediation of toxic levels of Cd from the contaminated system.
32578950	6	35	gly	glycoprotein	1164:1175	arg1	glycoprotein research	glycoprotein research				Fterm		glycoprotein			The obtained results can be utilized in glycoprotein research.
32505675	1	18	gly	containing	154:163	arg1	large extracellular domains AND up to 36 tandem epidermal growth factor-like (EGF) repeats			large extracellular domains	up to 36 tandem epidermal growth factor-like (EGF) repeats					domains	Notch receptors have large extracellular domains containing up to 36 tandem epidermal growth factor-like (EGF) repeats, which facilitate cell signaling by binding ligands on neighboring cells.
34583196	1	52	gly	glycoprotein	141:152	arg1	a glycoprotein	glycoprotein			α-Dystroglycan	Fterm		glycoprotein			α-Dystroglycan (α-DG) is a glycoprotein specifically modified with O-mannosyl glycans bearing long polysaccharides, termed matriglycans, which comprise repeating units of glucuronic acid and xylose.
33734311	0	3	gly	α1,6-fucosyltransferase	94:116	arg1	the glycan substrate acceptability	1,6-fucosyltransferase			the glycan substrate acceptability	PUBTATOR		1,6-fucosyltransferase	2530		Appropriate aglycone modification significantly expands the glycan substrate acceptability of α1,6-fucosyltransferase (FUT8).
34051603	2	2	part_of	-β-Galp-	533:540	arg1	position	Galp		position		OGER	Site	Galp	Q9UBC7	position	The chemical and spectral methods revealed a main polymer chain consisting of (1 → 6) β-galactopyranose residues, where in position of C-3 were the residues of α-arabinofuranose and its 1,5-linked oligomers, as well as β-GlcpA-4-OMe-(1 → 6)-β-Galp-(1→ fragments.
31959207	5	125	part_of	hRSPO1	941:946	arg1	The hRSPO1 coding sequence	hRSPO1		The hRSPO1 coding sequence		PUBTATOR	Site	hRSPO1	284654	sequence	The hRSPO1 coding sequence was synthesized and subcloned into a mammalian cell expression vector.
32404934	6	15	gly	glycosylation	865:877	arg1	mucosal glycoproteins	mucosal glycoproteins				Fterm		glycoproteins			These data reveal that TFF activity is dependent on the glycosylation state of mucosal glycoproteins and alludes to a lectin function for trefoil domains in other human proteins.
32404934	6	27	gly	glycoproteins	896:908	arg1	mucosal glycoproteins	mucosal glycoproteins				Fterm		glycoproteins			These data reveal that TFF activity is dependent on the glycosylation state of mucosal glycoproteins and alludes to a lectin function for trefoil domains in other human proteins.
33141553	7	79	gly	CLU	1504:1506	arg1	glycan content	CLU			glycan content	PUBTATOR		CLU	1191		In the present study, we provide comprehensive detail of compositional findings from mass spectrometry analyses of amino acid and glycan content of CLU purified from ATTRwt and control sera.
32902264	8	24	gly	N-glycoproteins	1335:1349	arg1	any α-galactosyl N-glycoproteins	any α-galactosyl N-glycoproteins				Fterm		N-glycoproteins			In Ggta1 knockout mice, we could not find any α-galactosyl N-glycoproteins identified in WT mice plasma.
32896318	2	44	gly	glycoproteins	257:269	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			Studying glycoproteins is often challenging due to their subcellular localization (many secreted or membrane associated) and the extent of glycosylation present on the protein backbone, which can have profound effects on protein structure and behavior.
33068214	6	11	gly	O-glycosites	1248:1259	arg2	O-glycosites			O-glycosites						O-glycosites	In this study, we investigated conditions of solid phase extraction (SPE) enrichment, protease digestion, and Electron-transfer/Higher Energy Collision Dissociation (EThcD) fragmentation to optimize identification of O-glycosites in densely glycosylated proteins.
33068214	6	51	gly	glycosylated	1272:1283	arg1	densely glycosylated proteins	densely glycosylated proteins				Fterm		proteins			In this study, we investigated conditions of solid phase extraction (SPE) enrichment, protease digestion, and Electron-transfer/Higher Energy Collision Dissociation (EThcD) fragmentation to optimize identification of O-glycosites in densely glycosylated proteins.
33245474	4	13	gly	glycoproteins	697:709	arg1	human ACE2 glycoproteins	human ACE2 glycoproteins				PUBTATOR		ACE2 glycoproteins	59272		Expression plasmids encoding SARS-CoV-2 spike (S) and human ACE2 glycoproteins (GP) were tested to evaluate N-glycan modifications induced by α-glucosidase inhibition.
32904601	3	11	gly	occupied	662:669	arg2	All seven glycosylation sites			All seven glycosylation sites						sites	All seven glycosylation sites in human angiotensin I converting enzyme 2 (hACE2) were found to be completely occupied, mainly by complex N-glycans.
32904601	3	62	gly	glycosylation	563:575	arg2	All seven glycosylation sites			All seven glycosylation sites						sites	All seven glycosylation sites in human angiotensin I converting enzyme 2 (hACE2) were found to be completely occupied, mainly by complex N-glycans.
34102345	6	26	gly	N-glycans	927:935	arg1	glycoproteins	glycoproteins			N-glycans	Fterm		glycoproteins			SIGNIFICANCE: We described a new method, which can successfully remove HMOs, further extract and purify the N-glycans on glycoproteins from pooled human milk for MALDI-TOF MS analysis by applying acetone precipitation and FASP together.
34102345	6	67	gly	glycoproteins	940:952	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			SIGNIFICANCE: We described a new method, which can successfully remove HMOs, further extract and purify the N-glycans on glycoproteins from pooled human milk for MALDI-TOF MS analysis by applying acetone precipitation and FASP together.
32815134	1	5	gly	glycoproteins	180:192	arg1	the surface-layer (S-layer) glycoproteins	the surface-layer (S-layer) glycoproteins				Fterm		glycoproteins			The objective of this chapter is to provide a detailed purification protocol for the surface-layer (S-layer) glycoproteins of the periodontal pathogen Tannerella forsythia.
32423029	2	78	gly	containing	488:497	arg1	ECD AND 29-36 epidermal growth factor-like (EGF) repeats	ECD		domains	29-36 epidermal growth factor-like (EGF) repeats	OGER		ECD	O95905	domains	Notch receptors are type-I transmembrane proteins with large extracellular domains (ECD), containing 29-36 epidermal growth factor-like (EGF) repeats.
34004145	4	45	gly	sialylated	465:474	arg1	sialylated glycans				sialylated glycans						Using a battery of chemical and biochemical approaches, we found that conserved small noncoding RNAs bear sialylated glycans.
32871472	0	47	gly	N-glycosylation	0:14	arg1	PD-L1	PD-L1				PUBTATOR		PD-L1	29126		N-glycosylation and ubiquitinylation of PD-L1 do not restrict interaction with BMS-202: A molecular modeling study.
34375000	3	2	gly	residues	440:447	arg1	SARS-CoV-2	SARS			residues	OGER		SARS	P49591		Here we used a comprehensive library of mammalian carbohydrate-binding proteins (lectins) to probe critical sugar residues on the full-length trimeric Spike and the receptor binding domain (RBD) of SARS-CoV-2.
34375000	3	2	gly	residues	440:447	arg1	the receptor binding domain			the receptor binding domain	the receptor binding domain		Site			domain	Here we used a comprehensive library of mammalian carbohydrate-binding proteins (lectins) to probe critical sugar residues on the full-length trimeric Spike and the receptor binding domain (RBD) of SARS-CoV-2.
33734311	8	75	gly	sialylation	1343:1353	arg1	N-glycans				N-glycans						We also found that sialylation of N-glycans significantly reduced their activity as a substrate of FUT8.
32502344	2	67	gly	glycosylation	243:255	arg1	their terminal motif			motif						motif	For membrane proteins, glycosylation at their terminal motif is usually more functional.
33650863	3	39	gly	glycosylation	371:383	arg1	UMOD	UMOD				PUBTATOR		UMOD	7369		To perform comprehensive glycosylation analysis of UMOD from urine samples with limited volumes, we developed a streamlined workflow that included UMOD isolation from 5 mL of urine from 6 healthy adult donors (3 males and 3 females) and a glycosylation analysis using a highly sensitive and reproducible nanoLC-MS/MS based glycomics approach.
33871970	0	41	part_of	SARS-CoV-2	46:55	arg1	SARS-CoV-2 RBD Domains	SARS		SARS-CoV-2 RBD Domains		OGER		SARS	P49591		Structural and Functional Characterization of SARS-CoV-2 RBD Domains Produced in Mammalian Cells.
32102970	5	138	part_of	N-linked	1070:1077	arg1	N-linked intact glycopeptides	Both N-linked		N-linked intact glycopeptides		Cterm	Site	Both N-linked		glycopeptides and deglycopeptides	Both N-linked intact glycopeptides and deglycopeptides were analyzed by LC-MS/MS.
33157282	4	46	part_of	EPO-Fc	650:655	arg1	the EPO-Fc and GnT-IVa sequences	EPO		the EPO-Fc and GnT-IVa sequences		OGER	Site	EPO	P01588	sequences	Adenoviral vectors, containing the EPO-Fc and GnT-IVa sequences were assembled for in vitro and in vivo expression in mammalian cell culture or in goat mammary gland.
33157282	4	51	part_of	GnT-IVa	661:667	arg1	the EPO-Fc and GnT-IVa sequences	GnT-IVa		the EPO-Fc and GnT-IVa sequences		PUBTATOR	Site	GnT-IVa	11320	sequences	Adenoviral vectors, containing the EPO-Fc and GnT-IVa sequences were assembled for in vitro and in vivo expression in mammalian cell culture or in goat mammary gland.
33063473	6	19	gly	Glycosylation	946:958	arg1	N58			N58						N58	Glycosylation of asparagine 58 (N58) promotes the interaction with camrelizumab, while the efficiency of camrelizumab to inhibit the binding of PD-L1 is substantially reduced for glycosylation-deficient PD-1.
33063473	6	19	gly	Glycosylation	946:958	arg1	asparagine 58			asparagine 58						asparagine 58	Glycosylation of asparagine 58 (N58) promotes the interaction with camrelizumab, while the efficiency of camrelizumab to inhibit the binding of PD-L1 is substantially reduced for glycosylation-deficient PD-1.
34328324	0	44	part_of	Spike	55:59	arg1	the SARS-CoV-2 Spike Protein Receptor-Binding Domain	Spike Protein		the SARS-CoV-2 Spike Protein Receptor-Binding Domain		PUBTATOR		Spike Protein	43740568		Structural O-Glycoform Heterogeneity of the SARS-CoV-2 Spike Protein Receptor-Binding Domain Revealed by Top-Down Mass Spectrometry.
34328324	0	91	part_of	SARS-CoV-2	44:53	arg1	the SARS-CoV-2 Spike Protein Receptor-Binding Domain	SARS		the SARS-CoV-2 Spike Protein Receptor-Binding Domain		OGER		SARS	P49591		Structural O-Glycoform Heterogeneity of the SARS-CoV-2 Spike Protein Receptor-Binding Domain Revealed by Top-Down Mass Spectrometry.
34328324	0	96	part_of	Protein	61:67	arg1	the SARS-CoV-2 Spike Protein Receptor-Binding Domain	Spike Protein		the SARS-CoV-2 Spike Protein Receptor-Binding Domain		PUBTATOR		Spike Protein	43740568		Structural O-Glycoform Heterogeneity of the SARS-CoV-2 Spike Protein Receptor-Binding Domain Revealed by Top-Down Mass Spectrometry.
34478797	1	48	gly	polysaccharides	235:249	arg1	radix ginseng Rubra	Rubra (RGR			polysaccharides	OGER		Rubra (RGR	P47804		The present study was undertaken to explore the structure characteristics, immune regulation, and anti-cancer abilities of polysaccharides in radix ginseng Rubra (RGR).
33080533	0	98	gly	fucosylated	15:25	arg1	fucosylated N-glycan isomer separation				fucosylated N-glycan isomer separation						Enhancement of fucosylated N-glycan isomer separation with an ultrahigh column temperature in porous graphitic carbon liquid chromatography-mass spectrometry.
33564762	6	51	gly	O-glycosites	1077:1088	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.
33564762	6	89	gly	N-glycosites	1139:1150	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.
33709491	0	32	part_of	SARS-CoV-2	40:49	arg1	the SARS-CoV-2 Spike Receptor-Binding Domain	SARS		the SARS-CoV-2 Spike Receptor-Binding Domain		OGER		SARS	P49591		Synthetic Homogeneous Glycoforms of the SARS-CoV-2 Spike Receptor-Binding Domain Reveals Different Binding Profiles of Monoclonal Antibodies.
33709491	0	35	part_of	Receptor-Binding	57:72	arg1	the SARS-CoV-2 Spike Receptor-Binding Domain	Spike Receptor-Binding Domain		the SARS-CoV-2 Spike Receptor-Binding Domain		PUBTATOR		Spike Receptor-Binding Domain	43740568		Synthetic Homogeneous Glycoforms of the SARS-CoV-2 Spike Receptor-Binding Domain Reveals Different Binding Profiles of Monoclonal Antibodies.
33709491	0	39	part_of	Spike	51:55	arg1	the SARS-CoV-2 Spike Receptor-Binding Domain	Spike Receptor-Binding Domain		the SARS-CoV-2 Spike Receptor-Binding Domain		PUBTATOR		Spike Receptor-Binding Domain	43740568		Synthetic Homogeneous Glycoforms of the SARS-CoV-2 Spike Receptor-Binding Domain Reveals Different Binding Profiles of Monoclonal Antibodies.
32902264	4	47	part_of	N-glycopeptides	738:752	arg1	mice glycoproteins	glycoproteins		N-glycopeptides		Fterm	Site	glycoproteins		N-glycopeptides	Here, we describe a method to identify α-galactosyl N-glycopeptides in mice glycoproteins using liquid chromatography with tandem mass spectrometry with higher-energy collisional dissociation (HCD).
34174476	5	104	part_of	Acp54A1	829:835	arg1	The mature CG42782, Met75C and Acp54A1 peptides	Acp54A1		The mature CG42782, Met75C and Acp54A1 peptides		PUBTATOR	Site	Acp54A1	4379879	peptides	The mature CG42782, Met75C and Acp54A1 peptides each have a cyclic structure formed by a disulfide bond, which will reduce conformational freedom and enhance metabolic stability.
34174476	5	111	part_of	CG42782	809:815	arg1	The mature CG42782, Met75C and Acp54A1 peptides	CG42782		The mature CG42782, Met75C and Acp54A1 peptides		PUBTATOR	Site	CG42782	10178908	peptides	The mature CG42782, Met75C and Acp54A1 peptides each have a cyclic structure formed by a disulfide bond, which will reduce conformational freedom and enhance metabolic stability.
33792699	3	23	gly	glycoprotein	419:430	arg1	ERC/mesothelin	ERC/mesothelin				PUBTATOR		ERC/mesothelin	10232		ERC/mesothelin is a glycoprotein that is highly expressed on several types of cancers including epithelioid mesothelioma, but also expressed on normal mesothelial cells.
33792699	3	23	gly	glycoprotein	419:430	arg1	a glycoprotein	a glycoprotein				Fterm		glycoprotein			ERC/mesothelin is a glycoprotein that is highly expressed on several types of cancers including epithelioid mesothelioma, but also expressed on normal mesothelial cells.
32236230	10	1	gly	di-sialylation	1700:1713	arg1	Herceptin	Herceptin				Fterm		Herceptin			2-AB hydrophilic interaction chromatography analysis of the released N-glycans and intact mass characterization confirmed the high di-sialylation of Herceptin via the optimized one-pot three-enzyme reaction.
32236230	10	23	gly	Herceptin	1718:1726	arg1	the high di-sialylation	Herceptin			the high di-sialylation	Fterm		Herceptin			2-AB hydrophilic interaction chromatography analysis of the released N-glycans and intact mass characterization confirmed the high di-sialylation of Herceptin via the optimized one-pot three-enzyme reaction.
33952698	0	23	part_of	N-terminal	11:20	arg1	Galectin-3 N-terminal tail prolines	Galectin-3 N-terminal		Galectin-3 N-terminal tail prolines		PUBTATOR	AminoAcid	Galectin-3 N-terminal	3958	prolines	Galectin-3 N-terminal tail prolines modulate cell activity and glycan-mediated oligomerization/phase separation.
33952698	0	27	part_of	Galectin-3	0:9	arg1	Galectin-3 N-terminal tail prolines	Galectin-3 N-terminal		Galectin-3 N-terminal tail prolines		PUBTATOR	AminoAcid	Galectin-3 N-terminal	3958	prolines	Galectin-3 N-terminal tail prolines modulate cell activity and glycan-mediated oligomerization/phase separation.
33564762	7	29	gly	O-glycosylation	1162:1176	arg1	peptides			peptides						peptides	However, O-glycosylation was primarily found on peptides that were unoccupied by N-glycans, and otherwise had low overall occupancy.
34122956	3	28	part_of	MUC1	794:797	arg1	homogeneous synthetic MUC1 glycopeptides	MUC1		homogeneous synthetic MUC1 glycopeptides		OGER	Site	MUC1	P15941	glycopeptides	Here we present a general strategy that allows for the creation of antibodies interacting specifically with glycopeptidic neoepitopes by using homogeneous synthetic MUC1 glycopeptides designed for the streamlined process of immunization, antibody screening, three-dimensional structure analysis, epitope mapping and biochemical analysis.
34806714	6	50	gly	attached	1164:1171	arg1	peptides AND common glycans			peptides	common glycans					peptides	By analyzing the frequency of unique modifications observed on peptide sequences, open searching techniques allow the identification of common glycans attached to peptides within complex samples.
32005658	5	71	gly	sialylated	1154:1163	arg1	heavily sialylated CHO-sKlotho	heavily sialylated CHO-sKlotho				Cterm		CHO-sKlotho	Q9UEF7		Chinese hamster ovary (CHO)- and human embryonic kidney (HEK)-derived WT sKlotho proteins had varied activities in FGF23 co-receptor and β-glucuronidase assays in vitro and distinct properties in vivo Sialidase treatment of heavily sialylated CHO-sKlotho increased its co-receptor activity 3-fold, yet it remained less active than hyposialylated HEK-sKlotho.
32005658	5	89	gly	hyposialylated	1253:1266	arg1	hyposialylated HEK-sKlotho	hyposialylated HEK-sKlotho				OGER		HEK	P29320		Chinese hamster ovary (CHO)- and human embryonic kidney (HEK)-derived WT sKlotho proteins had varied activities in FGF23 co-receptor and β-glucuronidase assays in vitro and distinct properties in vivo Sialidase treatment of heavily sialylated CHO-sKlotho increased its co-receptor activity 3-fold, yet it remained less active than hyposialylated HEK-sKlotho.
33688648	2	32	part_of	protein	481:487	arg1	the S protein regional-binding domain	S protein		the S protein regional-binding domain		OGER	Site	S protein	Q15517	domain	However, the structures and relative abundance of the new O-glycans found on the S protein regional-binding domain (S-RBD) remain cryptic because of the challenges in intact glycoform analysis.
33688648	2	78	part_of	S	479:479	arg1	the S protein regional-binding domain	S protein		the S protein regional-binding domain		OGER	Site	S protein	Q15517	domain	However, the structures and relative abundance of the new O-glycans found on the S protein regional-binding domain (S-RBD) remain cryptic because of the challenges in intact glycoform analysis.
33657316	6	25	gly	trimers	1300:1306	arg1	glycan processing	S protein trimers			glycan processing	PUBTATOR		S protein trimers	7448		The breadth of the glycan mass distribution therefore indicates heterogeneity in the extent of glycan processing of the S protein trimers, with some trimers being much more heavily processed than others.
32623356	4	69	gly	non-glycosylated	614:629	arg1	the non-glycosylated protein	the non-glycosylated protein				Fterm		protein			The drug is known to bind to each of the two adjacent HMG boxes of the non-glycosylated protein.
33140034	6	1	gly	N234	1005:1008	arg1	N-glycans			sites N165 and N234	N-glycans					sites N165 and N234	We reveal an essential structural role of N-glycans at sites N165 and N234 in modulating the conformational dynamics of the spike's receptor binding domain (RBD), which is responsible for ACE2 recognition.
33140034	6	52	gly	sites	990:994	arg1	N-glycans			sites N165 and N234	N-glycans					sites N165 and N234	We reveal an essential structural role of N-glycans at sites N165 and N234 in modulating the conformational dynamics of the spike's receptor binding domain (RBD), which is responsible for ACE2 recognition.
34369795	7	1	gly	distribution	1075:1086	arg1	the coronaviruses' S1 protein	S1 protein			distribution	Cterm		S1 protein	7448		This study explores the uncharted territory of the isomeric glycan distribution in the coronaviruses' S1 protein using liquid chromatography coupled to tandem mass spectrometry.
32086860	3	61	part_of	Araf	780:783	arg1	the challenging 2,3,5-branched Araf motif	Araf		the challenging 2,3,5-branched Araf motif		OGER	Site	Araf	P10398	motif	The synthetic strategy features: 1) several one-pot glycosylation reactions on the basis of N-phenyltrifluoroacetimidate (PTFAI) and Yu glycosylation to streamline the chemical synthesis of oligosaccharides, 2) the successful and efficient assembly sequences (first O3', second O5', final O2') toward the challenging 2,3,5-branched Araf motif, 3) the stereoselective 1,2-cis-glucosylation by reagent control, and 4) the convergent [6+6+7] one-pot coupling reaction for the final assembly of the target nona-decasaccharide.
34232070	6	46	gly	glycosylation	1048:1060	arg1	Fc regions			Fc regions						regions	Structural analyses identified a close similarity in overall structure and glycosylation patterns of Fc regions for these plant-derived Abs and mammalian cell-derived Abs.
34158109	8	77	part_of	Arap	1383:1386	arg1	the arabinopyranosyl (Arap) residue	Arap		the arabinopyranosyl (Arap) residue		OGER	Site	Arap	Q5VWT5	residue	In doing so, we demonstrated that in the duckweed Wolffiella repanda the arabinopyranosyl (Arap) residue of side chain B is substituted at O-2 with rhamnose.
34158109	8	87	part_of	B	1411:1411	arg1	the arabinopyranosyl (Arap) residue	side chain B		the arabinopyranosyl (Arap) residue		Cterm	Site	side chain B		residue	In doing so, we demonstrated that in the duckweed Wolffiella repanda the arabinopyranosyl (Arap) residue of side chain B is substituted at O-2 with rhamnose.
31829411	0	29	gly	core-fucosylation	82:98	arg1	IgG1 Fc N-glycans				IgG1 Fc N-glycans						An atomistic perspective on antibody-dependent cellular cytotoxicity quenching by core-fucosylation of IgG1 Fc N-glycans from enhanced sampling molecular dynamics.
32544320	2	58	gly	glycoprotein	346:357	arg1	glycoprotein analysis	glycoprotein analysis				Fterm		glycoprotein			Despite the recent advances in LC-MS/MS methodologies, the profiling of site-specific glycosylation is one of the major analytical challenges of glycoprotein analysis.
34178940	3	81	gly	attached	458:465	arg2	asparagine residues AND oligosaccharides			asparagine residues	oligosaccharides					asparagine residues	Consisting of oligosaccharides attached to asparagine residues, enzymatically released N-linked glycans are analytically challenging due to the diversity of isomeric structures that exist.
32106961	2	61	gly	neutral/sialylated	500:517	arg1	neutral/sialylated glycans				neutral/sialylated glycans						Here, a novel method combining dual isotopic labeling and fluorous solid-phase extraction was developed, enabling selective enrichment, simultaneous quantitation and recognition of neutral/sialylated glycans from serum samples by mass spectrometry.
33750987	5	37	gly	N-glycosylation	910:924	arg2	two N-glycosylation sites			two N-glycosylation sites						sites	Using structural biology and mass spectrometric approaches, we find that two N-glycosylation sites close to the receptor binding site (RBS) on influenza hemagglutinin represent the oligomannose cluster recognized by 2G12.
33510212	2	75	part_of	enzyme	414:419	arg1	the enzyme active site	enzyme		the enzyme active site		Fterm	Site	enzyme		site	Engineering of carbohydrate-active enzymes, in particular targeting the enzyme active site, has notably led to catalysts with altered regioselectivity of the glycosylation reaction thereby enabling to extend the repertoire of enzymes for carbohydrate synthesis.
32623356	13	41	gly	glycosylated	2027:2038	arg1	glycosylated HMGB1	glycosylated HMGB1				PUBTATOR		HMGB1	3146		The effects of the N-glycans are mostly indirect, but in one case a direct contact with the drug, via a carbohydrate-carbohydrate interaction, was observed with 18β-GLR bound to Box-B of glycosylated HMGB1.
33284290	5	52	part_of	LF-impregnated	1049:1062	arg1	the LF-impregnated composites	LF		the LF-impregnated composites		Cterm	Site	LF	P02788	composites	Compared with BNC and BNC/COL, the LF-impregnated composites mediated a reduction in bacterial viability of at least 77%.
32205858	13	79	gly	glycoproteins	2123:2135	arg1	other glycoproteins	other glycoproteins				Fterm		glycoproteins	43565		Similar methods can be used for studies of other glycoproteins.
33758835	5	17	gly	glycosylated	772:783	arg1	a fully glycosylated spike	a fully glycosylated spike				PUBTATOR		spike	43740568		Molecular dynamics (MD) simulations of a fully glycosylated spike support s a model of steric restrictions that shape enzymatic processing of the glycans.
33068214	0	49	gly	O-glycosites	43:54	arg2	O-glycosites			O-glycosites						O-glycosites	Improved online LC-MS/MS identification of O-glycosites by EThcD fragmentation, chemoenzymatic reaction, and SPE enrichment.
34163514	7	13	gly	glycosylation	1129:1141	arg2	all glycosylation sites			all glycosylation sites						sites	Notably, N-glycan analysis revealed that a mannosidic-type N-glycan structure lacking plant-specific N-glycans (β1,2-xylose and α1,3-fucose residues) was predominant in all glycosylation sites of purified GCase produced from ΔgntI plants.
34163514	7	42	gly	predominant	1110:1120	arg2	all glycosylation sites AND a mannosidic-type N-glycan structure			all glycosylation sites	a mannosidic-type N-glycan structure					sites	Notably, N-glycan analysis revealed that a mannosidic-type N-glycan structure lacking plant-specific N-glycans (β1,2-xylose and α1,3-fucose residues) was predominant in all glycosylation sites of purified GCase produced from ΔgntI plants.
34163514	7	71	gly	sites	1143:1147	arg1	a mannosidic-type N-glycan structure			sites	a mannosidic-type N-glycan structure					sites	Notably, N-glycan analysis revealed that a mannosidic-type N-glycan structure lacking plant-specific N-glycans (β1,2-xylose and α1,3-fucose residues) was predominant in all glycosylation sites of purified GCase produced from ΔgntI plants.
33585262	6	4	gly	had	1375:1377	arg1	C-gly-Hc AND no xylose			C-gly-Hc	no xylose					gly	These C-gly-Hc are readily incorporated on the surface of acapsular Cn cap59; however, in contrast to Cn GXM, C-gly-Hc had no xylose and glucuronic acid in its composition.
33585262	6	4	gly	had	1375:1377	arg1	C-gly-Hc AND glucuronic acid			C-gly-Hc	glucuronic acid					gly	These C-gly-Hc are readily incorporated on the surface of acapsular Cn cap59; however, in contrast to Cn GXM, C-gly-Hc had no xylose and glucuronic acid in its composition.
34806714	9	11	gly	glycoproteins	1727:1739	arg1	novel glycoproteins	novel glycoproteins				Fterm		glycoproteins			Using Acinetobacter baumannii as a model, these approaches enable the comparison of glycan compositions between strains and the identification of novel glycoproteins.
34520778	7	8	gly	-Rhap-	942:947	arg1	1→ residue			1→ residue						residue	The glycosidic linkages of PSPJWA fraction were indicated to be Araf-(1→, →5)-Araf-(1→, →3,5)-Araf-(1→, Galp-(1→, →4)-Galp-(1→, →4,6)-Galp-(1→ and →2,4)-Rhap-(1→ residue by methylation analysis.
34069622	7	14	part_of	CS/HA	1555:1559	arg1	the thermal decomposition	CS/HA		the thermal decomposition		PUBTATOR	Site	CS/HA	1431	position	A high-temperature peak is recorded in the thermal decomposition of CS/HA and is absent in the case of CS/ALG.
32102970	10	43	part_of	N-linked	1806:1813	arg1	22,677 N-linked intact glycopeptides	22,677 N-linked		22,677 N-linked intact glycopeptides		Cterm	Site	22,677 N-linked		glycopeptides	In total, 526 N-linked glycoproteins, 1036 N-linked glycosites, 22,677 N-linked intact glycopeptides and 738 N-glycan masses were identified under 1% FDR, representing the most in-depth serum N-glycoproteome identified by LC-MS/MS at N-linked intact glycopeptide level.
32102970	10	123	part_of	N-linked	1778:1785	arg1	1036 N-linked glycosites	1036 N-linked		1036 N-linked glycosites		Cterm	Site	1036 N-linked		glycosites	In total, 526 N-linked glycoproteins, 1036 N-linked glycosites, 22,677 N-linked intact glycopeptides and 738 N-glycan masses were identified under 1% FDR, representing the most in-depth serum N-glycoproteome identified by LC-MS/MS at N-linked intact glycopeptide level.
32568201	10	19	gly	glycosylation	1416:1428	arg1	CSF	CSF				OGER		CSF			The difference in the percentage of secondary glycosylation in CSF was significantly greater in apoE4 compared to the other isoforms.
33861503	2	51	gly	LGP	468:470	arg1	The monosaccharide composition	LGP			The monosaccharide composition	PUBTATOR		LGP	57426		The monosaccharide composition of LGP was determined by ion chromatography to be galactose, xylose, glucose and fucose in a molar ratio of 2.568 : 1.209 : 1 : 0.853.
33861503	2	51	gly	LGP	468:470	arg1	galactose	LGP			galactose	PUBTATOR		LGP	57426		The monosaccharide composition of LGP was determined by ion chromatography to be galactose, xylose, glucose and fucose in a molar ratio of 2.568 : 1.209 : 1 : 0.853.
34367227	10	49	gly	glycoproteins	1641:1653	arg1	the plant-produced glycoproteins	the plant-produced glycoproteins				Fterm		glycoproteins			The glycosylation profiles of the plant-produced glycoproteins were distinct from the mammalian cell produced proteins: they displayed lower levels of glycan occupancy, reduced complex glycans and large amounts of paucimannosidic structures.
34367227	10	85	gly	glycosylation	1596:1608	arg1	the plant-produced glycoproteins	the plant-produced glycoproteins				Fterm		glycoproteins			The glycosylation profiles of the plant-produced glycoproteins were distinct from the mammalian cell produced proteins: they displayed lower levels of glycan occupancy, reduced complex glycans and large amounts of paucimannosidic structures.
32841667	2	41	gly	residue	403:409	arg1	a polysaccharide fraction			residue	a polysaccharide fraction					residue	In this study, we isolated a polysaccharide fraction from P. americana herbal residue with the potential wound healing effect, named as PAP faction, based on our previous study and provided the structural and monosaccharide composition characterization.
32125558	6	26	gly	sialylated	1170:1179	arg1	about 53% sialylated structures				about 53% sialylated structures						Interestingly, immunoglobulin G, used as the model protein in CHOmt17-100, showed about 53% sialylated structures in its glycoforms.
34767945	0	36	gly	Pro-inflammatory	0:15	arg1	Pro-inflammatory IgG1 N-glycan signature			Pro	Pro-inflammatory IgG1 N-glycan signature					Pro	Pro-inflammatory IgG1 N-glycan signature correlates with primary graft dysfunction onset in COPD patients.
33901620	4	46	gly	di-sialylated	861:873	arg1	mono- and di-sialylated structures				mono- and di-sialylated structures						In the absence of the MGU supplement, the humanized IgG1 antibody (Hu1D10) produced from NS0 cells showed a low level of mono- and di-sialylated structures (SI:0.09) of which 75 % of sialic acid was Neu5Gc.
32005658	6	15	gly	modified	1356:1363	arg3	HEK-sKlotho AND an unusual N-glycan structure	HEK-sKlotho			an unusual N-glycan structure	OGER		HEK	P29320		MS and glycopeptide-mapping analyses revealed that HEK-sKlotho is uniquely modified with an unusual N-glycan structure consisting of N,N'-di-N-acetyllactose diamine at multiple N-linked sites, one of which at Asn-126 was adjacent to a putative GalNAc transfer motif.
32299557	0	43	gly	heterogeneity	14:26	arg1	carbohydrates				carbohydrates						Unmasking the heterogeneity of carbohydrates in heartwood, sapwood, and bark of Eucalyptus.
32426967	8	35	part_of	A1AT	1593:1596	arg1	one glycopeptide	A1AT		one glycopeptide		PUBTATOR	Site	A1AT	5265	glycopeptide	We also found that the ratio of different charge states (2+/3+) of one glycopeptide of A1AT can significantly discriminate early-stage HCC from cirrhosis with the area under the receiver operating characteristic curve AUC of 0.9.
33657316	5	18	gly	processing	1125:1134	arg1	each trimer	trimer			processing	Fterm		trimer			Moreover, the distribution of glycan masses determined by CDMS is much broader than the distribution expected from the glycoproteomics studies, assuming that glycan processing on each trimer is not correlated.
34742721	8	35	gly	released	1523:1530	arg2	O-glycoproteins AND glycans	O-glycoproteins			glycans	Fterm		O-glycoproteins			Overall, simple addition of glycine to mobile phases during HILIC-ESI-MS analysis significantly improves MS detection sensitivity and will facilitate future profiling and quantitation of glycans released from N- and O-glycoproteins.
34742721	8	55	gly	O-glycoproteins	1544:1558	arg1	O-glycoproteins	O-glycoproteins				Fterm		O-glycoproteins			Overall, simple addition of glycine to mobile phases during HILIC-ESI-MS analysis significantly improves MS detection sensitivity and will facilitate future profiling and quantitation of glycans released from N- and O-glycoproteins.
34056088	5	3	gly	glycoproteins	919:931	arg1	engineered spike glycoproteins	engineered spike glycoproteins				PUBTATOR		spike glycoproteins	43740568		Here, we show how site-specific glycosylation differs between virus-derived spikes, wild-type, non-stabilized spikes expressed from a plasmid with a CMV promoter and tPA signal sequence, and commonly used recombinant, engineered spike glycoproteins.
33650863	6	81	gly	UMOD	1357:1360	arg1	comprehensive N-glycan profiling	UMOD			comprehensive N-glycan profiling	PUBTATOR		UMOD	7369		To our knowledge, this is the first study to perform comprehensive N-glycan profiling of UMOD using nanoLC-MS/MS.
33650863	5	33	gly	fucosylated	1128:1138	arg1	neutral fucosylated glycans				neutral fucosylated glycans						We found that isolation of UMOD resulted in a significant decrease in the relative quantity of high-mannose and sulfated glycans with a significant increase of neutral fucosylated glycans in the UMOD-depleted urine relative to the undepleted urine, but depletion had little impact on the sialylated glycans.
33650863	5	79	gly	sialylated	1248:1257	arg1	the sialylated glycans				the sialylated glycans						We found that isolation of UMOD resulted in a significant decrease in the relative quantity of high-mannose and sulfated glycans with a significant increase of neutral fucosylated glycans in the UMOD-depleted urine relative to the undepleted urine, but depletion had little impact on the sialylated glycans.
34127537	6	82	part_of	IgA	939:941	arg1	tryptic glycopeptides	IgA		tryptic glycopeptides		PUBTATOR	Site	IgA	973	glycopeptides	METHODS To gain insights into the complex O- and N-glycosylation of serum IgA1 and IgA2 in IgAN, we used liquid chromatography-mass spectrometry (LC-MS) for the analysis of tryptic glycopeptides of serum IgA from 83 patients with IgAN and 244 age- and sex-matched healthy controls.
32155332	5	36	gly	glycosylated	1029:1040	arg1	glycosylated TTX motifs			glycosylated TTX motifs						motifs	Importantly, this canonical conformation of glycosylated TTX motifs minimizes steric crowding of glycans attached to threonine residues, in which O-glycans possess restricted orientations permitting further sugar extension.
32155332	5	99	gly	attached	1090:1097	arg2	threonine residues AND glycans			threonine residues	glycans					threonine residues	Importantly, this canonical conformation of glycosylated TTX motifs minimizes steric crowding of glycans attached to threonine residues, in which O-glycans possess restricted orientations permitting further sugar extension.
34399474	2	24	part_of	WBS	366:368	arg1	the mineral and phenolic composition	WBS		the mineral and phenolic composition		Cterm	Site	WBS	P02743	position	In this study, the effect of the mineral and phenolic composition of WBS was evaluated on the physical properties of xanthan gum, guar gum, ultra-finely milled oatmeal and their combinations in solution.
35178379	4	28	part_of	SARS-CoV-2	723:732	arg1	the SARS-CoV-2 receptor-binding domain	SARS		the SARS-CoV-2 receptor-binding domain		OGER	Site	SARS	P49591	domain	Here, we performed an in vivo glycoengineering approach to produce recombinant variants of the SARS-CoV-2 receptor-binding domain (RBD) with blood group antigens in Nicotiana benthamiana plants.
35178379	4	80	part_of	receptor-binding	734:749	arg1	the SARS-CoV-2 receptor-binding domain	receptor		the SARS-CoV-2 receptor-binding domain		Fterm	Site	receptor		domain	Here, we performed an in vivo glycoengineering approach to produce recombinant variants of the SARS-CoV-2 receptor-binding domain (RBD) with blood group antigens in Nicotiana benthamiana plants.
30099598	2	4	gly	pathways	501:508	arg1	enzymes	enzymes			pathways	Fterm		enzymes			The ability to engineer commonly used laboratory species such as Escherichia coli to efficiently synthesize non-native sugar structures by recombinant expression of enzymes from various carbohydrate biosynthesis pathways has allowed for the facile generation of important products such as conjugate vaccines, glycosylated outer membrane vesicles, and a variety of other research reagents for studying and understanding the role of glycans in living systems.
32446898	2	53	gly	protein	423:429	arg1	total sugar	protein			total sugar	Fterm		protein			The extracted fucoidan contain 54.86% of total sugar, 23.51% of sulfate and 3.4% of protein.
34440649	1	10	gly	glycosylated	170:181	arg1	heavily glycosylated proteins	heavily glycosylated proteins				Fterm		proteins			Arabinogalactan proteins (AGPs) are a class of heavily glycosylated proteins occurring as a structural element of the cell wall-plasma membrane continuum.
34494876	14	110	gly	ACE2	2204:2207	arg1	N-glycans	ACE2			N-glycans	PUBTATOR		ACE2	Q9BYF1		In addition, we found that the removal of N-glycans of ACE2 impaired its ability to support an efficient transduction of SARS-CoV and SARS-CoV-2 S pseudotyped viruses.
32896318	0	15	gly	glycoproteins	57:69	arg1	cell surface glycoproteins	cell surface glycoproteins				Fterm		glycoproteins			Partial purification and immunodetection of cell surface glycoproteins from plants.
34051740	4	108	gly	AGPs	768:771	arg1	the glucuronic acid residues	AGPs			the glucuronic acid residues	OGER		AGPs	O00116		One such sugar residue is the glucuronic acid residues of AGPs that are transferred onto AGP glycans by the action of β-glucuronosyltransferase genes/enzymes.
34051740	4	108	gly	AGPs	768:771	arg1	One such sugar residue	AGPs			One such sugar residue	OGER		AGPs	O00116		One such sugar residue is the glucuronic acid residues of AGPs that are transferred onto AGP glycans by the action of β-glucuronosyltransferase genes/enzymes.
32681153	4	91	gly	sequon	621:626	arg1	complex O-GalNAc glycan structures			sequon	complex O-GalNAc glycan structures					sequon	However, lack of suitable methodology, absence of consensus sequon of O-GalNAcylation sites and complex O-GalNAc glycan structures pose analytical challenges.
31967297	8	72	gly	N-glycosylation	1299:1313	arg2	the four other N-glycosylation sites			the four other N-glycosylation sites						sites	Structures at the four other N-glycosylation sites showed minimal differences from data collected on donors expressing only the predominant L48 variant.
32505675	1	0	part_of	have	121:124	arg1	Notch receptors AND large extracellular domains	Notch receptors		large extracellular domains		PUBTATOR	Site	Notch receptors	31293	domains	Notch receptors have large extracellular domains containing up to 36 tandem epidermal growth factor-like (EGF) repeats, which facilitate cell signaling by binding ligands on neighboring cells.
33675758	10	80	gly	deglycosylated	1489:1502	arg1	deglycosylated IgG1	deglycosylated IgG1				OGER		IgG1	P01857		To explain these changes, atomistic scattering modeling based on Monte Carlo simulations resulted in 123,284 and 119,191 trial structures for glycosylated and deglycosylated IgG1 respectively.
32321762	5	4	part_of	site	1017:1020	arg1	PrPC	PrPC		site		PUBTATOR	Site	PrPC	5621	site	LC-electrospray ionization-MS analysis of human PrPC from both biological sources indicated that Gly229 is the ω site in PrPC to which GPI is attached.
32335838	6	54	part_of	BNC-CaCO3	974:982	arg1	The BNC-CaCO3 composites	BNC		The BNC-CaCO3 composites		OGER	Site	BNC	Q01954	composites	The BNC-CaCO3 composites as a sorbent resulted in >99% removal of initial 10 mg L-1 of Cd (II) at pH 5, 7 and 9 after 12 h of treatment.
33631789	6	66	gly	[2	1177:1178	arg1	fucose	acid; [2			fucose	OGER		acid; [2	Q86YD1		Three N-glycoforms of the anti-TNF-alpha antibody adalimumab, that differed in the content of fucose or sialic acid, were tested: [1] mock treated Humira, abbreviated 'Fuc-G0', where the N-glycan mainly consist of fucose and N-acetylglucosamine [GlcNAc], without sialic acid; [2] 'Fuc-G2S1/G2S2' with fucose and alpha 2,6 linked sialic acid; and [3] 'G2S1/G2S2' with alpha 2,6 linked sialic acid, without fucose.
33319171	4	23	gly	Env	546:548	arg1	the first complete all-atom model	HIV-1 Env			the first complete all-atom model	PUBTATOR		HIV-1 Env	64006		This is the first complete all-atom model of HIV-1 Env SOSIP glycan shield that includes both oligomannose and complex glycans, providing physiologically relevant insights of the glycan shield.
33124956	6	10	gly	glycosylation	891:903	arg1	IL-1RI	IL-1RI				PUBTATOR		IL-1RI	3554		Here, classical and accelerated atomistic molecular dynamics were carried out to examine the role of full glycosylation of IL-1RI and IL-1RAcP in arrangement of the functional assembly.
33124956	6	10	gly	glycosylation	891:903	arg1	IL-1RAcP	IL-1RAcP				PUBTATOR		IL-1RAcP	3556		Here, classical and accelerated atomistic molecular dynamics were carried out to examine the role of full glycosylation of IL-1RI and IL-1RAcP in arrangement of the functional assembly.
33157282	2	47	gly	glycoproteins	344:356	arg1	the desired glycoproteins	glycoproteins			oligosaccharide branching	Fterm		glycoproteins			Overexpression of glycosyltransferases may increase oligosaccharide branching of the desired glycoproteins.
34582712	7	44	gly	glycosylation	1319:1331	arg1	α-DG	α-DG				Cterm		DG	Q14118		The optimization along with the evolution of a well-conserved enzymatic set responsible for the glycosylation of α-DG indicate the importance of the glycosylation shell in modulating the connection between sarcolemma and surrounding basement membranes to increase skeletal muscle stability, and eventually support movement and locomotion.
32737949	2	78	gly	signature	389:397	arg1	extracellular proteins	proteins			signature	Fterm		proteins			Altered glycosylation of immunoglobulins in autoimmune diseases has led to the "altered glycan hypothesis" postulating existence of a unique glycan signature on immune cells and extracellular proteins characterized by site-specific relative abundances of individual glycan structures and glycosylation patterns.
34890647	7	35	part_of	region	1460:1465	arg1	isolated and complexed IgG1	IgG1		region		OGER	Site	IgG1	P01857	region	The results also indicate that intramolecular glycan-protein bonds stabilize the Fc region in isolated and complexed IgG1.
32766842	5	24	gly	afucosylated	693:704	arg1	afucosylated protein	afucosylated protein				Fterm		protein			The TNFR-Fc fusion protein was employed to N-glycan analysis, which revealed an increased amount of afucosylated protein.
33035859	0	63	gly	Evaluation	0:9	arg1	Glycation sites			Glycation sites						sites	Evaluation of glycation reaction of ovalbumin with dextran: Glycation sites identification by capillary liquid chromatography coupled with tandem mass spectrometry.
34494876	12	134	gly	glycosylation	1921:1933	arg1	the virus-receptor interaction	the virus-receptor interaction				Fterm		virus-receptor			IMPORTANCE Understanding the role of glycosylation in the virus-receptor interaction is important for developing approaches that disrupt infection.
31941772	1	34	part_of	glycosylation	360:372	arg1	potential N-linked glycosylation sites	N-linked glycosylation		potential N-linked glycosylation sites		PUBTATOR	Site	N-linked glycosylation	100616444	sites	Extensive studies with subtype A BG505-derived HIV envelope glycoprotein (Env) immunogens have revealed that the dominant autologous neutralizing epitope in rabbits is located in an exposed region of the heavily glycosylated trimer that lacks potential N-linked glycosylation sites at positions 230, 241, and 289.
31941772	1	53	part_of	region	288:293	arg1	the dominant autologous neutralizing epitope	region		the dominant autologous neutralizing epitope						epitope	Extensive studies with subtype A BG505-derived HIV envelope glycoprotein (Env) immunogens have revealed that the dominant autologous neutralizing epitope in rabbits is located in an exposed region of the heavily glycosylated trimer that lacks potential N-linked glycosylation sites at positions 230, 241, and 289.
31941772	1	85	part_of	trimer	323:328	arg1	an exposed region	trimer		an exposed region		Fterm	Site	trimer	100616444	region	Extensive studies with subtype A BG505-derived HIV envelope glycoprotein (Env) immunogens have revealed that the dominant autologous neutralizing epitope in rabbits is located in an exposed region of the heavily glycosylated trimer that lacks potential N-linked glycosylation sites at positions 230, 241, and 289.
31941772	1	93	part_of	N-linked	351:358	arg1	potential N-linked glycosylation sites	N-linked glycosylation		potential N-linked glycosylation sites		PUBTATOR	Site	N-linked glycosylation	100616444	sites	Extensive studies with subtype A BG505-derived HIV envelope glycoprotein (Env) immunogens have revealed that the dominant autologous neutralizing epitope in rabbits is located in an exposed region of the heavily glycosylated trimer that lacks potential N-linked glycosylation sites at positions 230, 241, and 289.
31959207	9	112	gly	N-glycosylation	2017:2031	arg1	residue Asn137			Asn137						Asn137	Furthermore, rhRSPO1 glycosylation analysis allowed us to describe, for the first time, the glycan composition of this oligosaccharide chain, confirming the presence of an N-glycosylation in residue Asn137 of the polypeptide chain, as previously described.
34178940	10	88	gly	fucosylated	1970:1980	arg1	a fucosylated bi-antennary complex N-glycan				a fucosylated bi-antennary complex N-glycan						Finally, a comparison between early- and late-stage formalin-fixed paraffin-embedded ovarian cancer tissues revealed qualitative changes in the α2,3- and α2,6-sialic acid linkage of a fucosylated bi-antennary complex N-glycan.
33303137	2	59	gly	glycosylation	350:362	arg2	several glycosylation sites			sites	mannose receptors					sites	In the preliminary experiments, we identified several glycosylation sites of mannose receptors in different breast cancer subtypes and showed that the mannose receptors could be a potential marker for breast cancer.
33231436	5	16	gly	position	835:842	arg1	two biantennary sialylglycans			position 83,	two biantennary sialylglycans					position 83,	Herein, we report the chemical synthesis of an erythropoietin (EPO) glycoform having a triantennary sialylglycan at position 83, as well as two biantennary sialylglycans at both positions 24 and 38.
33231436	5	16	gly	position	835:842	arg1	a triantennary sialylglycan			position 83,	a triantennary sialylglycan					position 83,	Herein, we report the chemical synthesis of an erythropoietin (EPO) glycoform having a triantennary sialylglycan at position 83, as well as two biantennary sialylglycans at both positions 24 and 38.
33231436	5	84	gly	glycoform	787:795	arg1	EPO	EPO				PUBTATOR		EPO	13856		Herein, we report the chemical synthesis of an erythropoietin (EPO) glycoform having a triantennary sialylglycan at position 83, as well as two biantennary sialylglycans at both positions 24 and 38.
33231436	5	84	gly	glycoform	787:795	arg1	an erythropoietin	an erythropoietin				PUBTATOR		erythropoietin	13856		Herein, we report the chemical synthesis of an erythropoietin (EPO) glycoform having a triantennary sialylglycan at position 83, as well as two biantennary sialylglycans at both positions 24 and 38.
33231436	5	74	gly	positions	897:905	arg1	38			positions 24 and 38	two biantennary sialylglycans					positions 24 and 38	Herein, we report the chemical synthesis of an erythropoietin (EPO) glycoform having a triantennary sialylglycan at position 83, as well as two biantennary sialylglycans at both positions 24 and 38.
33231436	5	74	gly	positions	897:905	arg1	24			positions 24 and 38	two biantennary sialylglycans					positions 24 and 38	Herein, we report the chemical synthesis of an erythropoietin (EPO) glycoform having a triantennary sialylglycan at position 83, as well as two biantennary sialylglycans at both positions 24 and 38.
33231436	5	74	gly	positions	897:905	arg1	38			positions 24 and 38	a triantennary sialylglycan					positions 24 and 38	Herein, we report the chemical synthesis of an erythropoietin (EPO) glycoform having a triantennary sialylglycan at position 83, as well as two biantennary sialylglycans at both positions 24 and 38.
33231436	5	74	gly	positions	897:905	arg1	24			positions 24 and 38	a triantennary sialylglycan					positions 24 and 38	Herein, we report the chemical synthesis of an erythropoietin (EPO) glycoform having a triantennary sialylglycan at position 83, as well as two biantennary sialylglycans at both positions 24 and 38.
33231436	5	74	gly	positions	897:905	arg1	24			positions 24 and 38						positions 24 and 38	Herein, we report the chemical synthesis of an erythropoietin (EPO) glycoform having a triantennary sialylglycan at position 83, as well as two biantennary sialylglycans at both positions 24 and 38.
33231436	6	41	gly	sialylglycopeptide	993:1010	arg2	a sialylglycopeptide			a sialylglycopeptide						sialylglycopeptide	We demonstrated efficient liquid-phase condensation reactions to prepare a sialylglycopeptide having a triantennary N-glycan prepared by the addition of a Neu5Ac-α-2,6-Gal-β-1,4-GlcNAc element to the biantennary glycan under semisynthetic conditions.
33231436	6	30	gly	having	1012:1017	arg1	a sialylglycopeptide AND a triantennary N-glycan			a sialylglycopeptide	a triantennary N-glycan					sialylglycopeptide	We demonstrated efficient liquid-phase condensation reactions to prepare a sialylglycopeptide having a triantennary N-glycan prepared by the addition of a Neu5Ac-α-2,6-Gal-β-1,4-GlcNAc element to the biantennary glycan under semisynthetic conditions.
31967297	2	41	gly	N162	349:352	arg1	N-glycans			N162 and N45	N-glycans					N162 and N45	The extracellular domain is decorated with five asparagine (N)-linked glycans; N-glycans at N162 and N45 directly contribute to high-affinity antibody binding and protein stability.
31967297	2	44	gly	N45	358:360	arg1	N-glycans			N162 and N45	N-glycans					N162 and N45	The extracellular domain is decorated with five asparagine (N)-linked glycans; N-glycans at N162 and N45 directly contribute to high-affinity antibody binding and protein stability.
33423189	6	64	part_of	Fc	1075:1076	arg1	the Fc region	Fc		the Fc region		Cterm	Site	Fc		region	The results indicated that degalactosylation structurally perturbed the Fc region through rearrangement of glycan-protein interactions.
33564762	5	63	part_of	origin	999:1004	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.
34925381	2	65	part_of	SARS-CoV-2	494:503	arg1	receptor-binding domain	SARS		domain		OGER	Site	SARS	P49591	domain	This study examined the impact of glycan-masking mutants of the N-terminal domain (NTD) and receptor-binding domain (RBD) of SARS-CoV-2, and found that the antigenic design of the S protein increases the neutralizing antibody titers against the Wuhan-Hu-1 ancestral strain and the recently emerged SARS-CoV-2 variants Alpha (B.1.1.7), Beta (B.1.351), and Delta (B.1.617.2).
34424958	2	29	gly	N-glycosylation	351:365	arg2	N-glycosylation sites			N-glycosylation sites						sites	Here, we define a subset of diffuse large B-cell lymphomas (DLBCLs) that acquire N-glycosylation sites selectively in the Ig complementarity-determining regions (CDRs) of the antigen-binding sites.
32737218	8	5	gly	tetrasialylated	1184:1198	arg1	the high-mannose and tetrasialylated glycans				the high-mannose and tetrasialylated glycans						In adult, the majority of glycans were more abundant in males than females, except the high-mannose and tetrasialylated glycans.
33064451	6	45	gly	sialylated	1059:1068	arg1	sialylated glycans				sialylated glycans						The relative abundance of sialylated glycans in the S1 subunit compared to the full-length protein could indicate differences in the global structure and function of these two species.
33758080	5	51	gly	removal	819:825	arg3	α2,3-linked sialic acids AND the N-terminal threonine or serine residues			the N-terminal threonine or serine residues	α2,3-linked sialic acids					serine residues	In contrast, the disruption of O-glycosylation on the N-terminal threonine or serine residues, or the removal of α2,3-linked sialic acids from O-glycans, enhances the GPR15L binding.
33758080	5	51	gly	removal	819:825	arg3	α2,3-linked sialic acids AND the N-terminal threonine or serine residues			the N-terminal threonine or serine residues	α2,3-linked sialic acids					threonine	In contrast, the disruption of O-glycosylation on the N-terminal threonine or serine residues, or the removal of α2,3-linked sialic acids from O-glycans, enhances the GPR15L binding.
32576591	7	75	gly	glycopeptides	1019:1031	arg2	N-linked glycopeptides			N-linked glycopeptides						glycopeptides	We benchmarked this approach using N-linked glycopeptides of Campylobacter fetus subsp.
32544320	5	60	gly	glycoprotein	808:819	arg1	AGP	AGP				PUBTATOR		AGP	497200		The selectivity for different glycan types was studied using bovine fetuin, asialofetuin, IgG, ribonuclease B, and alpha-1 acid glycoprotein (AGP) by PGC-LC-MS.
32544320	5	60	gly	glycoprotein	808:819	arg1	alpha-1 acid glycoprotein	alpha-1 acid glycoprotein				PUBTATOR		alpha-1 acid glycoprotein	497200		The selectivity for different glycan types was studied using bovine fetuin, asialofetuin, IgG, ribonuclease B, and alpha-1 acid glycoprotein (AGP) by PGC-LC-MS.
32126781	9	10	gly	O-glycopeptides	1527:1541	arg2	O-glycopeptides			O-glycopeptides						O-glycopeptides	While qualitatively similar to previous findings for N-glycopeptides, the energy-resolved CID (ER-CID) of O-glycopeptides was found to be substantially more sensitive to the collision energy setting.
32126781	9	43	gly	N-glycopeptides	1474:1488	arg2	N-glycopeptides			N-glycopeptides						N-glycopeptides	While qualitatively similar to previous findings for N-glycopeptides, the energy-resolved CID (ER-CID) of O-glycopeptides was found to be substantially more sensitive to the collision energy setting.
32155332	4	40	gly	glycosylated	801:812	arg1	glycosylated TTX motifs			glycosylated TTX motifs						motifs	We demonstrate that the specific conformation of glycosylated TTX motifs in MUC2 TRs is rationally rearranged by concerted motions of multiple dihedral angles and noncovalent interactions between the carbohydrate and peptide region.
32155332	4	89	gly	peptide	969:975	arg1	the carbohydrate and peptide region				the carbohydrate and peptide region						We demonstrate that the specific conformation of glycosylated TTX motifs in MUC2 TRs is rationally rearranged by concerted motions of multiple dihedral angles and noncovalent interactions between the carbohydrate and peptide region.
34318818	8	4	part_of	protein	1606:1612	arg1	the protein residues	protein		the protein residues		Fterm	Site	protein		residues	Moreover, the results obtained by comparing the glycosylated and unglycosylated protein indicated that the glycan moiety imparts stability to the protein by forming intramolecular hydrogen bond interactions with the protein residues.
33140034	4	12	gly	glycosylated	627:638	arg1	the glycosylated SARS-CoV-2 S protein	the glycosylated SARS-CoV-2 S protein				PUBTATOR		S protein	Q15517		Here, we built a full-length model of the glycosylated SARS-CoV-2 S protein, both in the open and closed states, augmenting the available structural and biological data.
33524390	6	3	gly	glycoproteins	1144:1156	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			Structural analyses of glycans using lectins and LC-MS revealed that α2,3-sialylation is selectively enhanced, suggesting that an α2,3-sialyltransferase that catalyzes the sialyation of glycoproteins is activated or upregulated as the result of Rab11 knockdown.
34288669	1	30	gly	glycoproteins	358:370	arg1	highly complex glycoproteins	highly complex glycoproteins				Fterm		glycoproteins			Modern analytical approaches employing high-resolution mass spectrometry (MS) facilitate the generation of a vast amount of structural data of highly complex glycoproteins.
32973204	2	46	gly	serine	505:510	arg1	residues			residues						threonine residues	In this work, we focus in OgpA from A. muciniphila, an O-glycopeptidase that exclusively hydrolyzes the peptide bond N-terminal to serine or threonine residues substituted with an O-glycan.
34213122	16	73	gly	heparin	2385:2391	arg1	ten disaccharides	heparin			ten disaccharides	Fterm		heparin			The digestion of enoxaparin and heparin samples was performed at 25 ℃ for 48 h. By using a capillary electrophoresis (CE) method, a total of 18 oligosaccharides building blocks of heparin, including ten disaccharides, one trisaccharide, three tetrasaccharides, and four 1,6-anhydro derivatives, can be baseline separated.
34213122	16	73	gly	heparin	2385:2391	arg1	three tetrasaccharides	heparin			three tetrasaccharides	Fterm		heparin			The digestion of enoxaparin and heparin samples was performed at 25 ℃ for 48 h. By using a capillary electrophoresis (CE) method, a total of 18 oligosaccharides building blocks of heparin, including ten disaccharides, one trisaccharide, three tetrasaccharides, and four 1,6-anhydro derivatives, can be baseline separated.
34213122	16	73	gly	heparin	2385:2391	arg1	one trisaccharide	heparin			one trisaccharide	Fterm		heparin			The digestion of enoxaparin and heparin samples was performed at 25 ℃ for 48 h. By using a capillary electrophoresis (CE) method, a total of 18 oligosaccharides building blocks of heparin, including ten disaccharides, one trisaccharide, three tetrasaccharides, and four 1,6-anhydro derivatives, can be baseline separated.
33835779	7	48	gly	glycoprotein	1150:1161	arg1	glycoprotein labeling	glycoprotein labeling				Fterm		glycoprotein			A comparison with known azide-tagged MOE reagents reveals major differences in glycoprotein labeling, substantially expanding the toolbox of chemical glycobiology.
34469105	0	43	gly	Epitopes	37:44	arg1	Glycan Array Evaluation				Glycan Array Evaluation						Glycan Array Evaluation of Synthetic Epitopes between the Capsular Polysaccharides from Streptococcus pneumoniae 19F and 19A.
34097954	2	27	part_of	PVA	453:455	arg1	PVA composites	PVA		PVA composites		OGER	Site	PVA	P32926	composites	Based on the regulation and control of hydrogen bonding network, CS and CNFs can extend the processing window and improve the thermoplasticity of PVA composites.
33952698	11	60	gly	glycosylated	1873:1884	arg1	glycosylated cell surface receptors	glycosylated cell surface receptors				Fterm		receptors			Our results unveil the role of proline polymorphisms (e.g., at P64) associated with many diseases and suggest that the function of glycosylated cell surface receptors is dynamically regulated by Gal-3.
32454127	5	78	gly	tri-glycosylated	727:742	arg1	an additional PrP glycan	PrP			an additional PrP glycan	PUBTATOR		PrP	19122		Here we show that prion-infected knockin mice expressing an additional PrP glycan (tri-glycosylated PrP) develop new plaque-like deposits on neuronal cell membranes, along the subarachnoid space, and periventricularly, suggestive of high prion mobility and transit through the interstitial fluid.
32546343	6	27	gly	site	1008:1011	arg1	IgM glycans			site N439	IgM glycans					site N439	Levels of IgM glycans at site N439 and fucosylated glycans in J chain, were significantly decreased in PBC compared to PSC and HC.
32546343	6	27	gly	site	1008:1011	arg1	fucosylated glycans			site N439	fucosylated glycans					site N439	Levels of IgM glycans at site N439 and fucosylated glycans in J chain, were significantly decreased in PBC compared to PSC and HC.
32546343	6	72	gly	fucosylated	1022:1032	arg1	fucosylated glycans				fucosylated glycans						Levels of IgM glycans at site N439 and fucosylated glycans in J chain, were significantly decreased in PBC compared to PSC and HC.
32280962	7	27	gly	glycoprotein	1344:1355	arg1	its glycoprotein ligands	its glycoprotein ligands				Fterm		glycoprotein			Lastly, we observed that the interaction between PSG1 and Gal-1 protects this lectin from oxidative inactivation and that PSG1 competes the ability of Gal-1 to bind to some but not all of its glycoprotein ligands.
32902264	0	29	part_of	Epitopes	41:48	arg1	N-Glycoproteins	N-Glycoproteins		Epitopes		Fterm		N-Glycoproteins			Selective Identification of α-Galactosyl Epitopes in N-Glycoproteins Using Characteristic Fragment Ions from Higher-Energy Collisional Dissociation.
34328324	2	104	gly	heterogeneity	434:446	arg1	the new O-glycans				the new O-glycans						However, the molecular structures and glycan heterogeneity of the new O-glycans found on the S protein regional-binding domain (S-RBD) remain cryptic because of the challenges in intact glycoform analysis by conventional bottom-up glycoproteomic approaches.
34328324	2	6	gly	found	469:473	arg2	the S protein regional-binding domain AND the new O-glycans	S		domain	the new O-glycans	PUBTATOR		S	43740568	domain	However, the molecular structures and glycan heterogeneity of the new O-glycans found on the S protein regional-binding domain (S-RBD) remain cryptic because of the challenges in intact glycoform analysis by conventional bottom-up glycoproteomic approaches.
32045434	1	76	gly	glycoprotein	141:152	arg1	a glycoprotein hormone	a glycoprotein hormone				Fterm		glycoprotein			Human chorionic gonadotropin (hCG) is a glycoprotein hormone that is essential for the maintenance of pregnancy.
34893224	6	0	gly	glycosylation	862:874	arg2	routine and unreported glycosylation sequons			routine and unreported glycosylation sequons							MS analysis elucidated the correct structure of resulting bioconjugate at routine and unreported glycosylation sequons of carrier protein, with a higher glycosylation efficiency.
33566602	4	10	gly	N-glycosylated	696:709	arg1	differentially N-glycosylated proteins	differentially N-glycosylated proteins				Fterm		proteins			Gene ontology analysis revealed that these differentially N-glycosylated proteins (DGPs) were involved in antibacterial activity, glycosaminoglycan binding, lipid binding, and aminopeptidase activity.
34494876	11	58	gly	deglycosylated	1854:1867	arg1	the deglycosylated ACE2 receptor	the deglycosylated ACE2 receptor				PUBTATOR		ACE2 receptor	Q9BYF1		Finally, we found that hACE2 N-glycosylation is required for an efficient viral entry of SARS-CoV/SARS-CoV-2 S pseudotyped viruses, which may be the result of low cell surface expression of the deglycosylated ACE2 receptor.
32865981	4	93	gly	heterogeneity	1015:1027	arg1	permethylated glycans				permethylated glycans						Notably, reducing-end reduction, commonly performed to remove anomerism-induced chromatographic peak splitting, did not eliminate the conformational heterogeneity of permethylated glycans in the gas phase.
32479947	4	27	gly	PSP	655:657	arg1	monosaccharide composition	PSP			monosaccharide composition	OGER		PSP	O60542		Our results illustrated that PSP with different chemical structure and monosaccharide composition showed different abilities to activate phagocytic activity in vitro.
33484712	2	39	gly	glycosylated	334:345	arg1	glycosylated residues			glycosylated residues						residues	The spike protein of SARS-CoV-2 (S-protein), which consists of trimeric polypeptide chains with glycosylated residues on the surface, triggers the virus entry into a host cell.
32086860	2	26	gly	polysaccharides	374:388	arg1	shorter sequences			shorter sequences	shorter sequences		Site			sequences	Reported here is an efficient and modular one-pot synthesis of a nona-decasaccharide and shorter sequences from Psidium guajava polysaccharides, which have the potent α-glucosidase inhibitory activity.
32568312	4	65	gly	glycopeptides	924:936	arg1	purified IgGs	IgGs		glycopeptides		Cterm		IgGs		glycopeptides	In this study, we profiled N-linked intact glycopeptides of purified IgGs from 51 PCa patients and 45 BPH patients by our developed N-glycoproteomic method using hydrophilic interaction liquid chromatography enrichment coupled with high resolution LC-MS/MS.
33231436	7	40	part_of	protein	1325:1331	arg1	the introduced position	protein		the introduced position		Fterm	Site	protein		position	The molecular weight of the newly added antennary element was ∼3% of the EPO glycoform, and the introduced position was the most distant from the bioactive protein.
34925422	6	40	gly	N-glycoproteins	869:883	arg1	59 N-glycoproteins	59 N-glycoproteins				Fterm		N-glycoproteins			Subsequently, 69 N-glycans corresponding to 59 N-glycoproteins were identified and classified into high mannose and hybrid type N-glycans.
34122956	5	35	gly	glycopeptide	1338:1349	arg2	the MUC1 glycopeptide			the MUC1 glycopeptide						glycopeptide	Remarkably, the structure of the MUC1 glycopeptide in complex with SN-101 is identical to its solution NMR structure, an extended conformation induced by site-specific glycosylation.
32102970	8	22	part_of	N-linked	1545:1552	arg1	N-linked intact glycopeptides	N-linked		N-linked intact glycopeptides		Cterm	Site	N-linked		glycopeptides	The spectra of these N-linked deglycopeptides were utilized for N-linked deglycopeptides library construction and identification of N-linked intact glycopeptides.
32102970	8	125	part_of	N-linked	1434:1441	arg1	these N-linked deglycopeptides	N-linked		these N-linked deglycopeptides		Cterm	Site	N-linked		deglycopeptides	The spectra of these N-linked deglycopeptides were utilized for N-linked deglycopeptides library construction and identification of N-linked intact glycopeptides.
32321762	4	69	gly	PrPC	746:749	arg1	GPI glycan structures	PrPC			GPI glycan structures	PUBTATOR		PrPC	5621		Here we report GPI glycan structures of human PrPC isolated from human brains and from brains of a knock-in mouse model in which the mouse prion protein (Prnp) gene was replaced with the human PRNP gene.
33140034	2	34	gly	glycosylated	326:337	arg1	the extensively glycosylated SARS-CoV-2 spike (S) protein	the extensively glycosylated SARS-CoV-2 spike (S) protein				Fterm		protein			Antibody development efforts mainly revolve around the extensively glycosylated SARS-CoV-2 spike (S) protein, which mediates host cell entry by binding to the angiotensin-converting enzyme 2 (ACE2).
34318818	3	25	gly	position	697:704	arg1	its O-GlcNAcylation			Thr87 position	its O-GlcNAcylation					Thr87 position	Another important aspect of SynIa is its O-GlcNAcylation (O-GlcNac) at the Thr87 position, which is responsible for the positive regulation of synaptic plasticity linked to learning and memory in mice.
34102345	3	30	gly	glycoproteins	438:450	arg1	the glycoproteins	the glycoproteins				Fterm		glycoproteins			As the third most abundant component in human milk, human free oligosaccharides (HMOs) may interference the analysis of total N-glycans on the glycoproteins in human milk.
33181217	4	40	part_of	HAp/Cs	543:548	arg1	Porous HAp/Cs composites	HAp		Porous HAp/Cs composites		PUBTATOR	Site	HAp	10313	composites	Porous HAp/Cs composites exhibits low ε' and negative ε″, which influenced by the microstructural morphology, interaction between Hap and Cs, as well as crystalline features due to the various proportion of the HAp/Cs.
33915325	2	40	part_of	domain	243:248	arg1	IgG	IgG		domain		Cterm	Site	IgG		domain	Although the CH2 domain is the least stable domain in IgG, it is also a promising scaffold candidate for developing novel therapeutic approaches.
34367227	11	8	gly	glycosylation	1871:1883	arg1	viral glycoproteins	viral glycoproteins				Fterm		glycoproteins			The elucidation of the site-specific glycosylation of viral glycoproteins produced in N. benthamiana is an important step toward producing heterologous viral glycoproteins in plants with authentic human-like glycosylation.
34367227	11	35	gly	glycoproteins	1992:2004	arg1	heterologous viral glycoproteins	heterologous viral glycoproteins				Fterm		glycoproteins			The elucidation of the site-specific glycosylation of viral glycoproteins produced in N. benthamiana is an important step toward producing heterologous viral glycoproteins in plants with authentic human-like glycosylation.
34367227	11	75	gly	glycoproteins	1894:1906	arg1	viral glycoproteins	viral glycoproteins				Fterm		glycoproteins			The elucidation of the site-specific glycosylation of viral glycoproteins produced in N. benthamiana is an important step toward producing heterologous viral glycoproteins in plants with authentic human-like glycosylation.
33675758	13	16	part_of	region	1750:1755	arg1	glycosylated IgG1	IgG1		region		OGER	Site	IgG1	P01857	region	The Fc region in glycosylated IgG1 showed a restricted range of conformations relative to the Fab regions, whereas the Fc region in deglycosylated IgG1 showed a broader conformational spectrum.
33675758	13	66	part_of	region	1865:1870	arg1	deglycosylated IgG1	IgG1		region		OGER	Site	IgG1	P01857	region	The Fc region in glycosylated IgG1 showed a restricted range of conformations relative to the Fab regions, whereas the Fc region in deglycosylated IgG1 showed a broader conformational spectrum.
33675758	13	68	part_of	Fab	1837:1839	arg1	the Fab regions	Fab		the Fab regions		PUBTATOR	Site	Fab	2187	regions	The Fc region in glycosylated IgG1 showed a restricted range of conformations relative to the Fab regions, whereas the Fc region in deglycosylated IgG1 showed a broader conformational spectrum.
33380299	4	45	gly	sialylated	687:696	arg1	sialylated structures				sialylated structures						Special attention was paid to the preservation of sialylated structures because of their important clinical - biological relevance.
33063473	3	30	gly	N-glycosylation	320:334	arg1	PD-1	PD-1		sites		OGER		PD-1	P18621	sites	However, polymorphisms at N-glycosylation sites of PD-1 exist in the human population that might affect antibody binding, and dysregulated glycosylation has been observed in the tumor microenvironment.
33688648	5	81	gly	glycoprotein	1291:1302	arg1	the S glycoprotein	the S glycoprotein				PUBTATOR		S glycoprotein	43740568		These findings demonstrate that native top-down MS can provide a high-resolution proteoform-resolved mapping of diverse O-glycoforms of the S glycoprotein, which lays a strong molecular foundation to uncover the functional roles of their O-glycans.
34339169	8	28	gly	deglycosylated	1483:1496	arg1	fibronectin	fibronectin				PUBTATOR		fibronectin	2335		We also demonstrated that the recognition of human plasma fibronectin by Ata requires this ability to bind glycans, as the interaction between Ata and fibronectin does not occur when fibronectin is deglycosylated.
34367227	9	24	gly	glycoproteins	1446:1458	arg1	Both glycoproteins	Both glycoproteins				Fterm		glycoproteins			Both glycoproteins yielded increased amounts of protein aggregates when produced in plants compared to the equivalent mammalian cell-derived proteins.
34290702	4	7	gly	found	628:632	arg2	IgG-Fc AND di-galactosylated glycan structures	IgG-Fc			di-galactosylated glycan structures	Cterm		IgG			As expected, di-galactosylated glycan structures (lacking sialic acid) found on IgG-Fc differentiated LTBI from ATB, but also discriminated txATB from ATB.
34925381	1	12	gly	glycosylation	241:253	arg2	an additional N-linked glycosylation motif			an additional N-linked glycosylation motif						motif	Glycan-masking the vaccine antigen by mutating the undesired antigenic sites with an additional N-linked glycosylation motif can refocus B-cell responses to desired epitopes, without affecting the antigen's overall-folded structure.
32513872	0	54	part_of	protein	64:70	arg1	a prion protein epitope	protein		a prion protein epitope		Fterm	Site	protein		epitope	Incomplete glycosylation during prion infection unmasks a prion protein epitope that facilitates prion detection and strain discrimination.
32437801	3	14	gly	domain	910:915	arg1	rhamnogalacturonan I (RG-I) pectic polysaccharide domain backbone				rhamnogalacturonan I (RG-I) pectic polysaccharide domain backbone						Monosaccharide composition results showed that WCPP-N might mainly contain starch-like glucan as well as some arabinogalactan, while WCPP-A1, WCPP-A2 and its sub-fractions might mainly composed of rhamnogalacturonan I (RG-I) pectic polysaccharide domain backbone with some different types of side chains, including arabinan, galactan, and/or arabinogalactan.
32507163	0	10	gly	composites	109:118	arg1	engineered polysaccharides			composites	engineered polysaccharides					composites	Enzymatic polymerization derived engineered polysaccharides as reinforcing fillers of ethylene vinyl acetate composites.
35007000	7	18	part_of	EMI	1152:1154	arg1	the 3D printed EMI shielding composite	EMI		the 3D printed EMI shielding composite		OGER	Site	EMI	Q9Y6C2	composite	Specifically, the 3D printed EMI shielding composite efficiently absorbed EM radiation in the frequency range of 4-26 GHz, and the 3D printed deformation sensor exhibited excellent sensitivity, durability, and flexibility in monitoring mechanical distortions.
32045434	2	74	gly	Glycosylation	214:226	arg1	hCG	hCG				PUBTATOR		hCG	1511		Glycosylation of hCG is known to be essential for its biological activity.
31898491	10	105	part_of	CS-GAG	1510:1515	arg1	the structural motif	CS		the structural motif		PUBTATOR	Site	CS	1431	motif	The CS-GAG moiety serves as the structural motif for SRGN binding to tumor cell surface CD44 and promotes cell migration.
32648306	7	44	gly	glycosylated	1339:1350	arg1	cell surface glycosylated receptors	cell surface glycosylated receptors				Fterm		receptors			These results confirm the ability of CaBo to interact with hybrid and high-mannose N-glycans, supporting the hypothesis that CaBo's biological activity occurs primarily through its interaction with cell surface glycosylated receptors.
32125558	5	17	gly	sialylated	1023:1032	arg1	sialylated structures				sialylated structures						With the methotrexate supplementation, a targeted cell line, CHOmt17-100, showed up to 1.4 times more sialylated structures of glycoforms in total proteins.
32125558	5	89	gly	structures	1034:1043	arg1	total proteins	proteins			structures	Fterm		proteins			With the methotrexate supplementation, a targeted cell line, CHOmt17-100, showed up to 1.4 times more sialylated structures of glycoforms in total proteins.
32477333	7	49	gly	desialylated	1201:1212	arg1	the partially demannosylated or partially desialylated N-glycans				the partially demannosylated or partially desialylated N-glycans						Inhibitory effects of the N-glycans were not influenced by the partially demannosylated or partially desialylated N-glycans.
32477333	7	110	gly	demannosylated	1173:1186	arg1	the partially demannosylated or partially desialylated N-glycans				the partially demannosylated or partially desialylated N-glycans						Inhibitory effects of the N-glycans were not influenced by the partially demannosylated or partially desialylated N-glycans.
32513872	6	71	part_of	PrP	1450:1452	arg1	PrP epitopes	PrP		PrP epitopes		OGER	Site	PrP	P32119	epitopes	Because the specificity of our approach for prion detection and strain discrimination relies on the extent to which N-linked glycosylation shields or unshields PrP epitopes from antibody recognition, it dispenses with the requirement for additional standard manipulations to distinguish PrPSc from PrPC, including evaluation of protease resistance.
32485649	2	13	gly	glycopeptides	367:379	arg2	different tryptic glycopeptides	haptoglobin proteins		glycopeptides		PUBTATOR		haptoglobin proteins	3240	glycopeptides	In this short communication, we studied the effect of an organic modifier in the sample solvent on the solubility of different tryptic glycopeptides of hemopexin and haptoglobin proteins.
34375000	0	51	gly	glycosylation	60:72	arg2	conserved SARS-CoV-2 glycosylation sites			conserved SARS-CoV-2 glycosylation sites						sites	Identification of lectin receptors for conserved SARS-CoV-2 glycosylation sites.
33648177	5	12	part_of	α-L-1,5-Araf	754:765	arg1	α-L-1,5-Araf and t-α-L-Araf residues	Araf		α-L-1,5-Araf and t-α-L-Araf residues		OGER	AminoAcid	Araf	P10398	residues at	The side chains of (1 → 6)-β-D-galactan were branched with α-L-1,5-Araf and t-α-L-Araf residues at O-3.
33648177	5	21	part_of	t-α-L-Araf	771:780	arg1	α-L-1,5-Araf and t-α-L-Araf residues	Araf		α-L-1,5-Araf and t-α-L-Araf residues		OGER	AminoAcid	Araf	P10398	residues at	The side chains of (1 → 6)-β-D-galactan were branched with α-L-1,5-Araf and t-α-L-Araf residues at O-3.
34611825	10	27	part_of	protein	1401:1407	arg1	one signal peptide cleavage site	protein		one signal peptide cleavage site		Fterm	Site	protein		site	In silico analysis characterized RbL protein as acidic, stable, hydrophobic, and secretary protein with one signal peptide cleavage site (A26-A27) and four N-glycosylation sites.
34611825	10	27	part_of	protein	1401:1407	arg1	four N-glycosylation sites	protein		four N-glycosylation sites		Fterm	Site	protein		sites	In silico analysis characterized RbL protein as acidic, stable, hydrophobic, and secretary protein with one signal peptide cleavage site (A26-A27) and four N-glycosylation sites.
34611825	10	27	part_of	protein	1401:1407	arg1	A26-A27	protein		A26-A27		Fterm	SiteSequence	protein		A26-A27	In silico analysis characterized RbL protein as acidic, stable, hydrophobic, and secretary protein with one signal peptide cleavage site (A26-A27) and four N-glycosylation sites.
32955262	6	79	gly	glycosylated	979:990	arg1	all five glycosylated regions			all five glycosylated regions						regions	When used in an HDX-MS workflow, PNGase H+ allowed the extraction of HDX data from all five glycosylated regions of the serpin α1-antichymotrypsin.
33352114	1	12	gly	glycoproteins	206:218	arg1	misfolded glycoproteins	misfolded glycoproteins				Fterm		glycoproteins			UDP-glucose:glycoprotein glucosyltransferase (UGGT) flags misfolded glycoproteins for ER retention.
33352114	1	58	gly	glycoprotein	150:161	arg1	glycoprotein glucosyltransferase				glycoprotein glucosyltransferase						UDP-glucose:glycoprotein glucosyltransferase (UGGT) flags misfolded glycoproteins for ER retention.
32623356	0	99	gly	N-glycosylation	0:14	arg1	HMGB1	HMGB1				PUBTATOR		HMGB1	3146		N-glycosylation of High Mobility Group Box 1 protein (HMGB1) modulates the interaction with glycyrrhizin: A molecular modeling study.
32623356	0	99	gly	N-glycosylation	0:14	arg1	High Mobility Group Box 1 protein	High Mobility Group Box 1 protein				PUBTATOR		High Mobility Group Box 1 protein	3146		N-glycosylation of High Mobility Group Box 1 protein (HMGB1) modulates the interaction with glycyrrhizin: A molecular modeling study.
32102970	2	45	part_of	N-linked	524:531	arg1	N-linked intact glycopeptides	N-linked		N-linked intact glycopeptides		Cterm	Site	N-linked		glycopeptides	In this regard, a spectral library search method was presented for the identification of N-linked intact glycopeptides from N-linked glycoproteins in human serum with target-decoy and motif-specific false discovery rate (FDR) control.
32102970	2	80	part_of	glycoproteins	568:580	arg1	N-linked intact glycopeptides	glycoproteins		N-linked intact glycopeptides		Fterm	Site	glycoproteins		glycopeptides	In this regard, a spectral library search method was presented for the identification of N-linked intact glycopeptides from N-linked glycoproteins in human serum with target-decoy and motif-specific false discovery rate (FDR) control.
34067878	6	3	gly	RBD-ACE2	839:846	arg1	oligomannose MAN9 glycans	RBD-ACE2			oligomannose MAN9 glycans	PUBTATOR		RBD-ACE2	Q9BYF1		To this end, we perform extensive all-atom simulations of the (i) RBD-ACE2 complex without glycans, (ii) RBD-ACE2 with oligomannose MAN9 glycans in ACE2, and (iii) RBD-ACE2 with complex FA2 glycans in ACE2.
34067878	6	3	gly	RBD-ACE2	839:846	arg1	complex FA2 glycans	RBD-ACE2			complex FA2 glycans	PUBTATOR		RBD-ACE2	Q9BYF1		To this end, we perform extensive all-atom simulations of the (i) RBD-ACE2 complex without glycans, (ii) RBD-ACE2 with oligomannose MAN9 glycans in ACE2, and (iii) RBD-ACE2 with complex FA2 glycans in ACE2.
34067878	6	88	gly	RBD-ACE2	780:787	arg1	oligomannose MAN9 glycans	RBD-ACE2			oligomannose MAN9 glycans	PUBTATOR		RBD-ACE2	Q9BYF1		To this end, we perform extensive all-atom simulations of the (i) RBD-ACE2 complex without glycans, (ii) RBD-ACE2 with oligomannose MAN9 glycans in ACE2, and (iii) RBD-ACE2 with complex FA2 glycans in ACE2.
34067878	6	88	gly	RBD-ACE2	780:787	arg1	complex FA2 glycans	RBD-ACE2			complex FA2 glycans	PUBTATOR		RBD-ACE2	Q9BYF1		To this end, we perform extensive all-atom simulations of the (i) RBD-ACE2 complex without glycans, (ii) RBD-ACE2 with oligomannose MAN9 glycans in ACE2, and (iii) RBD-ACE2 with complex FA2 glycans in ACE2.
34067878	6	8	gly	glycans	766:772	arg1	ACE2	ACE2			glycans	PUBTATOR		ACE2	Q9BYF1		To this end, we perform extensive all-atom simulations of the (i) RBD-ACE2 complex without glycans, (ii) RBD-ACE2 with oligomannose MAN9 glycans in ACE2, and (iii) RBD-ACE2 with complex FA2 glycans in ACE2.
32577644	2	83	gly	glycosylated	322:333	arg1	the extensively glycosylated SARS-CoV-2 spike (S) protein	the extensively glycosylated SARS-CoV-2 spike (S) protein				OGER		S) protein	Q15517		Antibody development efforts mainly revolve around the extensively glycosylated SARS-CoV-2 spike (S) protein, which mediates the host cell entry by binding to the angiotensin-converting enzyme 2 (ACE2).
33352114	7	72	part_of	UGGT	1189:1192	arg1	the UGGT TRXL2 domain	UGGT		the UGGT TRXL2 domain		PUBTATOR	Site	UGGT	40055	domain	Our data support a "one-size-fits-all adjustable spanner" UGGT substrate recognition model, with an essential role for the UGGT TRXL2 domain.
34445285	9	28	gly	N-glycosylation	1254:1268	arg2	N-glycosylation sites			N-glycosylation sites						sites	The molecular modeling of GluA1 as one of the good cell surface substrates for GnT-III in the brain, indicated that GnT-III acts on N-glycosylation sites located in a highly flexible and mobile loop of GluA1.
34078541	8	51	part_of	FAs	1289:1291	arg1	the FAs compositions	FAs		the FAs compositions		OGER	Site	FAs	P49327	positions	The results concluded that fat replacer (XG), processing and storage had no significant effect on the FAs compositions of all goshtaba products including HFC.
32039452	6	1	gly	N-glycoproteins	1098:1112	arg1	two human therapeutic N-glycoproteins	two human therapeutic N-glycoproteins				Fterm		N-glycoproteins			The engineering was evaluated through coexpression of two human therapeutic N-glycoproteins, erythropoietin (EPO) and an immunoglobulin G (IgG) antibody.
33761173	2	67	gly	glycopeptides	392:404	arg2	glycopeptides			glycopeptides						glycopeptides	Because such glycosylation is macro- and micro-heterogeneous and alters the dissociation behavior of glycopeptides, specific sample preparation, mass spectrometry, and data analysis techniques are required.
32426967	4	8	gly	glycoforms	922:931	arg1	A1AT	A1AT				PUBTATOR		A1AT	5265		Two tandem mass spectrometry strategies are integrated in this study: a nontargeted stepped HCD strategy for structural analysis of A1AT glycopeptides and a targeted parallel reaction monitoring (PRM) strategy for quantification of site-specific glycoforms of A1AT in HCC and cirrhosis patient sera.
32426967	4	89	gly	glycopeptides	813:825	arg2	A1AT glycopeptides			A1AT glycopeptides						glycopeptides	Two tandem mass spectrometry strategies are integrated in this study: a nontargeted stepped HCD strategy for structural analysis of A1AT glycopeptides and a targeted parallel reaction monitoring (PRM) strategy for quantification of site-specific glycoforms of A1AT in HCC and cirrhosis patient sera.
33675758	0	41	gly	deglycosylated	22:35	arg1	deglycosylated human IgG1	deglycosylated human IgG1				OGER		IgG1	P01857		Solution structure of deglycosylated human IgG1 shows the role of CH2 glycans in its conformation.
32454127	8	79	gly	glycosylated	1365:1376	arg1	highly glycosylated PrP	highly glycosylated PrP				PUBTATOR		PrP	19122		Collectively, these results suggest that highly glycosylated PrP primarily converts as a GPI-anchored glycoform, with low involvement of HS co-factors, limiting PrP assembly mainly to oligomers.
34102345	0	13	gly	glycoprotein	56:67	arg1	milk glycoprotein	milk glycoprotein				Fterm		glycoprotein			A new method for purifying N-Glycans released from milk glycoprotein.
33792699	7	33	part_of	ERC/mesothelin	1413:1426	arg1	Asn388	ERC/mesothelin		Asn388		PUBTATOR	AminoAcid	ERC/mesothelin	10232	Asn388	Further, liquid chromatography/mass spectrometry analysis on ERC/mesothelin from epithelioid mesothelioma cells confirmed the presence of a bisecting-GlcNAc attached to Asn388 of ERC/mesothelin.
33118822	6	12	part_of	Fc	1307:1308	arg1	Fc fragment	Fc		Fc fragment		Cterm	SpecificSite	Fc		fragment Asn 61	The main glycan structure and relative abundance level were determined, and the glycosylation site was confirmed to be on the Fc fragment Asn 61.
32681153	7	20	gly	glycoproteins	1526:1538	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			Using this protocol, thousands of O-GalNAcylation sites from hundreds of glycoproteins with information regarding site-specific O-GalNAc glycan can be identified and quantified from complex samples.
33522177	1	5	gly	used	142:145	arg2	chitosan-based composites			chitosan-based composites						composites	It is well known that chitosan-based composites are widely used in implantable medical devices.
35662980	3	60	part_of	enzyme	468:473	arg1	N-glycopeptides	FUT8 enzyme		N-glycopeptides		PUBTATOR	Site	FUT8 enzyme	2530	N-glycopeptides	Here, we explored the FUT8 enzyme with a series of N-glycan oligosaccharides, N-glycopeptides, and an Asn-linked oligosaccharide.
33756033	1	12	gly	glycoforms	87:96	arg1	human interleukin 6	human interleukin 6				PUBTATOR		interleukin 6	3569		A library of glycoforms of human interleukin 6 (IL-6) comprising complex and mannosidic N-glycans was generated by semisynthesis.
33756033	1	12	gly	glycoforms	87:96	arg1	IL-6	IL-6				PUBTATOR		IL-6	3569		A library of glycoforms of human interleukin 6 (IL-6) comprising complex and mannosidic N-glycans was generated by semisynthesis.
33954318	9	23	gly	fucosylated	1471:1481	arg1	other fucosylated hMOs	other fucosylated hMOs				PUBTATOR		hMOs	4342		We expect that our results inspire the generation and biological evaluation of other fucosylated hMOs and mimics, to obtain a comprehensive overview of the anti-adhesive power of fucosylated glycans.
33954318	9	50	gly	fucosylated	1565:1575	arg1	fucosylated glycans				fucosylated glycans						We expect that our results inspire the generation and biological evaluation of other fucosylated hMOs and mimics, to obtain a comprehensive overview of the anti-adhesive power of fucosylated glycans.
32058627	2	23	part_of	dimer	393:397	arg1	a dimer fragment	dimer		a dimer fragment		Fterm	Site	dimer		fragment	We recently mapped the structural epitope of the capsular polysaccharide from type III Group B Streptococcus (GBSIII), a major cause of invasive disease in newborns, by using a dimer fragment (composed of two pentasaccharide repeating units) obtained by depolymerization complexed with a protective mAb.
34890647	2	6	gly	glycoprotein	410:421	arg1	glycoprotein contacts	glycoprotein contacts				Fterm		glycoprotein			Although accord exists on the importance of L235 in IgG1 and some hydrophobic contacts for complex stabilization, discord exists regarding the existence of stabilizing glycoprotein contacts between glycans of IgG1 and a conserved FG-loop (171MGKHRY176) of FcγRIa.
34890647	2	25	gly	IgG1	451:454	arg1	glycans	IgG1			glycans	OGER		IgG1	P01857		Although accord exists on the importance of L235 in IgG1 and some hydrophobic contacts for complex stabilization, discord exists regarding the existence of stabilizing glycoprotein contacts between glycans of IgG1 and a conserved FG-loop (171MGKHRY176) of FcγRIa.
33231436	1	5	gly	glycosylation	199:211	arg1	proteins	proteins				Fterm		proteins			The glycosylation of proteins contributes to the modulation of the structure and biological activity of glycoproteins.
33231436	1	61	gly	glycoproteins	299:311	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			The glycosylation of proteins contributes to the modulation of the structure and biological activity of glycoproteins.
31676481	7	20	gly	glycans	1196:1202	arg1	pectin	pectin			glycans	Fterm		pectin			B. ovatus utilized glycans in the order β-glucan, pectin, xyloglucan, and arabinoxylan, whereas B. longum subsp.
34633372	2	51	gly	glycoproteins	216:228	arg1	N-glycan profiling	glycoproteins			N-glycan profiling	Fterm		glycoproteins			N-glycan profiling of glycoproteins is required to detect novel biomarker candidates and determine glycan alterations in diseases.
31999773	5	14	part_of	FUs	617:619	arg1	eight FUs coding regions	FUs		eight FUs coding regions		OGER	Site	FUs	P35637	regions	Correspondingly, genes are organized in eight FUs coding regions.
32102970	1	110	part_of	N-linked	157:164	arg1	N-linked intact glycopeptides	N-linked		N-linked intact glycopeptides		Cterm	Site	N-linked		glycopeptides	Large-scale identification of N-linked intact glycopeptides by liquid chromatography coupled with tandem mass spectrometry (LC-MS/MS) in human serum is challenging because of the wide dynamic range of serum protein abundances, the lack of a complete serum N-glycan database and the existence of proteoforms.
33065002	4	53	gly	subunits	586:593	arg1	associated N-linked glycans	subunits			associated N-linked glycans	Fterm		subunits	537		Aided by mass spectrometry, we build all known protein subunits with associated N-linked glycans and identify glycolipids and phospholipids in the Vo complex.
32426967	7	7	gly	glycopeptides	1397:1409	arg2	glycopeptides			glycopeptides						glycopeptides	We found that our strategy was able to distinguish isomers of glycopeptides where several isomers showed distinctly different patterns between cirrhosis and HCC patients.
32104808	5	79	part_of	glycoproteins	930:942	arg1	O-glycopeptides	glycoproteins		O-glycopeptides		Fterm	Site	glycoproteins		O-glycopeptides	We show that DIALib theoretical ion libraries can identify and measure diverse N- and O-glycopeptides from yeast and mammalian glycoproteins without prior knowledge of the glycan structures present.
32045434	15	82	gly	carries	2011:2017	arg1	hCG AND the same N-glycans	hCG			the same N-glycans	OGER		hCG			hCG carries the same N-glycans throughout pregnancy but in different proportions.
34494876	1	34	gly	glycoprotein	211:222	arg1	the major cell entry receptor	the major cell entry receptor				Fterm		receptor			Human angiotensin I-converting enzyme 2 (hACE2) is a type I transmembrane glycoprotein that serves as the major cell entry receptor for SARS-CoV and SARS-CoV-2.
34494876	1	34	gly	glycoprotein	211:222	arg1	a type I transmembrane glycoprotein	a type I transmembrane glycoprotein				Fterm		glycoprotein			Human angiotensin I-converting enzyme 2 (hACE2) is a type I transmembrane glycoprotein that serves as the major cell entry receptor for SARS-CoV and SARS-CoV-2.
34494876	1	34	gly	glycoprotein	211:222	arg1	Human angiotensin I-converting enzyme 2	Human angiotensin I-converting enzyme 2				PUBTATOR		Human angiotensin I-converting enzyme 2	59272		Human angiotensin I-converting enzyme 2 (hACE2) is a type I transmembrane glycoprotein that serves as the major cell entry receptor for SARS-CoV and SARS-CoV-2.
32873758	0	1	gly	Terminus	66:73	arg1	a Novel Linking Sugar				a Novel Linking Sugar						Type IX Secretion System Cargo Proteins Are Glycosylated at the C Terminus with a Novel Linking Sugar of the Wbp/Vim Pathway.
34328324	3	20	gly	glycosites	1224:1233	arg2	their glycosites			their glycosites						glycosites	Here, we report the complete structural elucidation of intact O-glycan proteoforms through a hybrid native and denaturing top-down mass spectrometry (MS) approach employing both trapped ion mobility spectrometry (TIMS) quadrupole time-of-flight and ultrahigh-resolution Fourier transform ion cyclotron resonance (FTICR)-MS. Native top-down TIMS-MS/MS separates the protein conformers of the S-RBD to reveal their gas-phase structural heterogeneity, and top-down FTICR-MS/MS provides in-depth glycoform analysis for unambiguous identification of the glycan structures and their glycosites.
32871472	7	81	gly	fucosylated	891:901	arg1	a fucosylated bi-antennary N-glycan				a fucosylated bi-antennary N-glycan						The structures were glycosylated, with a fucosylated bi-antennary N-glycan and ubiquitinated.
32815134	3	31	gly	glycoproteins	464:476	arg1	S-layer glycoproteins	S-layer glycoproteins				Fterm		glycoproteins			The protocol is suitable for the isolation of S-layer glycoproteins from T. forsythia strains with diverse O-glycan structures, and aid in understanding the biochemical basis and the role of protein O-glycosylation in bacterial pathogenesis.
33688648	0	80	gly	Heterogeneity	23:35	arg1	the SARS-CoV-2 Spike Protein Receptor-Binding Domain	the SARS-CoV-2 Spike Protein Receptor-Binding Domain				Fterm		Domain			Structural O-Glycoform Heterogeneity of the SARS-CoV-2 Spike Protein Receptor-Binding Domain Revealed by Native Top-Down Mass Spectrometry.
33952698	1	7	part_of	has	132:134	arg1	Galectin-3 AND a long, aperiodic, and dynamic proline-rich N-terminal tail	Galectin-3		a long, aperiodic, and dynamic proline-rich N-terminal tail		PUBTATOR	Site	Galectin-3	3958	tail	Galectin-3 (Gal-3) has a long, aperiodic, and dynamic proline-rich N-terminal tail (NT).
34019602	1	20	part_of	SARS-CoV-2	173:182	arg1	SARS-CoV-2 and SARS-CoV S-protein receptor-binding domains	SARS		SARS-CoV-2 and SARS-CoV S-protein receptor-binding domains		OGER	Site	SARS	P49591	domains	We report a distinct difference in the interactions of the glycans of the host-cell receptor, ACE2, with SARS-CoV-2 and SARS-CoV S-protein receptor-binding domains (RBDs).
34019602	1	29	part_of	S-protein	197:205	arg1	SARS-CoV-2 and SARS-CoV S-protein receptor-binding domains	S-protein receptor		SARS-CoV-2 and SARS-CoV S-protein receptor-binding domains		OGER	Site	S-protein receptor	Q15517	domains	We report a distinct difference in the interactions of the glycans of the host-cell receptor, ACE2, with SARS-CoV-2 and SARS-CoV S-protein receptor-binding domains (RBDs).
34019602	1	34	part_of	receptor-binding	207:222	arg1	SARS-CoV-2 and SARS-CoV S-protein receptor-binding domains	S-protein receptor		SARS-CoV-2 and SARS-CoV S-protein receptor-binding domains		OGER	Site	S-protein receptor	Q15517	domains	We report a distinct difference in the interactions of the glycans of the host-cell receptor, ACE2, with SARS-CoV-2 and SARS-CoV S-protein receptor-binding domains (RBDs).
32928962	6	50	gly	O-glycoprotein	1159:1172	arg1	a mucin-type O-glycoprotein	a mucin-type O-glycoprotein				Fterm		O-glycoprotein			Conversely, transfection of Chinese hamster ovary cells with the core 2 GlcNAc transferase acting on a mucin-type O-glycoprotein displayed increased galectin-3 binding.
35126971	5	70	gly	N-glycosylation	1292:1306	arg1	N370			N370						N370	Furthermore, our results suggest that the loss of glycosylation at N370, a newly acquired modification in the SARS-CoV-2 S glycan shield's topology, may have contributed to increase the SARS-CoV-2 infectivity as we find that N-glycosylation at N370 stabilizes the closed RBD conformation by binding a specific cleft on the RBD surface.
33734311	1	12	gly	core-fucosylation	195:211	arg1	N-glycoproteins	N-glycoproteins				Fterm		N-glycoproteins			The α1,6-fucosyltransferase, FUT8, is the sole enzyme catalyzing the core-fucosylation of N-glycoproteins in mammalian systems.
33734311	1	38	gly	N-glycoproteins	216:230	arg1	the core-fucosylation	N-glycoproteins			the core-fucosylation	Fterm		N-glycoproteins			The α1,6-fucosyltransferase, FUT8, is the sole enzyme catalyzing the core-fucosylation of N-glycoproteins in mammalian systems.
34189908	3	35	gly	glycoproteins	527:539	arg1	homogeneous glycoproteins	homogeneous glycoproteins				Fterm		glycoproteins			To establish a more robust and rapid synthetic route for the synthesis of homogeneous glycoproteins, we studied several key reactions based on amino thioacids.
32502344	7	27	gly	MUC1	1100:1103	arg1	Gal/GalNAc	MUC1			Gal/GalNAc	PUBTATOR		MUC1	4582		Herein, we developed a dual-probe approach for mass spectrometric quantification of protein-specific glycosylation using the terminal galactose/N-acetylgalactosamine (Gal/GalNAc) of MUC1 as a model.
32502344	7	27	gly	MUC1	1100:1103	arg1	the terminal galactose/N-acetylgalactosamine	MUC1			the terminal galactose/N-acetylgalactosamine	PUBTATOR		MUC1	4582		Herein, we developed a dual-probe approach for mass spectrometric quantification of protein-specific glycosylation using the terminal galactose/N-acetylgalactosamine (Gal/GalNAc) of MUC1 as a model.
32205858	5	66	gly	Gd	724:725	arg1	Glycans	HEC-1B Gd			Glycans	PUBTATOR		HEC-1B Gd	5047		Glycans of HEC-1B Gd were found to comprise a typical mixture of high-mannose, hybrid, and complex-type N-glycans, often containing undecorated LacNAc (Galβ1-4GlcNAc) antennae.
32005975	7	5	gly	O-glycans	1076:1084	arg1	EPHA2	EPHA2			O-glycans	PUBTATOR		EPHA2	1969		O-glycans on EPHA2 were modified by C1GALT1 and both S277A and T429A mutants, which are O-glycosites on EPHA2, dramatically enhanced phosphorylation of Y588, suggesting that not only overall O-glycan structures but also site-specific O-glycosylation can regulate EPHA2 activity.
32005975	7	95	gly	O-glycosites	1164:1175	arg2	O-glycosites			O-glycosites						O-glycosites	O-glycans on EPHA2 were modified by C1GALT1 and both S277A and T429A mutants, which are O-glycosites on EPHA2, dramatically enhanced phosphorylation of Y588, suggesting that not only overall O-glycan structures but also site-specific O-glycosylation can regulate EPHA2 activity.
34890647	4	37	part_of	FcγRIa	957:962	arg1	peptic peptides	FcγRIa		peptic peptides		PUBTATOR	Site	FcγRIa	2209	peptides	For each glycoform of the IgG1-FcγRIa complex peptic peptides of Fab, Fc and FcγRIa report distinct H/D exchange rates.
34890647	4	55	part_of	Fab	945:947	arg1	peptic peptides	Fab		peptic peptides		PUBTATOR	Site	Fab	2187	peptides	For each glycoform of the IgG1-FcγRIa complex peptic peptides of Fab, Fc and FcγRIa report distinct H/D exchange rates.
33547931	1	36	part_of	residues	264:271	arg1	glycoproteins	glycoproteins		residues		Fterm	Site	glycoproteins		residues	CRISPR/Cas9-mediated OsXylT and OsFucT mutation caused the elimination of plant-specific β1,2-xylose and α1,3-fucose residues on glycoproteins in rice, which is the first report of OsXylT/OsFucT double KO mutation in rice.
32306337	2	38	gly	N-glycoproteins	379:393	arg1	N-glycoproteins	N-glycoproteins			Glc1Man9GlcNAc2 oligosaccharides	Fterm		N-glycoproteins			They can exert molecular chaperone functions via specific binding to the early processing intermediates of Glc1Man9GlcNAc2 oligosaccharides of N-glycoproteins.
34328324	5	77	gly	glycoprotein	1509:1520	arg1	the S glycoprotein	the S glycoprotein				PUBTATOR		S glycoprotein	43740568		These findings demonstrate that this hybrid top-down MS approach can provide a high-resolution proteoform-resolved mapping of diverse O-glycoforms of the S glycoprotein, which lays a strong molecular foundation to uncover the functional roles of their O-glycans.
33360415	4	20	gly	sialylation	785:795	arg1	N-linked glycans				N-linked glycans						Through a series of structural and physicochemical characterizations, we concluded that the acidic variants were caused by fragments, Met oxidation, Asn deamidation, higher levels of sialylation and galactosylation of N-linked glycans, and less high mannose.
33068214	10	93	gly	O-glycosite	1901:1911	arg2	O-glycosite			O-glycosite						O-glycosite	O-glycosite mapping strategy via proteases, cut-off filtration and solid-phase chemoenzymatic processing.
32544320	4	30	gly	glycopeptides	613:625	arg2	glycopeptides			glycopeptides						glycopeptides	These findings permitted the isomeric separation of glycopeptides resulting from highly specific enzymatic digestions.
33104960	4	25	gly	glycosylation	679:691	arg2	glycosylation site specificity			glycosylation site specificity						site	Though highly ubiquitous, glycosylation site specificity and the degree of glycosylation influenced by genetic and exogenous factors are still largely unknown.
34174476	17	25	gly	peptides	2838:2845	arg1	par excellence				par excellence						The reported modifications, including the unusual glycosylation, adds much to our knowledge of this important class of peptides in this model organism, par excellence.
32104808	4	26	gly	glycopeptide	746:757	arg2	glycopeptide			glycopeptide						glycopeptide	Here, we present DIALib, software to automate the construction of peptide and glycopeptide Data Independent Acquisition ion Libraries.
34791559	2	26	gly	fucosylated	403:413	arg1	fucosylated glycans				fucosylated glycans						Similar patterns of the expression of fucosylated glycans in the syncytiotrophoblast glycocalyx were revealed in the placental tissue of patients with normal pregnancy and with mild and severe PE: predominance of glycans with α1,6-fucose in the core, clustered fucose residues, and LeX glycan over α1,2-fucose-containing glycans.
33566602	7	52	gly	N-glycosites	1108:1119	arg2	N-glycosites			N-glycosites						N-glycosites	Moreover, N-glycosites in several metalloproteases were located within the functional domain or active site region, indicating that the decreased N-glycosylation levels may affect their structural stability, specific substrate binding, or enzyme activity.
35066229	9	2	gly	sialylated	1590:1599	arg1	the biantennary sialylated glycans				the biantennary sialylated glycans						However, under both plasma concentrations, the biantennary sialylated glycans (A2G2S2) are enriched.
32885971	2	50	gly	glycosylated	292:303	arg1	S	S				PUBTATOR		S	43740568		As the crucial mediator of infection, the viral glycosylated spike protein (S) has attracted the most attention and is at the center of efforts to develop therapeutics and diagnostics.
32885971	2	50	gly	glycosylated	292:303	arg1	the viral glycosylated spike protein	the viral glycosylated spike protein				Fterm		protein			As the crucial mediator of infection, the viral glycosylated spike protein (S) has attracted the most attention and is at the center of efforts to develop therapeutics and diagnostics.
34841862	2	3	part_of	Aβ	269:270	arg1	Aβ peptides	Aβ 		Aβ peptides		PUBTATOR	Site	Aβ 	351	peptides	Aβ peptides have diverse posttranslational modifications (PTMs) that variously modulate Aβ aggregation into fibrils, but understanding the mechanistic roles of PTMs in these processes remains a challenge.
32841605	1	8	gly	glycoprotein	245:256	arg1	the cell surface receptor angiotensin converting enzyme 2 (ACE2) glycoprotein	the cell surface receptor angiotensin converting enzyme 2 (ACE2) glycoprotein				Fterm		glycoprotein	43740575		The SARS-CoV-2 betacoronavirus uses its highly glycosylated trimeric Spike protein to bind to the cell surface receptor angiotensin converting enzyme 2 (ACE2) glycoprotein and facilitate host cell entry.
32841605	1	26	gly	glycosylated	133:144	arg1	its highly glycosylated trimeric Spike protein	its highly glycosylated trimeric Spike protein				PUBTATOR		Spike protein	43740568		The SARS-CoV-2 betacoronavirus uses its highly glycosylated trimeric Spike protein to bind to the cell surface receptor angiotensin converting enzyme 2 (ACE2) glycoprotein and facilitate host cell entry.
32438810	2	52	gly	glycoproteins	311:323	arg1	immunoglobulin-G	immunoglobulin-G				Cterm		immunoglobulin-G (Ig			In this work, we provide in-depth structural information on the glycan structures of known whey glycoproteins, namely, lactoferrin, lactoperoxidase, α-lactalbumin, immunoglobulin-G (IgG), and glycosylation-dependent cellular adhesion molecule 1 (GlyCAM-1, PP3).
32438810	2	52	gly	glycoproteins	311:323	arg1	lactoferrin	lactoferrin				PUBTATOR		lactoferrin	280846		In this work, we provide in-depth structural information on the glycan structures of known whey glycoproteins, namely, lactoferrin, lactoperoxidase, α-lactalbumin, immunoglobulin-G (IgG), and glycosylation-dependent cellular adhesion molecule 1 (GlyCAM-1, PP3).
32438810	2	52	gly	glycoproteins	311:323	arg1	glycosylation-dependent cellular adhesion molecule 1	glycosylation-dependent cellular adhesion molecule 1				PUBTATOR		glycosylation-dependent cellular adhesion molecule 1	282430		In this work, we provide in-depth structural information on the glycan structures of known whey glycoproteins, namely, lactoferrin, lactoperoxidase, α-lactalbumin, immunoglobulin-G (IgG), and glycosylation-dependent cellular adhesion molecule 1 (GlyCAM-1, PP3).
32438810	2	52	gly	glycoproteins	311:323	arg1	lactoperoxidase	lactoperoxidase				PUBTATOR		lactoperoxidase	280844		In this work, we provide in-depth structural information on the glycan structures of known whey glycoproteins, namely, lactoferrin, lactoperoxidase, α-lactalbumin, immunoglobulin-G (IgG), and glycosylation-dependent cellular adhesion molecule 1 (GlyCAM-1, PP3).
32438810	2	52	gly	glycoproteins	311:323	arg1	α-lactalbumin	α-lactalbumin				PUBTATOR		-lactalbumin	281894		In this work, we provide in-depth structural information on the glycan structures of known whey glycoproteins, namely, lactoferrin, lactoperoxidase, α-lactalbumin, immunoglobulin-G (IgG), and glycosylation-dependent cellular adhesion molecule 1 (GlyCAM-1, PP3).
32438810	2	60	gly	glycoproteins	311:323	arg1	the glycan structures	glycoproteins			the glycan structures	Fterm		glycoproteins			In this work, we provide in-depth structural information on the glycan structures of known whey glycoproteins, namely, lactoferrin, lactoperoxidase, α-lactalbumin, immunoglobulin-G (IgG), and glycosylation-dependent cellular adhesion molecule 1 (GlyCAM-1, PP3).
34019602	3	7	gly	presence	543:550	arg2	N357 AND the RBD glycan			N357	the RBD glycan					N357	The interactions of the ACE2 glycan at N322 with SARS-CoV RBD are blocked by the presence of the RBD glycan at N357 of the SARS-CoV RBD.
34687008	4	17	gly	glycopeptide	858:869	arg2	glycopeptide preparation			glycopeptide preparation						glycopeptide	Different approaches, including antibody enrichment, glycan release, labeling, and glycopeptide preparation and purification, are covered and illustrated with recent breakthroughs and examples from the literature omitting excessive theoretical frameworks.
32896318	4	18	gly	glycoprotein	831:842	arg1	a presumed cell surface glycoprotein	a presumed cell surface glycoprotein				Fterm		glycoprotein			In this chapter, we guide the reader through a protocol aimed to address the glycosylation status of a presumed cell surface glycoprotein.
32896318	4	52	gly	glycosylation	783:795	arg1	a presumed cell surface glycoprotein	a presumed cell surface glycoprotein				Fterm		glycoprotein			In this chapter, we guide the reader through a protocol aimed to address the glycosylation status of a presumed cell surface glycoprotein.
35662980	7	0	gly	N-glycoproteins	1370:1384	arg1	well-characterized therapeutic N-glycoproteins	well-characterized therapeutic N-glycoproteins				Fterm		N-glycoproteins			We applied genetic engineering of glycosylation capacities in CHO cells to evaluate FUT8 core fucosylation of high-mannose and complex-type N-glycans in cells with a panel of well-characterized therapeutic N-glycoproteins.
35662980	7	84	gly	fucosylation	1258:1269	arg1	high-mannose and complex-type N-glycans				high-mannose and complex-type N-glycans						We applied genetic engineering of glycosylation capacities in CHO cells to evaluate FUT8 core fucosylation of high-mannose and complex-type N-glycans in cells with a panel of well-characterized therapeutic N-glycoproteins.
33661628	9	26	gly	N45	1986:1988	arg1	hybrid complex forms			N45	hybrid complex forms					N45	Ultimately, the highly populated conformations of the Man5 linked glycans support experimental evidence of high levels of hybrid complex forms at N45 and show a specific presentation of the arms at N162, which may be involved in mediating binding affinity to the IgG1 Fc.
32526222	2	15	part_of	EV	651:652	arg1	helminth EV composition	EV		helminth EV composition		Cterm	Site	EV		position	However, parasitic helminth biology is unique and this is likely reflected in helminth EV composition and biological activity.
34094206	6	26	gly	glycoproteins	1120:1132	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			This study opens a new route for the identification of aptamers for the binary recognition of glycoproteins, useful for diagnostic and therapeutic applications.
34806714	7	73	gly	glycopeptides	1392:1404	arg2	bacterial glycopeptides			bacterial glycopeptides						glycopeptides	This article presents a streamlined workflow for the interpretation and analysis of glycoproteomic data, demonstrating how open searching techniques can be used to identify bacterial glycopeptides without prior knowledge of the glycan compositions.
33064451	5	10	gly	types	918:922	arg1	the modification sites			the modification sites	the modification sites		Site			sites	Significant variations were observed in the distribution of glycan types as well as the specific individual glycans on the modification sites of the ectodomain and subunit proteins.
33064451	5	10	gly	types	918:922	arg1	the ectodomain and subunit proteins	proteins			types	Fterm		proteins			Significant variations were observed in the distribution of glycan types as well as the specific individual glycans on the modification sites of the ectodomain and subunit proteins.
33064451	5	63	gly	glycans	959:965	arg1	the modification sites			the modification sites	the modification sites		Site			sites	Significant variations were observed in the distribution of glycan types as well as the specific individual glycans on the modification sites of the ectodomain and subunit proteins.
33064451	5	63	gly	glycans	959:965	arg1	the ectodomain and subunit proteins	proteins			glycans	Fterm		proteins			Significant variations were observed in the distribution of glycan types as well as the specific individual glycans on the modification sites of the ectodomain and subunit proteins.
34925422	4	33	gly	N-glycoproteins	518:532	arg1	These N-glycoproteins	These N-glycoproteins				Fterm		N-glycoproteins			These N-glycoproteins participated in a variety of important metabolic pathways in P. tricornutum.
34424752	6	2	gly	RNase	1246:1250	arg1	a model high-mannose-type glycoprotein	RNase B			a model high-mannose-type glycoprotein	OGER		RNase B	P07998		Previous studies showed that the GH18 catalytic domains of EndoE (EF0114) and EfEndo18A (EF2863) were capable of deglycosylating RNase B, a model high-mannose-type glycoprotein.
34424752	6	18	gly	glycoprotein	1281:1292	arg1	RNase B	RNase B			a model high-mannose-type glycoprotein	OGER		RNase B	P07998		Previous studies showed that the GH18 catalytic domains of EndoE (EF0114) and EfEndo18A (EF2863) were capable of deglycosylating RNase B, a model high-mannose-type glycoprotein.
33838804	4	5	part_of	contains	779:786	arg1	WRSP-A3a AND a small branched RG-I domain	WRSP-A3a		a small branched RG-I domain		OGER	Site	A3a	P31941	domain	Results show that WRSP-A2b contains a highly branched RG-I domain, primarily substituted with α-(1→5)-linked arabinans, whereas WRSP-A3a contains a small branched RG-I domain mainly composed of β-(1→4)-linked galactan side chains.
34445285	6	55	gly	glycoproteins	672:684	arg1	Target glycoproteins	Target glycoproteins				Fterm		glycoproteins			Target glycoproteins of GnT-III were enriched with E4-phytohemagglutinin (PHA) lectin, which recognizes bisecting GlcNAc, and analyzed by liquid chromatograph-mass spectrometry.
33709491	1	25	part_of	protein	275:281	arg1	the receptor-binding domain	protein		the receptor-binding domain		Fterm	Site	protein		domain	SARS-CoV-2 attaches to its host receptor, angiotensin-converting enzyme 2 (ACE2), via the receptor-binding domain (RBD) of the spike protein.
33709491	1	46	part_of	receptor-binding	232:247	arg1	the receptor-binding domain	receptor		the receptor-binding domain		Fterm	Site	receptor		domain	SARS-CoV-2 attaches to its host receptor, angiotensin-converting enzyme 2 (ACE2), via the receptor-binding domain (RBD) of the spike protein.
33734311	6	34	gly	glycoprotein	1162:1173	arg1	glycoprotein substrates	glycoprotein substrates				Fterm		glycoprotein			FUT8 could also fucosylate paucimannose structures when they are on glycoprotein substrates.
33734311	6	53	gly	fucosylate	1110:1119	arg1	paucimannose structures				paucimannose structures						FUT8 could also fucosylate paucimannose structures when they are on glycoprotein substrates.
29532110	2	68	gly	glycoproteins	357:369	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			Most of the recombinant biologics are glycoproteins that contain complex oligosaccharide or glycan attachments representing a principal component of product quality.
29532110	2	58	gly	contain	376:382	arg1	glycoproteins AND glycan attachments	glycoproteins			glycan attachments	Fterm		glycoproteins			Most of the recombinant biologics are glycoproteins that contain complex oligosaccharide or glycan attachments representing a principal component of product quality.
29532110	2	58	gly	contain	376:382	arg1	glycoproteins AND complex oligosaccharide	glycoproteins			complex oligosaccharide	Fterm		glycoproteins			Most of the recombinant biologics are glycoproteins that contain complex oligosaccharide or glycan attachments representing a principal component of product quality.
34328324	6	42	gly	O-glycoproteins	1771:1785	arg1	other O-glycoproteins	other O-glycoproteins				Fterm		O-glycoproteins			This proteoform-resolved approach can be applied to reveal the structural O-glycoform heterogeneity of emergent SARS-CoV-2 S-RBD variants as well as other O-glycoproteins in general.
34328324	6	107	gly	heterogeneity	1702:1714	arg1	other O-glycoproteins	other O-glycoproteins				Fterm		O-glycoproteins			This proteoform-resolved approach can be applied to reveal the structural O-glycoform heterogeneity of emergent SARS-CoV-2 S-RBD variants as well as other O-glycoproteins in general.
34328324	6	107	gly	heterogeneity	1702:1714	arg1	emergent SARS-CoV-2 S-RBD variants	emergent SARS-CoV-2 S-RBD variants				Fterm		variants			This proteoform-resolved approach can be applied to reveal the structural O-glycoform heterogeneity of emergent SARS-CoV-2 S-RBD variants as well as other O-glycoproteins in general.
32928962	7	65	gly	unsialylated	1383:1394	arg1	unsialylated core 1 O-glycans				unsialylated core 1 O-glycans						Both the level of galectin-3 and the galectin-3 interactions with synovial lubricin were found to be decreased in late-stage OA patients, coinciding with an increase in unsialylated core 1 O-glycans (T-antigens) and Tn-antigens.
33777069	6	11	gly	glycoproteins	829:841	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			Here, we report the identification of Lewis A bearing glycoproteins from three different plant species: Arabidopsis thaliana, Nicotiana benthamiana, and Oryza sativa.
34102345	7	34	gly	proteins	1116:1123	arg1	the N-glycans	proteins			the N-glycans	Fterm		proteins			We applied the new method to purify the N-glycans from whey proteins in pooled bovine milk and compared the N-glycosylation differences between pooled human and bovine milk by MALDI-TOF MS. We first reported the difference of N-glycan pattern of glycoproteins between pooled bovine and human milk by lectin blotting, and found significant differences in types and abundance of glycoproteins between the two sourced milk.
34102345	7	49	gly	glycoproteins	1433:1445	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			We applied the new method to purify the N-glycans from whey proteins in pooled bovine milk and compared the N-glycosylation differences between pooled human and bovine milk by MALDI-TOF MS. We first reported the difference of N-glycan pattern of glycoproteins between pooled bovine and human milk by lectin blotting, and found significant differences in types and abundance of glycoproteins between the two sourced milk.
34102345	7	50	gly	glycoproteins	1302:1314	arg1	glycoproteins	glycoproteins			N-glycan pattern	Fterm		glycoproteins			We applied the new method to purify the N-glycans from whey proteins in pooled bovine milk and compared the N-glycosylation differences between pooled human and bovine milk by MALDI-TOF MS. We first reported the difference of N-glycan pattern of glycoproteins between pooled bovine and human milk by lectin blotting, and found significant differences in types and abundance of glycoproteins between the two sourced milk.
34633372	7	12	gly	released	794:801	arg2	glycoproteins AND N-glycans	glycoproteins			N-glycans	Fterm		glycoproteins			N-glycans were released from glycoproteins with a facile method and labeled by a procainamide fluorophore tag in the strategy.
34633372	7	28	gly	glycoproteins	808:820	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			N-glycans were released from glycoproteins with a facile method and labeled by a procainamide fluorophore tag in the strategy.
32505675	5	10	gly	NOTCH1	715:720	arg1	EGF repeat 27	NOTCH1			EGF repeat 27	PUBTATOR		NOTCH1	P46531		EGF repeat 27 (EGF27) from mouse NOTCH1 is modified with O-fucose and is 1 of 7 repeats that is differentially modified by specific Fringe enzymes, which are known to regulate NOTCH1 activation and ligand binding.
32088239	5	57	part_of	PPN	1253:1255	arg1	smooth regions	PPG, PPN		smooth regions		OGER	Site	PPG, PPN	Q9H237	regions	The linear →4)-Hexp-(1 → structures were clearly identified as the common structural backbones in side chains or smooth regions of the main chain in PPG, PPN, and PPQ using HILIC-UHPLC-ESI--MS/MS for characterization of partial acid hydrolyzates.
32088239	5	58	part_of	PPG	1248:1250	arg1	smooth regions	PPG, PPN		smooth regions		OGER	Site	PPG, PPN	Q9H237	regions	The linear →4)-Hexp-(1 → structures were clearly identified as the common structural backbones in side chains or smooth regions of the main chain in PPG, PPN, and PPQ using HILIC-UHPLC-ESI--MS/MS for characterization of partial acid hydrolyzates.
32088239	5	49	part_of	regions	1219:1225	arg1	PPG	PPG, PPN		regions		OGER	Site	PPG, PPN	Q9H237	regions	The linear →4)-Hexp-(1 → structures were clearly identified as the common structural backbones in side chains or smooth regions of the main chain in PPG, PPN, and PPQ using HILIC-UHPLC-ESI--MS/MS for characterization of partial acid hydrolyzates.
32955262	2	42	gly	glycoproteins	299:311	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			However, glycoproteins represent a challenge to the traditional HDX-MS workflow for determining the deuterium uptake of the protein segments that contain the glycan.
34083726	0	10	gly	epitopes	62:69	arg1	mammalian glycoproteins	glycoproteins			epitopes	Fterm		glycoproteins			Novel lamprey antibody recognizes terminal sulfated galactose epitopes on mammalian glycoproteins.
34083726	0	13	gly	glycoproteins	84:96	arg1	mammalian glycoproteins	mammalian glycoproteins				Fterm		glycoproteins			Novel lamprey antibody recognizes terminal sulfated galactose epitopes on mammalian glycoproteins.
32513872	2	36	gly	attached	537:544	arg1	Asn-196 AND glycans			Asn-196	glycans					Asn-196	Here we show that the anti-PrP mAb PRC7 recognizes an epitope that is shielded from detection when glycans are attached to Asn-196.
32438810	4	41	part_of	Gal-β	791:795	arg1	Gal-β(1,4)-GlcNAc (LacNAc) motifs	Gal		Gal-β(1,4)-GlcNAc (LacNAc) motifs		OGER	Site	Gal	P22466	motifs	We identified specific signature glycans for these main proteins; lactoferrin contributes oligomannose-type glycans, while IgG carries fucosylated di-antennary glycans with Gal-β(1,4)-GlcNAc (LacNAc) motifs.
34687022	1	33	gly	glycoprotein	143:154	arg1	Immunoglobulin G	Immunoglobulin G				Cterm		Immunoglobulin G			Immunoglobulin G is a prevalent glycoprotein, whose downstream immune responses are partially mediated by the N-glycans within the fragment crystallisable domain.
34687022	1	33	gly	glycoprotein	143:154	arg1	a prevalent glycoprotein	a prevalent glycoprotein				Fterm		glycoprotein			Immunoglobulin G is a prevalent glycoprotein, whose downstream immune responses are partially mediated by the N-glycans within the fragment crystallisable domain.
34767672	7	92	gly	glycoprotein	1167:1178	arg1	a glycoprotein fraction	a glycoprotein fraction				Fterm		glycoprotein			By contrast, βGlcY precipitation of the water-soluble cell wall fraction of Spirogyra yielded a glycoprotein fraction rich in hydroxyproline, indicating the presence of AGPs.
32178593	2	25	gly	glycoprotein	349:360	arg1	COVID-19 spike glycoprotein	COVID-19 spike glycoprotein				Fterm		glycoprotein			Here we report our modelled homo-trimer structure of COVID-19 spike glycoprotein in both closed (ligand-free) and open (ligand-bound) conformation, which is involved in host cell adhesion.
32477333	13	55	gly	bLF	2203:2205	arg1	isolated N-glycans	bLF			isolated N-glycans	Cterm		bLF	280846		Our findings demonstrate that isolated N-glycans from bLF have attenuating effects on TLR-8 induced immune activation in HEK293 cells and human MoDCs.
32213588	6	36	gly	domain	1101:1106	arg1	extended high-mannose glycosylation			domain	extended high-mannose glycosylation					domain	Exclusive elucidation of differentially expressed membrane glycoproteins and molecular modeling suggested that extended high-mannose glycosylation at the helical domain of transferrin receptor protein 1 promotes conformational changes that improve noncovalent interaction energies and lead to enhancement of cell migration in metastatic cholangiocarcinoma.
32213588	6	59	gly	glycoproteins	998:1010	arg1	differentially expressed membrane glycoproteins	differentially expressed membrane glycoproteins				Fterm		glycoproteins			Exclusive elucidation of differentially expressed membrane glycoproteins and molecular modeling suggested that extended high-mannose glycosylation at the helical domain of transferrin receptor protein 1 promotes conformational changes that improve noncovalent interaction energies and lead to enhancement of cell migration in metastatic cholangiocarcinoma.
32213588	6	11	gly	glycosylation	1072:1084	arg2	the helical domain	transferrin receptor protein 1		domain		PUBTATOR		transferrin receptor protein 1	7037	domain	Exclusive elucidation of differentially expressed membrane glycoproteins and molecular modeling suggested that extended high-mannose glycosylation at the helical domain of transferrin receptor protein 1 promotes conformational changes that improve noncovalent interaction energies and lead to enhancement of cell migration in metastatic cholangiocarcinoma.
32213588	6	11	gly	glycosylation	1072:1084	arg1	the helical domain	transferrin receptor protein 1		domain		PUBTATOR		transferrin receptor protein 1	7037	domain	Exclusive elucidation of differentially expressed membrane glycoproteins and molecular modeling suggested that extended high-mannose glycosylation at the helical domain of transferrin receptor protein 1 promotes conformational changes that improve noncovalent interaction energies and lead to enhancement of cell migration in metastatic cholangiocarcinoma.
32213588	6	11	gly	glycosylation	1072:1084	arg1	the helical domain			domain						domain	Exclusive elucidation of differentially expressed membrane glycoproteins and molecular modeling suggested that extended high-mannose glycosylation at the helical domain of transferrin receptor protein 1 promotes conformational changes that improve noncovalent interaction energies and lead to enhancement of cell migration in metastatic cholangiocarcinoma.
34178940	7	98	gly	glycoprotein	1407:1418	arg1	a glycoprotein standard mixture	a glycoprotein standard mixture				Fterm		glycoprotein			In repeatability and intermediate precision measurements conducted on released N-glycans from a glycoprotein standard mixture, the majority of N-glycans reported low coefficients of variation with respect to retention times (≤4.2%) and peak areas (≤14.4%).
34633372	11	4	gly	glycoprotein	1295:1306	arg1	any glycoprotein	any glycoprotein				Fterm		glycoprotein			This protocol can be applied to any glycoprotein extracted from various species.
33065988	3	39	gly	glycopeptides	518:530	arg2	glycopeptides			glycopeptides						glycopeptides	For this purpose, we have shown the importance of selecting a suitable hydrophilic interaction liquid chromatography (HILIC) stationary phase in the separation of glycopeptides and their isomers.
34015330	10	48	part_of	SLC35A1	1277:1283	arg1	the binding site	SLC35A1		the binding site		PUBTATOR	Site	SLC35A1	10559	site	When we restricted the binding site of SLC35A1 by introducing the bulky residues present in SLC35A4, the mutant transporter was unable to support sialylation of proteins in cells but still supported ribitol phosphorylation.
32896318	7	21	gly	glycoproteins	1309:1321	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			We particularly focus on the hydroxyproline-rich glycoprotein (HRGP) family, the most abundant family of glycoproteins in the plant cell wall.
32896318	7	70	gly	glycoprotein	1253:1264	arg1	the hydroxyproline-rich glycoprotein (HRGP) family	the hydroxyproline-rich glycoprotein (HRGP) family				PUBTATOR		hydroxyproline-rich glycoprotein	3273		We particularly focus on the hydroxyproline-rich glycoprotein (HRGP) family, the most abundant family of glycoproteins in the plant cell wall.
34876606	8	2	part_of	spike	1355:1359	arg1	the spike head	spike		the spike head		PUBTATOR	Site	spike	43740568	head	All the glycosylation sites with altered patterns were in the spike head while the glycosylation of three sites in the stalk remained unchanged between S-614G and S-614D proteins.
34127537	7	72	gly	N-glycosylation	1057:1071	arg1	IgA2	IgA2				PUBTATOR		IgA2	973		RESULTS Multiple structural features of N-glycosylation of IgA1 and IgA2 were associated with IgAN and glomerular function in our cross-sectional study.
34127537	7	72	gly	N-glycosylation	1057:1071	arg1	IgA1	IgA1				PUBTATOR		IgA1	P01876		RESULTS Multiple structural features of N-glycosylation of IgA1 and IgA2 were associated with IgAN and glomerular function in our cross-sectional study.
32470085	1	38	gly	glycoproteins	210:222	arg1	recombinant envelope (Env) glycoproteins	recombinant envelope (Env) glycoproteins				Fterm		glycoproteins			Several candidate HIV subunit vaccines based on recombinant envelope (Env) glycoproteins have been advanced into human clinical trials.
33352114	4	7	gly	glycoprotein	603:614	arg1	the same glycoprotein	the same glycoprotein				Fterm		glycoprotein			We name "Parodi limit" the maximum distance on the same glycoprotein between a site of misfolding and an N-linked glycan that can be reglucosylated by monomeric UGGT in vitro, in response to recognition of misfold at that site.
33262351	7	5	gly	glycoprotein	1143:1154	arg1	glycoprotein levels	glycoprotein levels				Fterm		glycoprotein			The results show that glycoprotein levels are mainly controlled by the expression of their individual proteins, and, furthermore, that the glycoprotein-modifying glycans correspond to the protein levels of glycosylation enzymes.
33063473	3	52	part_of	PD-1	345:348	arg1	N-glycosylation sites	PD-1		N-glycosylation sites		OGER	Site	PD-1	P18621	sites	However, polymorphisms at N-glycosylation sites of PD-1 exist in the human population that might affect antibody binding, and dysregulated glycosylation has been observed in the tumor microenvironment.
32149355	1	36	gly	O-mannosylation	162:176	arg1	α-dystroglycan				α-dystroglycan						Mutations in multiple genes required for proper O-mannosylation of α-dystroglycan are causal for congenital/limb-girdle muscular dystrophies and abnormal brain development in mammals.
34523784	4	10	gly	glycoforms	512:521	arg1	EPO	EPO				PUBTATOR		EPO	2056		We have developed a robust and reproducible chemoenzymatic approach to glycoforms of EPO with and without sialic acids.
32544320	3	11	gly	glycopeptide	410:421	arg2	glycopeptide isomers			glycopeptide isomers						glycopeptide	Herein, we report that the separation of glycopeptide isomers on porous graphitic carbon (PGC)-LC was significantly improved by elevating the separation temperature under basic mobile phases.
32066783	7	40	gly	PSA	1228:1230	arg1	highly branched N-glycans	PSA			highly branched N-glycans	PUBTATOR		PSA	354		Two novel types of PSA were elucidated in the Con A-unbound fraction: one is a high molecular weight PSA with highly branched N-glycans, and the other is a low molecular weight PSA without N-glycans.
32865981	8	76	gly	released	1808:1815	arg2	ovalbumin AND N-linked glycans	ovalbumin			N-linked glycans	PUBTATOR		ovalbumin	396058		G-TIMS EED MS/MS analysis of N-linked glycans released from ovalbumin revealed that several mobility features previously thought to arise from isomeric structures were conformers of a single structure.
33483058	6	56	part_of	Araf	1088:1091	arg1	arabinofuranosyl (Araf) residues	Araf		arabinofuranosyl (Araf) residues		OGER	Site	Araf	P10398	residues	The utmost effective compound (IS1203, IC50: 2.9 μg mL-1) was a 18.4 kDa arabinoxylan possessing sulfate groups at O-3 and O-2,3 positions of xylopyranosyl (Xylp), and O-5 of arabinofuranosyl (Araf) residues.
33761173	1	26	gly	glycoproteins	227:239	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			Identification of N- and O-glycosylation on specific sites of proteins, along with glycan structural information, is necessary to determine the roles glycoproteins play in normal and pathologic cellular functions.
33761173	1	13	gly	O-glycosylation	102:116	arg1	specific sites	proteins		sites		Fterm		proteins		sites	Identification of N- and O-glycosylation on specific sites of proteins, along with glycan structural information, is necessary to determine the roles glycoproteins play in normal and pathologic cellular functions.
33761173	1	34	gly	O-glycosylation	102:116	arg1	specific sites	proteins		sites		Fterm		proteins		sites	Identification of N- and O-glycosylation on specific sites of proteins, along with glycan structural information, is necessary to determine the roles glycoproteins play in normal and pathologic cellular functions.
33761173	1	34	gly	O-glycosylation	102:116	arg1	specific sites			sites						sites	Identification of N- and O-glycosylation on specific sites of proteins, along with glycan structural information, is necessary to determine the roles glycoproteins play in normal and pathologic cellular functions.
32578950	4	2	gly	presence	831:838	arg1	the acetylated avidin AND glycans	the acetylated avidin			glycans	Fterm		avidin			On the other hand, the presence of glycans in the acetylated avidin induced about 30 % higher chronopotentiometric response compared to the acetylated neutravidin.
33319171	1	27	gly	glycosylation	116:128	arg1	the HIV-1 envelope (Env) protein	the HIV-1 envelope (Env) protein				Fterm		protein	64006		Dense surface glycosylation on the HIV-1 envelope (Env) protein acts as a shield from the adaptive immune system.
33524390	5	37	gly	sialylation	932:942	arg1	N-glycans				N-glycans						Our findings indicate that Rab11 knockdown results in a dramatic enhancement in the sialylation of N-glycans.
31829411	6	14	gly	sialylated	1485:1494	arg1	the extended sialylated α (1-3) arm			the extended sialylated α (1-3) arm							We also find that the presence of core fucose interferes with the extended sialylated α (1-3) arm, altering its conformational propensity and as a consequence of steric hindrance, significantly enhancing the Fc dynamics.
34015330	1	39	gly	glycoprotein	103:114	arg1	The glycoprotein α-dystroglycan				The glycoprotein α-dystroglycan						The glycoprotein α-dystroglycan helps to link the intracellular cytoskeleton to the extracellular matrix.
32501643	9	34	gly	sequence	1015:1022	arg1	The glycan sequence N-acetylgalactosamine				The glycan sequence N-acetylgalactosamine						The glycan sequence N-acetylgalactosamine, galactose, and sialic acid was consistently expressed on serine 94, threonine 194, and threonine 289 of APOE in L5 and was predicted to contribute to L5's negative surface charge and hydrophilicity.
32515505	12	55	gly	derived	1961:1967	arg1	pumpkin AND the polysaccharide	pumpkin			the polysaccharide	Fterm		pumpkin			In this study, we proved that the polysaccharide derived from pumpkin could effectively ameliorate the OS level in C. elegans, including decreasing the damage of biofilm and ROS level.
31907284	0	18	gly	Glycosylation	57:69	arg1	the Fc Region			the Fc Region							Choice of Host Cell Line Is Essential for the Functional Glycosylation of the Fc Region of Human IgG1 Inhibitors of Influenza B Viruses.
32485649	0	41	gly	glycopeptides	33:45	arg2	glycopeptides			glycopeptides	Glycan-specific precipitation					glycopeptides	Glycan-specific precipitation of glycopeptides in high organic content sample solvents used in HILIC.
34495537	6	43	gly	fucosylation	952:963	arg1	IgG oligosaccharides				IgG oligosaccharides						Core fucosylation of IgG oligosaccharides was also lowered in MS and SLE.
34495537	5	56	gly	IgG	885:887	arg1	fucosylation	thyroglobulin IgG			fucosylation	OGER		thyroglobulin IgG	P01266		However, fucosylation of anti-thyroglobulin IgG (an immunological marker of HT) was elevated in HT serum.
34495537	5	65	gly	fucosylation	850:861	arg1	anti-thyroglobulin IgG	anti-thyroglobulin IgG				OGER		thyroglobulin IgG	P01266		However, fucosylation of anti-thyroglobulin IgG (an immunological marker of HT) was elevated in HT serum.
33484743	8	43	gly	proteins	1254:1261	arg1	carbohydrates	proteins			carbohydrates	Fterm		proteins			It was observed that mixotrophic cultivation led to higher amounts of carbohydrates, lipids and proteins than heterotrophic cultivation respectively, regardless of batch or fed-batch culture.
32126781	5	8	gly	glycopeptide	729:740	arg2	glycopeptide analysis			glycopeptide analysis						glycopeptide	For glycopeptide analysis, CID is best known for the ability to determine glycosidic topology of the oligosaccharide group; however, CID has also been shown to produce amide bond cleavage of the polypeptide group.
34822830	8	37	gly	α-glucosidase	1555:1567	arg1	polysaccharides	-glucosidase			polysaccharides	PUBTATOR		-glucosidase	6476		Therefore, polysaccharides extracted by water and alkaline solvents from Evodiae fructus could be developed as promising natural antioxidants and α-glucosidase inhibitors in the food and medicine industries.
31915280	13	32	gly	glycoprotein	2485:2496	arg1	viral structural glycoprotein folding/stability	viral structural glycoprotein folding/stability				Fterm		glycoprotein			We established that DPMS complex plays dual roles during viral infection, both regulating viral RNA replication and promoting viral structural glycoprotein folding/stability.
32059888	0	28	gly	spp	88:90	arg1	polysaccharides	spp			polysaccharides	OGER		spp	Q8TCT9		Characterisation and saccharide mapping of polysaccharides from four common Polygonatum spp.
32059888	0	28	gly	spp	88:90	arg1	saccharide mapping	spp			saccharide mapping	OGER		spp	Q8TCT9		Characterisation and saccharide mapping of polysaccharides from four common Polygonatum spp.
32059888	0	49	gly	mapping	32:38	arg1	four common Polygonatum spp	spp			mapping	OGER		spp	Q8TCT9		Characterisation and saccharide mapping of polysaccharides from four common Polygonatum spp.
32149324	8	11	gly	sialylated	1301:1310	arg1	sialylated glycans				sialylated glycans						Two notable and opposing regulation events were detected for sialylated glycans.
32102878	4	55	gly	glycoproteins	615:627	arg1	the envelope glycoproteins	the envelope glycoproteins				Fterm		glycoproteins			We found that whole semen significantly reduces the potency of antibodies and microbicides that target glycans on the envelope glycoproteins (Envs) of HIV-1.
32102878	4	73	gly	glycans	591:597	arg1	the envelope glycoproteins	glycoproteins			glycans	Fterm		glycoproteins			We found that whole semen significantly reduces the potency of antibodies and microbicides that target glycans on the envelope glycoproteins (Envs) of HIV-1.
32102970	1	31	gly	glycopeptides	173:185	arg2	N-linked intact glycopeptides			N-linked intact glycopeptides						glycopeptides	Large-scale identification of N-linked intact glycopeptides by liquid chromatography coupled with tandem mass spectrometry (LC-MS/MS) in human serum is challenging because of the wide dynamic range of serum protein abundances, the lack of a complete serum N-glycan database and the existence of proteoforms.
33871988	3	39	gly	O-glycopeptides	394:408	arg2	intact O-glycopeptides			intact O-glycopeptides						O-glycopeptides	In particular, analysis of intact O-glycopeptides by mass spectrometry is challenging for several reasons; O-glycosylation lacks a consensus motif, glycopeptides have low charge density which impairs ETD fragmentation, and the glycan structures modifying the peptides are unpredictable.
33871988	3	48	gly	glycopeptides	508:520	arg2	glycopeptides			glycopeptides						motif, glycopeptides	In particular, analysis of intact O-glycopeptides by mass spectrometry is challenging for several reasons; O-glycosylation lacks a consensus motif, glycopeptides have low charge density which impairs ETD fragmentation, and the glycan structures modifying the peptides are unpredictable.
34285147	0	48	gly	N-glycosylation	0:14	arg1	immunoglobulin G	immunoglobulin G				Cterm		immunoglobulin G			N-glycosylation of immunoglobulin G predicts incident hypertension.
33245474	8	68	gly	N-glycans	1181:1189	arg1	its main receptor ACE2	ACE2			N-glycans	PUBTATOR		ACE2	59272		In our overexpression system, miglustat successfully and specifically modified N-glycans in both SARS-CoV-2 S and its main receptor ACE2.
33245474	8	68	gly	N-glycans	1181:1189	arg1	SARS-CoV-2 S	S			N-glycans	PUBTATOR		S	43740568		In our overexpression system, miglustat successfully and specifically modified N-glycans in both SARS-CoV-2 S and its main receptor ACE2.
35662980	0	99	gly	Fucosylation	19:30	arg1	N-glycans				N-glycans						FUT8-Directed Core Fucosylation of N-glycans Is Regulated by the Glycan Structure and Protein Environment.
33064451	2	80	gly	glycosylated	389:400	arg1	The spike protein	The spike protein				PUBTATOR		spike protein	43740568		The spike protein expressed on the surface of this virus is highly glycosylated and plays an essential role during the process of infection.
32172840	3	28	gly	COP-W1	406:411	arg1	mannose	COP			mannose	OGER		COP			The monosaccharide composition of COP-W1 was mannose, rhamnose, glucose, and galactose, and its molar ratio was 20.32:1:1.27:36.13.
32172840	3	28	gly	COP-W1	406:411	arg1	The monosaccharide composition	COP			The monosaccharide composition	OGER		COP			The monosaccharide composition of COP-W1 was mannose, rhamnose, glucose, and galactose, and its molar ratio was 20.32:1:1.27:36.13.
34288669	4	4	gly	glycoforms	693:702	arg1	recombinant hCG	recombinant hCG				PUBTATOR		hCG	1511		In order to unravel the multitude of glycoforms of recombinant hCG (drug product Ovitrelle), we combine established techniques, such as released glycan and glycopeptide analysis, with novel approaches employing high-performance liquid chromatography-mass spectrometry (HPLC-MS) to characterize protein subunits and native MS to analyze the noncovalent hCG complex.
34288669	4	26	gly	glycopeptide	812:823	arg2	glycopeptide analysis			glycopeptide analysis						glycopeptide	In order to unravel the multitude of glycoforms of recombinant hCG (drug product Ovitrelle), we combine established techniques, such as released glycan and glycopeptide analysis, with novel approaches employing high-performance liquid chromatography-mass spectrometry (HPLC-MS) to characterize protein subunits and native MS to analyze the noncovalent hCG complex.
31967297	3	54	gly	N162	462:465	arg1	N-glycan structures			N162	N-glycan structures					N162	N-glycan structures at N162 showed significant donor-dependent variation in a recent study of CD16a isolated from primary human NK cells, but structures at N45 were relatively homogeneous.
34921890	3	66	gly	glycoprotein	590:601	arg1	water-soluble glycoprotein fractions	water-soluble glycoprotein fractions				Fterm		glycoprotein			It was found that water-soluble glycoprotein fractions caused the most significant, 70-100% inhibition of metabolic activity of SPЕV-2, А549 and С6 cell lines.
34369795	2	7	gly	glycoprotein	348:359	arg1	spike (S) glycoprotein	spike (S) glycoprotein				Fterm		glycoprotein			Owing to its crucial role in the invasion of the host cell, spike (S) glycoprotein is one of the major targets in these studies.
34669426	3	66	gly	trimers	679:685	arg1	the otherwise dense glycan shields	trimers			the otherwise dense glycan shields	Fterm		trimers			Here, we sought to gain a deeper understanding of the autologous neutralization by introducing holes in the otherwise dense glycan shields of the AMC011 and AMC016 SOSIP trimers.
34876606	8	14	gly	glycosylation	1301:1313	arg2	All the glycosylation sites			All the glycosylation sites						sites	All the glycosylation sites with altered patterns were in the spike head while the glycosylation of three sites in the stalk remained unchanged between S-614G and S-614D proteins.
34876606	8	67	gly	glycosylation	1376:1388	arg1	three sites			three sites						sites	All the glycosylation sites with altered patterns were in the spike head while the glycosylation of three sites in the stalk remained unchanged between S-614G and S-614D proteins.
32636234	1	35	gly	glycopeptide	132:143	arg2	accurate intact glycopeptide identification			accurate intact glycopeptide identification						glycopeptide	A key point in achieving accurate intact glycopeptide identification is the definition of the glycan composition file that is used to match experimental with theoretical masses by a glycoproteomics search engine.
34067878	11	25	gly	glycans	1594:1600	arg1	ACE2	ACE2			glycans	PUBTATOR		ACE2	Q9BYF1		Finally, an energetics analysis shows that MAN9 glycans on ACE2 decrease RBD-ACE2 affinity, while FA2 glycans lead to enhanced binding of the complex.
34350945	2	98	gly	glycoproteins	435:447	arg1	surface glycoproteins	surface glycoproteins				Fterm		glycoproteins			Here we report that cell lines derived from low-grade and high-grade bladder cancers exhibit major differences in expression of glycans in surface glycoproteins.
32155332	3	21	gly	glycosylated	535:546	arg1	glycosylated TTX motifs			glycosylated TTX motifs						motifs	NMR analysis of synthetic mucin models having glycosylated TTX motifs and colonic MUC2 tandem repeats (TRs) containing TTP and TTL moieties unveils a general principle that O-glycosylation at TTX motifs generates a highly extended and rigid conformation in IDPs.
32155332	3	73	gly	O-glycosylation	662:676	arg2	TTX motifs			motifs						motifs	NMR analysis of synthetic mucin models having glycosylated TTX motifs and colonic MUC2 tandem repeats (TRs) containing TTP and TTL moieties unveils a general principle that O-glycosylation at TTX motifs generates a highly extended and rigid conformation in IDPs.
34329132	3	81	part_of	NPs	399:401	arg1	efficient metal NPs composites	NPs		efficient metal NPs composites		OGER	Site	NPs	P0C0P6	composites	Even though lots of methods have investigated to prepare efficient metal NPs composites, the nano and/or micro size of composites makes it hard to recover after wastewater treatment, limiting its practical use.
32049016	3	28	gly	contain	448:454	arg1	Env gp120 AND O-linked carbohydrate	Env gp120		domain	O-linked carbohydrate	PUBTATOR		Env gp120	100616444	domain	Here we show that a subset of patient-derived HIV-1 isolates contain O-linked carbohydrate on the variable 1 (V1) domain of Env gp120.
34543117	7	18	gly	pigs	1624:1627	arg1	sialic acid-containing structures	pigs			sialic acid-containing structures	OGER		pigs	Q96S52		Thus, we demonstrate through hierarchical cluster analysis and orthogonal projections to latent structures discriminant analysis (OPLS-DA) models of the relative abundances of sialic acid-containing glycans that sialic acid-containing structures in the mucin O-glycome are good predictors of B. hyodysenteriae strain 8dII infection in pigs.
33231436	7	17	gly	glycoform	1246:1254	arg1	the EPO glycoform	the EPO glycoform				PUBTATOR		EPO	13856		The molecular weight of the newly added antennary element was ∼3% of the EPO glycoform, and the introduced position was the most distant from the bioactive protein.
33712130	3	33	gly	β-1,4-glycosylation	553:571	arg1	1-thio-β-d-glucose				1-thio-β-d-glucose						Here, we show bottom-up synthesis of reducing end thiol-modified cellulose chains by iterative bi-enzymatic β-1,4-glycosylation of 1-thio-β-d-glucose (10 mM), to a degree of polymerization of ∼8 and in a yield of ∼41% on the donor substrate (α-d-glucose 1-phosphate, 100 mM).
32902264	4	15	gly	glycoproteins	762:774	arg1	mice glycoproteins	mice glycoproteins				Fterm		glycoproteins			Here, we describe a method to identify α-galactosyl N-glycopeptides in mice glycoproteins using liquid chromatography with tandem mass spectrometry with higher-energy collisional dissociation (HCD).
32902264	4	59	gly	N-glycopeptides	738:752	arg2	α-galactosyl N-glycopeptides			α-galactosyl N-glycopeptides						N-glycopeptides	Here, we describe a method to identify α-galactosyl N-glycopeptides in mice glycoproteins using liquid chromatography with tandem mass spectrometry with higher-energy collisional dissociation (HCD).
33300874	2	52	gly	attached	393:400	arg1	respective proteins AND N-glycans	respective proteins			N-glycans	Fterm		proteins			However, it is not known whether only the presence or also the composition of N-glycans attached to respective proteins is important for these processes.
34806714	8	8	gly	glycopeptides	1479:1491	arg2	glycopeptides			glycopeptides						glycopeptides	Using this approach, glycopeptides within samples can rapidly be identified to understand glycosylation differences.
33954318	3	15	gly	fucosylated	357:367	arg1	Especially fucosylated hMOs	Especially fucosylated hMOs				PUBTATOR		hMOs	4342		Especially fucosylated hMOs have received attention for their anti-adhesive effects on pathogens, preventing attachment to the intestine and infection.
31829411	5	52	gly	galactose	1177:1185	arg1	the α (1-6) arm			the α (1-6) arm	the α (1-6) arm						At room temperature, the terminal galactose on the α (1-6) arm is restrained to the protein through a network of interactions that keep the arm outstretched; meanwhile, the α (1-3) arm extends toward the solvent where a terminal sialic acid remains fully accessible.
32088200	10	15	gly	glycoprotein	1499:1510	arg1	glycoprotein polysialylation				glycoprotein polysialylation						This method is an efficient analytical workflow for the study of glycoprotein polysialylation in biological and therapeutic settings.
32940477	2	21	gly	glycosylated	342:353	arg1	a core "hyper-branched" fucose residue			a core "hyper-branched" fucose residue						residue in	These species feature a core "hyper-branched" fucose residue in which every hydroxyl group is glycosylated.
33871988	8	10	gly	glycopeptide	1331:1342	arg2	glycopeptide profiling			glycopeptide profiling						glycopeptide	Our data indicate that chemical methods for glycopeptide profiling offer opportunities to optimize attributes such as increased charge state, higher charge density, and predictable fragmentation behavior.
32306337	1	5	gly	glycoproteins	221:233	arg1	secretory or membrane glycoproteins	secretory or membrane glycoproteins				Fterm		glycoproteins			Calnexin (CNX) and calreticulin (CRT) are ER-resident lectin-like molecular chaperones involved in the quality control of secretory or membrane glycoproteins.
32149324	11	16	gly	N-glycoproteins	1788:1802	arg1	1023 N-glycoproteins	1023 N-glycoproteins				Fterm		N-glycoproteins			We also used HPLC coupled with tandem mass spectrometry to identify 611 N-glycosylation sites on 350 N-glycoproteins at the early stage developmental stage 1 (fertilized egg), and 1682 N-glycosylation sites on 1023 N-glycoproteins at stage 41 (late tailbud stage).
32149324	11	21	gly	N-glycosylation	1758:1772	arg2	1682 N-glycosylation sites			1682 N-glycosylation sites						sites	We also used HPLC coupled with tandem mass spectrometry to identify 611 N-glycosylation sites on 350 N-glycoproteins at the early stage developmental stage 1 (fertilized egg), and 1682 N-glycosylation sites on 1023 N-glycoproteins at stage 41 (late tailbud stage).
32149324	11	23	gly	N-glycoproteins	1674:1688	arg1	350 N-glycoproteins	350 N-glycoproteins				Fterm		N-glycoproteins			We also used HPLC coupled with tandem mass spectrometry to identify 611 N-glycosylation sites on 350 N-glycoproteins at the early stage developmental stage 1 (fertilized egg), and 1682 N-glycosylation sites on 1023 N-glycoproteins at stage 41 (late tailbud stage).
32149324	11	45	gly	N-glycosylation	1645:1659	arg2	611 N-glycosylation sites			611 N-glycosylation sites						sites	We also used HPLC coupled with tandem mass spectrometry to identify 611 N-glycosylation sites on 350 N-glycoproteins at the early stage developmental stage 1 (fertilized egg), and 1682 N-glycosylation sites on 1023 N-glycoproteins at stage 41 (late tailbud stage).
34056088	2	47	gly	glycoprotein	329:340	arg1	the viral trimeric spike glycoprotein	the viral trimeric spike glycoprotein				PUBTATOR		spike glycoprotein	43740568		Vaccine development efforts focus on the viral trimeric spike glycoprotein as the main target of the humoral immune response.
34085260	4	44	gly	glycoproteins	955:967	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			The procedures described here will focus on the HEK293S GnTI- cell line, an HEK293S derivative that is widely used for the production of glycoproteins modified homogeneously with truncated N-glycans.
33644825	10	78	gly	mannosylated	1563:1574	arg1	hybrid type N-glycans				hybrid type N-glycans						This preliminary work aims at considering serum N-glycan accumulation of high mannosylated glycoforms, such as oligomannose and hybrid type N-glycans, as potential diagnostic signals for ALG2-CDG patients.
32169901	5	45	gly	glycosylation	1409:1421	arg1	PSP	PSP				OGER		PSP	O60542		We also identified a potential flippase encoded in the L. lactis genome (llnz_02975, cflA) and confirmed that it participates in the glycosylation of the three cell wall glycopolymers rhamnan, PSP, and LTA, thus indicating that its function is shared by the three TGSs.
32169901	5	45	gly	glycosylation	1409:1421	arg1	LTA	LTA				OGER		LTA	P01374		We also identified a potential flippase encoded in the L. lactis genome (llnz_02975, cflA) and confirmed that it participates in the glycosylation of the three cell wall glycopolymers rhamnan, PSP, and LTA, thus indicating that its function is shared by the three TGSs.
34122956	6	40	part_of	proteins	1799:1806	arg1	intrinsically disordered regions	proteins		intrinsically disordered regions		Fterm	Site	proteins		regions	We demonstrate that this method accelerates dramatically the development of a new class of designated antibodies targeting a variety of "dynamic neoepitopes" elaborated by disease-specific O-glycosylation in the immunodominant mucin domains and mucin-like sequences found in intrinsically disordered regions of many proteins.
34440649	3	81	gly	AGPs	627:630	arg1	the carbohydrate chains	AGPs			the carbohydrate chains	OGER		AGPs	O00116		In this paper, the microscopic and immunocytochemical studies conducted using specific antibodies (JIM13, JIM15, MAC207) recognizing the carbohydrate chains of AGPs showed significant changes in the AGP distribution in female and male reproductive structures during the first stages of Bellis perennis development.
33979146	1	4	gly	glycosylated	110:121	arg1	The homogeneously glycosylated 76-amino acid adiponectin collagenous domains			The homogeneously glycosylated 76-amino acid adiponectin collagenous domains						domains	The homogeneously glycosylated 76-amino acid adiponectin collagenous domains (ACDs) with all of the possible 15 glycoforms have been chemically and individually synthesized using stereoselective glycan synthesis and chemical peptide ligation.
34582712	6	7	part_of	laminin-binding	1024:1038	arg1	the so-called 'M3 core' laminin-binding epitope	laminin		the so-called 'M3 core' laminin-binding epitope		OGER	Site	laminin		epitope	A first phylogenetic history of the thirteen enzymes involved in the fabrication of the so-called 'M3 core' laminin-binding epitope has been traced by an overall sequence comparison approach, and interesting details on the primordial enzyme set have emerged, as well as substantial conservation in Metazoa.
33836197	7	79	part_of	ALP-1	1244:1248	arg1	metronidazole [MET	ALP		metronidazole [MET		PUBTATOR	AminoAcid	ALP	Q7L266	MET	All five polysaccharides displayed high antioxidant ability, especially ALP-4 in H2O2-induced HepG2 cell model and ALP-1 in metronidazole [MET]-induced zebrafish model.
34285147	1	69	gly	Glycosylation	79:91	arg1	IgG	IgG				PUBTATOR		IgG	668542		OBJECTIVES Glycosylation of immunoglobulin G (IgG) is an important regulator of the immune system and has been implicated in prevalent hypertension.
34285147	1	69	gly	Glycosylation	79:91	arg1	immunoglobulin G	immunoglobulin G				Cterm		immunoglobulin G			OBJECTIVES Glycosylation of immunoglobulin G (IgG) is an important regulator of the immune system and has been implicated in prevalent hypertension.
34069622	5	46	part_of	CS/SEC	1123:1128	arg1	the CS/SEC composite	CS		the CS/SEC composite		PUBTATOR	Site	CS	1431	composite	According to the dynamic mechanical analysis, the CS/SEC composite was characterized by a single glass transition temperature, indicating a strong interaction between the layers when using SEC (a strong acid salt) as the counterion to CS.
33876698	10	19	gly	N-glycosylated	1466:1479	arg1	PPT1	PPT1				PUBTATOR		PPT1	5538		N-glycosylated forms of PPT1 were elaborated.
32623356	5	89	gly	N-glycosylated	659:672	arg2	three asparagine residues	HMGB1		asparagine residues		PUBTATOR		HMGB1	3146	asparagine residues	In cells, HMGB1 is N-glycosylated at three asparagine residues located in boxes A and B, and these N-glycans are essential for the nucleocytoplasmic transport of the protein.
33141553	5	16	gly	glycoprotein	916:927	arg1	clusterin	clusterin				PUBTATOR		clusterin	1191		We believe that clusterin (CLU, UniProtKB P10909), a plasma circulating glycoprotein, plays a role in the pathobiology of ATTRwt amyloidosis.
33141553	5	16	gly	glycoprotein	916:927	arg1	a plasma circulating glycoprotein	a plasma circulating glycoprotein				Fterm		glycoprotein			We believe that clusterin (CLU, UniProtKB P10909), a plasma circulating glycoprotein, plays a role in the pathobiology of ATTRwt amyloidosis.
32737362	7	5	gly	glycoproteins	865:877	arg1	several candidate glycoproteins	several candidate glycoproteins				Fterm		glycoproteins			SDS-PAGE coupled to LC-MS analysis of sand fly saliva, before and after enzymatic deglycosylation, revealed several candidate glycoproteins.
33909026	2	34	gly	O-glycosylation	520:534	arg1	ER	ER				PUBTATOR		ER	2069		Among them, unlike other ppGalNAc-Ts located in Golgi apparatus, ppGalNAc-T18 distributes primarily in the endoplasmic reticulum (ER) and non-catalytically regulates ER homeostasis and O-glycosylation.
32938911	5	39	part_of	esterase	905:912	arg1	the esterase domain	esterase		the esterase domain		Fterm	Site	esterase		domain	Comparison with existing HE structures reveals a drastically truncated lectin domain, incompatible with sialic acid binding, but with the structure and function of the esterase domain left intact.
32513872	3	39	gly	glycosylation	714:726	arg1	Asn-196			Asn-196						Asn-196	We observed that whereas PrPC is predisposed to full glycosylation and is therefore refractory to PRC7 detection, prion infection leads to diminished PrPSc glycosylation at Asn-196, resulting in an unshielded PRC7 epitope that is amenable to mAb recognition upon renaturation.
34078541	2	7	part_of	FAs	378:380	arg1	The FAs composition	FAs		The FAs composition		OGER	Site	FAs	P49327	position	The FAs composition i.e. saturated FAs, monounsaturated FAs, polyunsaturated FAs and trans FAs during processing and storage showed non-significant difference in all goshtaba products (P > 0.05).
34101384	7	90	gly	glycoproteins	1274:1286	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			The data obtained using these protocols show that NanoMonitor is capable of distinguishing between glycoform variants of the glycoprotein fetuin and glycoproteins derived from cultured human pancreatic cancer cells with high sensitivity (orders of magnitude higher than lectin-based ELISA) and selectivity.
34101384	7	98	gly	glycoprotein	1250:1261	arg1	the glycoprotein fetuin and glycoproteins derived from cultured human pancreatic cancer cells with high sensitivity (orders of magnitude higher than lectin-based ELISA) and selectivity	the glycoprotein fetuin and glycoproteins derived from cultured human pancreatic cancer cells with high sensitivity (orders of magnitude higher than lectin-based ELISA) and selectivity				Fterm		glycoprotein			The data obtained using these protocols show that NanoMonitor is capable of distinguishing between glycoform variants of the glycoprotein fetuin and glycoproteins derived from cultured human pancreatic cancer cells with high sensitivity (orders of magnitude higher than lectin-based ELISA) and selectivity.
33688648	6	10	gly	O-glycoproteins	1554:1568	arg1	other O-glycoproteins	other O-glycoproteins				Fterm		O-glycoproteins			This proteoform-resolved approach can be applied to reveal the structural O-glycoform heterogeneity of emergent SARS-CoV-2 S-RBD variants, as well as other O-glycoproteins in general.
33688648	6	31	gly	heterogeneity	1484:1496	arg1	emergent SARS-CoV-2 S-RBD variants	emergent SARS-CoV-2 S-RBD variants				Fterm		variants			This proteoform-resolved approach can be applied to reveal the structural O-glycoform heterogeneity of emergent SARS-CoV-2 S-RBD variants, as well as other O-glycoproteins in general.
33688648	6	31	gly	heterogeneity	1484:1496	arg1	other O-glycoproteins	other O-glycoproteins				Fterm		O-glycoproteins			This proteoform-resolved approach can be applied to reveal the structural O-glycoform heterogeneity of emergent SARS-CoV-2 S-RBD variants, as well as other O-glycoproteins in general.
34463203	4	39	part_of	CNC	741:743	arg1	Chitosan/Polyvinyl alcohol (PVA)/β-Tricalcium Phosphate (β-TCP)/Cellulose nanocrystals (CNC) porous composite	CNC		Chitosan/Polyvinyl alcohol (PVA)/β-Tricalcium Phosphate (β-TCP)/Cellulose nanocrystals (CNC) porous composite		OGER	Site	CNC	P32418	composite	The present study involves fabrication of Chitosan/Polyvinyl alcohol (PVA)/β-Tricalcium Phosphate (β-TCP)/Cellulose nanocrystals (CNC) porous composite by freeze drying process to be used as bone tissue engineering matrix.
34044019	4	29	gly	afucosylation	618:630	arg1	the Fc region				the Fc region						Crystal structure analysis has led to the hypothesis that afucosylation in the Fc region results in reduced steric hindrance between antibody-receptor intermolecular glycan interactions, enhancing receptor affinity; however, solution-phase data have yet to corroborate this hypothesis.
33076454	6	66	gly	glycopeptides	951:963	arg2	glycopeptides			glycopeptides						glycopeptides	Furthermore, protein-specific glycan profiles were quantified for transferrin and IgG Fc using electrospray ionization MS of intact proteins and glycopeptides, respectively.
33979146	4	18	gly	glycopeptides	768:780	arg2	synthetic glycopeptides			synthetic glycopeptides						glycopeptides	Our studies demonstrated the possibility of using synthetic glycopeptides as the adiponectin downsized mimetic for the development of novel therapeutics to treat diseases associated with deficient adiponectin.
33876698	9	53	part_of	PPT1	1460:1463	arg1	site Met112	PPT1		site Met112		PUBTATOR	AminoAcid	PPT1	5538	Met112	According to the calculated empirical energies of interaction (ΔE), the dimer DC661 forms the most stable complex at site Met112 of palmitate-bound PPT1.
32678978	4	45	gly	glycosylated	1024:1035	arg1	its docking site	S-protein		site		PUBTATOR		S-protein	7448	site	Both SARS-CoV-2 spike protein (S-protein), a critical element of the viral entry to the host cell, and ACE2, its docking site on the host cell surface, are extensively glycosylated, making them challenging targets for native MS. However, supplementing native MS with a gas-phase ion manipulation technique (limited charge reduction) allows meaningful information to be obtained on the noncovalent complexes formed by ACE2 and the receptor-binding domain (RBD) of the S-protein.
32678978	4	45	gly	glycosylated	1024:1035	arg1	its docking site	ACE2		site		PUBTATOR		ACE2	59272	site	Both SARS-CoV-2 spike protein (S-protein), a critical element of the viral entry to the host cell, and ACE2, its docking site on the host cell surface, are extensively glycosylated, making them challenging targets for native MS. However, supplementing native MS with a gas-phase ion manipulation technique (limited charge reduction) allows meaningful information to be obtained on the noncovalent complexes formed by ACE2 and the receptor-binding domain (RBD) of the S-protein.
32678978	4	45	gly	glycosylated	1024:1035	arg1	its docking site	spike protein		site		PUBTATOR		spike protein	43740568	site	Both SARS-CoV-2 spike protein (S-protein), a critical element of the viral entry to the host cell, and ACE2, its docking site on the host cell surface, are extensively glycosylated, making them challenging targets for native MS. However, supplementing native MS with a gas-phase ion manipulation technique (limited charge reduction) allows meaningful information to be obtained on the noncovalent complexes formed by ACE2 and the receptor-binding domain (RBD) of the S-protein.
32577644	6	25	gly	sites	970:974	arg1	N-glycans			sites	N-glycans					sites	We reveal an essential structural role of N-glycans at sites N165 and N234 in modulating the conformational dynamics of the spike's receptor binding domain (RBD), which is responsible for ACE2 recognition.
34094206	2	1	gly	peptide	511:517	arg1	the recognition both the glycan and peptide moieties				the recognition both the glycan and peptide moieties						Although natural receptors such as lectins and antibodies have served as powerful tools for the detection of protein-bound glycans, the development of effective receptors able to integrate in the recognition both the glycan and peptide moieties is still challenging.
33262351	5	81	gly	glycopeptide	806:817	arg2	intact glycopeptide signatures			intact glycopeptide signatures						glycopeptide	Further survival analysis reveals that intact glycopeptide signatures of mesenchymal subtype are associated with a poor clinical outcome of HGSC.
33284290	0	40	part_of	nanocellulose-lactoferrin-collagen	52:85	arg1	a bacterial nanocellulose-lactoferrin-collagen composite	lactoferrin		a bacterial nanocellulose-lactoferrin-collagen composite		PUBTATOR	Site	lactoferrin	P02788	composite	Homogeneous and efficient production of a bacterial nanocellulose-lactoferrin-collagen composite under an electric field as a matrix to promote wound healing.
32126781	11	18	gly	O-glycopeptide	1786:1799	arg2	O-glycopeptide ER-CID			O-glycopeptide ER-CID						O-glycopeptide	Establishing a more complete understanding of O-glycopeptide ER-CID is likely to have a substantive impact on how O-glycoproteomic analysis is approached in the future.
35662980	10	67	gly	N-glycosites	1851:1862	arg2	two out of three N-glycosites			two out of three N-glycosites						N-glycosites	Interestingly, however, for erythropoietin that is uncommon among the tested glycoproteins in efficiently acquiring tetra-antennary N-glycans, two out of three N-glycosites obtained Fuc on the high-mannose N-glycans.
35662980	10	96	gly	glycoproteins	1768:1780	arg1	the tested glycoproteins	the tested glycoproteins				Fterm		glycoproteins			Interestingly, however, for erythropoietin that is uncommon among the tested glycoproteins in efficiently acquiring tetra-antennary N-glycans, two out of three N-glycosites obtained Fuc on the high-mannose N-glycans.
34051740	1	30	gly	attached	287:294	arg1	hydroxyproline residues AND type II arabinogalactan (AG) polysaccharides			hydroxyproline residues	type II arabinogalactan (AG) polysaccharides					residues in	BACKGROUND Arabinogalactan-proteins (AGPs) are heavily glycosylated with type II arabinogalactan (AG) polysaccharides attached to hydroxyproline residues in their protein backbone.
34051740	1	68	gly	glycosylated	224:235	arg1	BACKGROUND Arabinogalactan-proteins	BACKGROUND Arabinogalactan-proteins				Fterm		Arabinogalactan-proteins			BACKGROUND Arabinogalactan-proteins (AGPs) are heavily glycosylated with type II arabinogalactan (AG) polysaccharides attached to hydroxyproline residues in their protein backbone.
34051740	1	68	gly	glycosylated	224:235	arg1	AGPs	AGPs				OGER		AGPs	O00116		BACKGROUND Arabinogalactan-proteins (AGPs) are heavily glycosylated with type II arabinogalactan (AG) polysaccharides attached to hydroxyproline residues in their protein backbone.
33080533	9	45	gly	fucosylated	1553:1563	arg1	the fucosylated glycan				the fucosylated glycan						The intensities of the diagnostic ions of synthetic isomers were used to identify each isomer of the fucosylated glycan.
34494876	16	59	gly	ACE2	2549:2552	arg1	glycan structure	ACE2			glycan structure	PUBTATOR		ACE2	Q9BYF1		These findings offer insight into the glycan structure and function of ACE2 and potentially suggest that future antiviral therapies against coronaviruses and other coronavirus-related illnesses involving inhibition of ACE2 recruitment to the cell membrane could be developed.
32576591	8	36	gly	glycopeptides	1089:1101	arg2	O-linked glycopeptides			O-linked glycopeptides						glycopeptides	fetus as well as O-linked glycopeptides of Acinetobacter baumannii and Burkholderia cenocepacia revealing glycopeptides modified with a range of glycans can be readily identified without defining the glycan masses before database searching.
32576591	8	72	gly	glycopeptides	1169:1181	arg2	glycopeptides			glycopeptides						glycopeptides	fetus as well as O-linked glycopeptides of Acinetobacter baumannii and Burkholderia cenocepacia revealing glycopeptides modified with a range of glycans can be readily identified without defining the glycan masses before database searching.
32904601	5	29	part_of	sites	944:948	arg1	both proteins	proteins		sites		Fterm	Site	proteins		sites	Additional post-translational modification (PTM) was identified, including multiple methylated sites in both proteins and multiple sites with hydroxylproline in hACE2.
32904601	5	66	part_of	sites	908:912	arg1	both proteins	proteins		sites		Fterm	Site	proteins		sites	Additional post-translational modification (PTM) was identified, including multiple methylated sites in both proteins and multiple sites with hydroxylproline in hACE2.
32928962	1	46	gly	glycoprotein	129:140	arg1	The synovial fluid glycoprotein lubricin	The synovial fluid glycoprotein lubricin				Fterm		glycoprotein			The synovial fluid glycoprotein lubricin (also known as proteoglycan 4) is a mucin-type O-linked glycosylated biological lubricant implicated to be involved in osteoarthritis (OA) development.
33937925	3	11	gly	glycosylation	580:592	arg2	potential glycosylation sites			potential glycosylation sites						sites	In this study, we compared glycosylation patterns, including the occupancy of potential glycosylation sites and the distribution of different glycans, on the HAs of three strains of influenza viruses for the production a trivalent seasonal flu vaccine for the 2015-2016 Northern Hemisphere season (i.e., A/California/7/2009 (H1N1) X179A, A/Switzerland/9715293/2013 (H3N2) NIB-88, and B/Brisbane/60/2008 NYMC BX-35###).
33937925	3	75	gly	occupancy	557:565	arg2	potential glycosylation sites			potential glycosylation sites						sites	In this study, we compared glycosylation patterns, including the occupancy of potential glycosylation sites and the distribution of different glycans, on the HAs of three strains of influenza viruses for the production a trivalent seasonal flu vaccine for the 2015-2016 Northern Hemisphere season (i.e., A/California/7/2009 (H1N1) X179A, A/Switzerland/9715293/2013 (H3N2) NIB-88, and B/Brisbane/60/2008 NYMC BX-35###).
34056088	5	29	part_of	tPA	850:852	arg1	tPA signal sequence	tPA		tPA signal sequence		PUBTATOR	Site	tPA	P00750	sequence	Here, we show how site-specific glycosylation differs between virus-derived spikes, wild-type, non-stabilized spikes expressed from a plasmid with a CMV promoter and tPA signal sequence, and commonly used recombinant, engineered spike glycoproteins.
33734311	7	8	gly	core-fucosylated	1192:1207	arg1	Such core-fucosylated paucimannosylation				Such core-fucosylated paucimannosylation						Such core-fucosylated paucimannosylation is a prominent feature of lysosomal proteins of human neutrophils and several types of cancers.
33734311	7	23	gly	proteins	1264:1271	arg1	Such core-fucosylated paucimannosylation	proteins			Such core-fucosylated paucimannosylation	Fterm		proteins			Such core-fucosylated paucimannosylation is a prominent feature of lysosomal proteins of human neutrophils and several types of cancers.
34687018	4	6	gly	glycosylation	764:776	arg1	antigen-specific IgG	antigen-specific IgG				Cterm		IgG			In contrast to the glycopattern of bulk serum IgG, which likely relates to the systemic inflammatory background, the glycosylation profile of antigen-specific IgG probably plays a direct role in disease pathology in several infectious and allo- and autoimmune antibody-dependent diseases.
35007000	5	14	part_of	CCNF/CB/PCL	848:858	arg1	The CCNF/CB/PCL composite	CCNF		The CCNF/CB/PCL composite		OGER	Site	CCNF	P41002	composite	The CCNF/CB/PCL composite exhibited superior electrical conductivity ascribed to electrons transporting more efficiently among CB aggregates.
32102878	5	28	gly	residues	839:846	arg1	Env	Env			residues	PUBTATOR		Env	30816		The extraordinarily high concentration of the monosaccharide fructose in semen contributes significantly to the effect by competitively inhibiting the binding of ligands to α1,2-linked mannose residues on Env.
33065988	4	9	part_of	glycoproteins	769:781	arg1	complex N-glycopeptides	glycoproteins		complex N-glycopeptides		Fterm	Site	glycoproteins		N-glycopeptides	Three different HILIC stationary phases, i.e., HALO® penta-HILIC, Glycan ethylene bridged hybrid (BEH) Amide, and ZIC-HILIC, were compared in the separation of complex N-glycopeptides of hemopexin and Immunoglobulin G glycoproteins.
34083726	3	56	gly	glycoprotein	639:650	arg1	glycoprotein microarray analyses	glycoprotein microarray analyses				Fterm		glycoprotein			O6 was engineered as a recombinant murine IgG chimera and its specificity and affinity to the 3-O-SGal epitope was defined using a variety of approaches, including glycan and glycoprotein microarray analyses, isothermal calorimetry, ligand-bound crystal structure, FACS, and immunohistochemistry of human tissue macroarrays.
33750987	3	49	gly	glycosylated	523:534	arg1	the HIV-1 envelope protein	the HIV-1 envelope protein				Fterm		protein			Anti-glycan antibodies, such as 2G12, target the HIV-1 envelope protein (Env), which is even more extensively glycosylated and contains under-processed oligomannose-type clusters on its dense glycan shield.
32335047	7	17	part_of	α-amylase	1087:1095	arg1	different amino acid residues	α-amylase		different amino acid residues		Fterm	Site	α-amylase		residues	Molecular docking analysis revealed that the various behaviors of TPSN to α-amylase could be attributed to that the different chain segments of TPSN combined with different amino acid residues of α-amylase.
34876606	5	19	part_of	N-glycosylation	936:950	arg1	the N-glycosylation sequons	N		the N-glycosylation sequons		PUBTATOR		N	43740575		The data showed that half of the N-glycosylation sequons changed their distribution of glycans in the S-614G variant.
32280962	1	35	gly	glycoprotein	140:151	arg1	Pregnancy-specific beta 1 glycoprotein	Pregnancy-specific beta 1 glycoprotein				PUBTATOR		Pregnancy-specific beta 1 glycoprotein	653492		Pregnancy-specific beta 1 glycoprotein (PSG1) is secreted from trophoblast cells of the human placenta in increasing concentrations as pregnancy progresses, becoming one of the most abundant proteins in maternal serum in the third trimester.
32280962	1	35	gly	glycoprotein	140:151	arg1	PSG1	PSG1				PUBTATOR		PSG1	5669		Pregnancy-specific beta 1 glycoprotein (PSG1) is secreted from trophoblast cells of the human placenta in increasing concentrations as pregnancy progresses, becoming one of the most abundant proteins in maternal serum in the third trimester.
33245474	13	20	gly	glycoproteins	1802:1814	arg1	the Covid-19-related glycoproteins	the Covid-19-related glycoproteins				Fterm		glycoproteins			Our work shows that despite clear N-glycan alteration in the presence of miglustat, the functions of the Covid-19-related glycoproteins studied were not affected, making it unlikely that miglustat can change the natural course of the disease.
33284290	6	8	part_of	BNC	1206:1208	arg1	BNC composites	BNC		BNC composites		OGER	Site	BNC	Q01954	composites	Impregnation with COL significantly improved the cytocompatibility of BNC composites to promote the adhesion and proliferation of fibroblast cells.
34155258	7	41	gly	sialylated	1271:1280	arg1	more than 70% sialylated bi-antennary N-glycans				more than 70% sialylated bi-antennary N-glycans						Combinatorial overexpression of B4GalT1 and ST6Gal1 produced antibodies containing more than 70% sialylated bi-antennary N-glycans.
32505675	0	73	gly	glycosylation	30:42	arg1	epidermal growth factor-like repeat 27				epidermal growth factor-like repeat 27						Expression, purification, and glycosylation of epidermal growth factor-like repeat 27 from mouse NOTCH1.
32885971	3	48	part_of	sites	549:553	arg1	the fully glycosylated S.	S		sites		PUBTATOR	Site	S	43740568	sites	Herein, we use an original decomposition approach to identify energetically uncoupled substructures as antibody binding sites on the fully glycosylated S. Crucially, all that is required are unbiased MD simulations; no prior knowledge of binding properties or ad hoc parameter combinations is needed.
33068214	9	17	gly	O-glycosites	1887:1898	arg2	O-glycosites			O-glycosites						O-glycosites	Using a longer than normal electron transfer dissociation (ETD) reaction time, we obtained enhanced coverage of peptide bonds that facilitated the localization of O-glycosites.
34582712	4	38	gly	α-DG	628:631	arg1	the carbohydrate structure	DG			the carbohydrate structure	Cterm		DG	Q14118		Mutations of several of these enzymes cause an alteration of the carbohydrate structure of α-DG, resulting in severe neuromuscular disorders collectively named dystroglycanopathies.
33303137	7	35	gly	used	1242:1245	arg2	11 glycopeptides			11 glycopeptides						glycopeptides	Among them, 11 glycopeptides can be used to differentiate the subtypes of breast cancer, which further supported the previous conclusion that mannose receptor can be used as a potential marker for the identification of breast cancer subtypes.
33303137	7	63	gly	glycopeptides	1221:1233	arg2	11 glycopeptides			11 glycopeptides						glycopeptides	Among them, 11 glycopeptides can be used to differentiate the subtypes of breast cancer, which further supported the previous conclusion that mannose receptor can be used as a potential marker for the identification of breast cancer subtypes.
34424752	3	12	part_of	present	510:516	arg1	proteins AND The GH18 catalytic domain	proteins		The GH18 catalytic domain		Fterm	Site	proteins		domain	The GH18 catalytic domain is present in proteins that are classified as either chitinases or β-1,4 endo-β-N-acetylglucosaminidases (ENGases) based on their β-1,4 endo-N-acetyl-β-d-glucosaminidase activity, and ENGase activity is commonly associated with cleaving N-linked glycoprotein, an abundant glycan structure on host epithelial surfaces.
34424752	3	29	part_of	proteins	521:528	arg1	The GH18 catalytic domain	proteins		The GH18 catalytic domain		Fterm	Site	proteins		domain	The GH18 catalytic domain is present in proteins that are classified as either chitinases or β-1,4 endo-β-N-acetylglucosaminidases (ENGases) based on their β-1,4 endo-N-acetyl-β-d-glucosaminidase activity, and ENGase activity is commonly associated with cleaving N-linked glycoprotein, an abundant glycan structure on host epithelial surfaces.
32817216	3	86	part_of	CD4-induced	721:731	arg1	CD4-induced (CD4i) non-bNAb epitopes	CD4		CD4-induced (CD4i) non-bNAb epitopes		PUBTATOR	Site	CD4	920	epitopes	When complexed to BMS-529, ch.SOSIP trimers retained their binding to broadly neutralizing antibodies (bNAbs) and to their unmutated common ancestor (UCA) antibodies, while exposure of CD4-induced (CD4i) non-bNAb epitopes was inhibited.
33534538	2	58	part_of	GSL	242:244	arg1	the complete GSL compositions	GSL		the complete GSL compositions		PUBTATOR	Site	GSL	5476	positions	Thus, determination of the complete GSL compositions in human tissues is essential for comparative and functional studies of GSLs.
32454127	3	1	gly	glycans	464:470	arg1	PrP	PrP			glycans	PUBTATOR		PrP	19122		In prion disease, the N-linked glycans and GPI-anchor on the prion protein (PrP) impair fibril assembly.
32454127	3	1	gly	glycans	464:470	arg1	the prion protein	protein			glycans	Fterm		protein			In prion disease, the N-linked glycans and GPI-anchor on the prion protein (PrP) impair fibril assembly.
32955262	4	9	gly	deglycosylate	705:717	arg1	N-linked glycosylated peptides			N-linked glycosylated peptides						peptides	Here, we have investigated the use of the acidic glycosidase PNGase H+, which has a pH optimum at 2.6, to efficiently deglycosylate N-linked glycosylated peptides during HDX-MS analysis of glycoproteins.
32955262	4	20	gly	glycoproteins	776:788	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			Here, we have investigated the use of the acidic glycosidase PNGase H+, which has a pH optimum at 2.6, to efficiently deglycosylate N-linked glycosylated peptides during HDX-MS analysis of glycoproteins.
32955262	4	78	gly	glycosylated	728:739	arg1	N-linked glycosylated peptides			N-linked glycosylated peptides						peptides	Here, we have investigated the use of the acidic glycosidase PNGase H+, which has a pH optimum at 2.6, to efficiently deglycosylate N-linked glycosylated peptides during HDX-MS analysis of glycoproteins.
32929138	4	9	part_of	peptides	720:727	arg1	the S glycoprotein	S glycoprotein		peptides		Cterm	Site	S glycoprotein	43740568	peptides	Lastly, we have identified peptides in the S glycoprotein that are likely to be presented in human leukocyte antigen (HLA) complexes, and discuss the role of S protein glycosylation in potentially modulating the innate and adaptive immune response to the SARS-CoV-2 virus or to a related vaccine.
34094206	1	22	gly	glycoforms	159:168	arg1	specific protein glycoforms	specific protein glycoforms				Fterm		protein			Detecting specific protein glycoforms is attracting particular attention due to its potential to improve the performance of current cancer biomarkers.
33758080	0	27	gly	O-glycosylation	23:37	arg1	chemoattractant receptor GPR15	chemoattractant receptor GPR15				PUBTATOR		GPR15	2838		Tyrosine sulfation and O-glycosylation of chemoattractant receptor GPR15 differentially regulate interaction with GPR15L.
32767150	6	34	gly	variants	821:828	arg1	the glycan structures	CGB variants			the glycan structures	PUBTATOR		CGB variants	93659		Here, we investigate the glycan structures and possible functional differences of the two CGB variants.
34921890	5	5	part_of	protein	838:844	arg1	The protein and subunit composition	protein		The protein and subunit composition		Fterm	Site	protein		position	The protein and subunit composition of fractions was studied; the highly active galactose-specific lectins were found to be present in these fractions.
34229018	4	56	gly	→	938:938	arg1	SCP	SCP			→	OGER		SCP	Q9BRV3		The MAMA hydrolysates showed that the amount of neutral →(4Hex1)n→ moiety is confirmed to be more bigger than that of acidic →(4HexA1)n → in SCP, whereas the amount of acidic →(4HexA1)n→ moiety seems to be more bigger than that of neutral →(4Hex1)n→ in SSP.
34478702	9	52	part_of	Sph	1270:1272	arg1	Sph composition	Sph		Sph composition		OGER	Site	Sph	P0C7M3	position	Importantly the SCDase method provides Sph composition of GSL species.
33581409	9	57	gly	sialylation	1721:1731	arg1	N-glycans				N-glycans						Increased sialylation of N-glycans was detected in all tumor tissues.
33068214	2	19	gly	serine	338:343	arg1	residues			residues						serine, threonine and tyrosine residues	Mucin-type O-glycosylation is initiated by the transfer of N-acetyl-galactosamine (GalNAc) to the hydroxyl group of serine, threonine and tyrosine residues through catalysis by a family of glycosyltransferases, the UDP-GalNAc:polypeptide N-acetylgalactosaminyltransferases (E.C. 2.4.1.41) that are conserved across metazoans.
34151424	0	8	gly	deglycosylation	11:25	arg1	the egg ovomucoid	the egg ovomucoid				PUBTATOR		ovomucoid	416236		Effects of deglycosylation and the Maillard reaction on conformation and allergenicity of the egg ovomucoid.
33910735	5	13	part_of	CSNPs-BNC	859:867	arg1	The CSNPs-BNC composites	BNC		The CSNPs-BNC composites		OGER	Site	BNC	Q01954	composites	The CSNPs-BNC composites had excellent antibacterial activity to support potential clinical application.
33124956	0	44	gly	IL-1RI	39:44	arg1	Glycan-mediated functional assembly	IL-1RI			Glycan-mediated functional assembly	PUBTATOR		IL-1RI	3554		Glycan-mediated functional assembly of IL-1RI: structural insights into completion of the current description for immune response.
34463203	9	85	part_of	CS/PVA/β-TCP/CNC	1481:1496	arg1	CS/PVA/β-TCP/CNC composite	PVA		CS/PVA/β-TCP/CNC composite		OGER	Site	PVA	P32926	composite	Compressive modulus of CS/PVA/β-TCP/CNC composite increased on increasing the CNC concentration to 5%.
33657316	1	2	gly	sites	187:191	arg1	the protein trimer	trimer			sites	Fterm		trimer			The heterogeneity associated with glycosylation of the 66 N-glycan sites on the protein trimer making up the spike (S) region of the SARS-CoV-2 virus has been assessed by charge detection mass spectrometry (CDMS).
33657316	1	51	gly	glycosylation	154:166	arg1	the 66 N-glycan sites				the 66 N-glycan sites						The heterogeneity associated with glycosylation of the 66 N-glycan sites on the protein trimer making up the spike (S) region of the SARS-CoV-2 virus has been assessed by charge detection mass spectrometry (CDMS).
32568312	2	62	gly	glycosylation	471:483	arg1	IgGs	IgGs				Cterm		IgG			Previous studies suggest that abnormal glycosylation of immunoglobulin gamma molecules (IgGs) is strongly associated with immunological diseases and prostate diseases.
31915280	5	37	gly	N-glycosylation	905:919	arg1	proteins	proteins				Fterm		proteins			The DPMS complex catalyzes the synthesis of dolichol-phosphate mannose (DPM), which serves as mannosyl donor in pathways leading to N-glycosylation, glycosylphosphatidylinositol (GPI) anchor biosynthesis, and C- or O-mannosylation of proteins in the ER lumen.
31915280	5	76	gly	O-mannosylation	988:1002	arg1	proteins	proteins				Fterm		proteins			The DPMS complex catalyzes the synthesis of dolichol-phosphate mannose (DPM), which serves as mannosyl donor in pathways leading to N-glycosylation, glycosylphosphatidylinositol (GPI) anchor biosynthesis, and C- or O-mannosylation of proteins in the ER lumen.
31915280	5	90	gly	proteins	1007:1014	arg1	O-mannosylation	proteins			O-mannosylation	Fterm		proteins			The DPMS complex catalyzes the synthesis of dolichol-phosphate mannose (DPM), which serves as mannosyl donor in pathways leading to N-glycosylation, glycosylphosphatidylinositol (GPI) anchor biosynthesis, and C- or O-mannosylation of proteins in the ER lumen.
33068214	8	37	gly	O-glycopeptides	1707:1721	arg2	a short O-glycopeptides			a short O-glycopeptides						O-glycopeptides	Different proteases can be employed for enhancing coverage of O-glycosites, while derivatization of negatively charged amino acids or sialic acids would enhance the identification of a short O-glycopeptides.
33068214	8	76	gly	O-glycosites	1578:1589	arg2	O-glycosites			O-glycosites						O-glycosites	Different proteases can be employed for enhancing coverage of O-glycosites, while derivatization of negatively charged amino acids or sialic acids would enhance the identification of a short O-glycopeptides.
33064451	5	23	part_of	proteins	1023:1030	arg1	the modification sites	proteins		the modification sites		Fterm	Site	proteins		sites	Significant variations were observed in the distribution of glycan types as well as the specific individual glycans on the modification sites of the ectodomain and subunit proteins.
32568312	8	123	gly	glycopeptide	1697:1708	arg2	these N-linked intact glycopeptide abundances			these N-linked intact glycopeptide abundances						glycopeptide	Additionally, the variations in these N-linked intact glycopeptide abundances were not caused by the changes in the IgG concentrations.
32940477	1	6	gly	containing	156:165	arg1	a capsid protein AND N-linked glycans	a capsid protein			N-linked glycans	Fterm		protein			Chloroviruses produce a capsid protein containing N-linked glycans differing in structure from those found in all other organisms.
34009123	3	21	part_of	microbiota	573:582	arg1	the composition	a		the composition		PUBTATOR	Site	a	11820	position	We found that Ggta1 deletion shaped the composition of the gut microbiota.
35126971	4	86	gly	glycosylation	903:915	arg2	N234			N234, N165 and N343						N234, N165 and N343	Our results from multi-microsecond molecular dynamics simulations indicate that the type of glycosylation at N234, N165 and N343 greatly affects the stability of the receptor binding domain (RBD) open conformation, and thus its exposure and accessibility.
35126971	4	86	gly	glycosylation	903:915	arg1	N343			N234, N165 and N343						N234, N165 and N343	Our results from multi-microsecond molecular dynamics simulations indicate that the type of glycosylation at N234, N165 and N343 greatly affects the stability of the receptor binding domain (RBD) open conformation, and thus its exposure and accessibility.
35126971	4	86	gly	glycosylation	903:915	arg2	N165			N234, N165 and N343						N234, N165 and N343	Our results from multi-microsecond molecular dynamics simulations indicate that the type of glycosylation at N234, N165 and N343 greatly affects the stability of the receptor binding domain (RBD) open conformation, and thus its exposure and accessibility.
35126971	4	86	gly	glycosylation	903:915	arg2	N343			N234, N165 and N343						N234, N165 and N343	Our results from multi-microsecond molecular dynamics simulations indicate that the type of glycosylation at N234, N165 and N343 greatly affects the stability of the receptor binding domain (RBD) open conformation, and thus its exposure and accessibility.
35126971	4	86	gly	glycosylation	903:915	arg1	N234			N234, N165 and N343						N234, N165 and N343	Our results from multi-microsecond molecular dynamics simulations indicate that the type of glycosylation at N234, N165 and N343 greatly affects the stability of the receptor binding domain (RBD) open conformation, and thus its exposure and accessibility.
35126971	4	86	gly	glycosylation	903:915	arg1	N343			N234, N165 and N343						N234, N165 and N343	Our results from multi-microsecond molecular dynamics simulations indicate that the type of glycosylation at N234, N165 and N343 greatly affects the stability of the receptor binding domain (RBD) open conformation, and thus its exposure and accessibility.
35126971	4	86	gly	glycosylation	903:915	arg2	N165			N234, N165 and N343						N234, N165 and N343	Our results from multi-microsecond molecular dynamics simulations indicate that the type of glycosylation at N234, N165 and N343 greatly affects the stability of the receptor binding domain (RBD) open conformation, and thus its exposure and accessibility.
35126971	4	86	gly	glycosylation	903:915	arg2	N343			N234, N165 and N343						N234, N165 and N343	Our results from multi-microsecond molecular dynamics simulations indicate that the type of glycosylation at N234, N165 and N343 greatly affects the stability of the receptor binding domain (RBD) open conformation, and thus its exposure and accessibility.
35126971	4	86	gly	glycosylation	903:915	arg1	N234			N234, N165 and N343						N234, N165 and N343	Our results from multi-microsecond molecular dynamics simulations indicate that the type of glycosylation at N234, N165 and N343 greatly affects the stability of the receptor binding domain (RBD) open conformation, and thus its exposure and accessibility.
35126971	4	86	gly	glycosylation	903:915	arg2	N165			N234, N165 and N343						N234, N165 and N343	Our results from multi-microsecond molecular dynamics simulations indicate that the type of glycosylation at N234, N165 and N343 greatly affects the stability of the receptor binding domain (RBD) open conformation, and thus its exposure and accessibility.
35126971	4	86	gly	glycosylation	903:915	arg2	N343			N234, N165 and N343						N234, N165 and N343	Our results from multi-microsecond molecular dynamics simulations indicate that the type of glycosylation at N234, N165 and N343 greatly affects the stability of the receptor binding domain (RBD) open conformation, and thus its exposure and accessibility.
35126971	4	86	gly	glycosylation	903:915	arg1	N234			N234, N165 and N343						N234, N165 and N343	Our results from multi-microsecond molecular dynamics simulations indicate that the type of glycosylation at N234, N165 and N343 greatly affects the stability of the receptor binding domain (RBD) open conformation, and thus its exposure and accessibility.
35126971	4	86	gly	glycosylation	903:915	arg2	N343			N234, N165 and N343						N234, N165 and N343	Our results from multi-microsecond molecular dynamics simulations indicate that the type of glycosylation at N234, N165 and N343 greatly affects the stability of the receptor binding domain (RBD) open conformation, and thus its exposure and accessibility.
35126971	4	86	gly	glycosylation	903:915	arg1	N234			N234, N165 and N343						N234, N165 and N343	Our results from multi-microsecond molecular dynamics simulations indicate that the type of glycosylation at N234, N165 and N343 greatly affects the stability of the receptor binding domain (RBD) open conformation, and thus its exposure and accessibility.
35126971	4	86	gly	glycosylation	903:915	arg1	N234			N234, N165 and N343						N234, N165 and N343	Our results from multi-microsecond molecular dynamics simulations indicate that the type of glycosylation at N234, N165 and N343 greatly affects the stability of the receptor binding domain (RBD) open conformation, and thus its exposure and accessibility.
32049016	3	42	part_of	gp120	515:519	arg1	the variable 1 (V1) domain	Env gp120		the variable 1 (V1) domain		PUBTATOR	Site	Env gp120	100616444	domain	Here we show that a subset of patient-derived HIV-1 isolates contain O-linked carbohydrate on the variable 1 (V1) domain of Env gp120.
32485649	3	32	gly	glycopeptides	462:474	arg2	glycopeptides			glycopeptides						glycopeptides	The results showed that the solubility of glycopeptides in solvents with a high acetonitrile content depends on the type of attached N-glycan.
34822830	5	52	gly	possessed	951:959	arg1	ERP-W AND neutral sugar content	ERP-W			neutral sugar content	OGER		ERP	Q9BY08		ERP-AK had the highest yield (24.5%) and the best thermal stability, ERP-AC and ERP-W-AC showed better homogeneity and lower molecular weight (83.6 and 41.6 kDa), and ERP-W possessed the highest neutral sugar content (50.7%) and molecular weight.
32248235	3	36	gly	glycoproteins	510:522	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			Here we report the detection of these glycans on glycoproteins as well as in their free forms via enzymatic incorporation of fluorophore-conjugated fucose using FUT2, FUT6, FUT7, FUT8 and FUT9.
33068214	7	0	gly	glycopeptides	1501:1513	arg2	polar-hydrophilic glycopeptides			polar-hydrophilic glycopeptides						glycopeptides	Our results revealed that anion-exchange stationary phase is sufficient for glycopeptide enrichment; however, the use of a hydrophobic-containing sorbent was detrimental to the binding of polar-hydrophilic glycopeptides.
33068214	7	99	gly	glycopeptide	1371:1382	arg2	glycopeptide			glycopeptide						glycopeptide	Our results revealed that anion-exchange stationary phase is sufficient for glycopeptide enrichment; however, the use of a hydrophobic-containing sorbent was detrimental to the binding of polar-hydrophilic glycopeptides.
34786539	6	14	gly	trimer	940:945	arg1	the N1098 glycan site	trimer			the N1098 glycan site	Fterm		trimer			Specifically, trans&cis-infection of virions with a high-mannose structure (Man5GlcNAc2) at the N1098 glycan site of the spike postfusion trimer were markedly enhanced.
34786539	6	70	gly	site	911:914	arg1	trans&cis-infection	cis			site	OGER		cis	Q9NSE2		Specifically, trans&cis-infection of virions with a high-mannose structure (Man5GlcNAc2) at the N1098 glycan site of the spike postfusion trimer were markedly enhanced.
33065977	5	66	gly	tetrasialylated	969:983	arg1	high-branched N-glycans				high-branched N-glycans						Significant changes in plasma protein N-glycome composition were observed for antennary fucosylated, tri- and tetrasialylated, tri- and tetragalactosylated, high-branched N-glycans (p-value range 1.66 × 10-2-4.28 × 10-2).
33065977	5	71	gly	fucosylated	947:957	arg1	high-branched N-glycans				high-branched N-glycans						Significant changes in plasma protein N-glycome composition were observed for antennary fucosylated, tri- and tetrasialylated, tri- and tetragalactosylated, high-branched N-glycans (p-value range 1.66 × 10-2-4.28 × 10-2).
32568312	7	85	gly	N-glycopeptide	1472:1485	arg2	the N-glycopeptide IgG2-GP09			the N-glycopeptide IgG2-GP09						N-glycopeptide	In particular, the N-glycopeptide IgG2-GP09 (EEQFNSTFR (H5N5S1)) was dramatically elevated in plasma from PCa patients, compared with that in BPH patients (PCa/BPH ratio = 5.74, p = 0.001).
33878161	2	7	gly	heterogeneity	174:186	arg1	glycans				glycans						The heterogeneity of glycans in therapeutic proteins is an issue for maintaining quality, activity and safety during bioprocessing.
33076454	4	9	gly	G	629:629	arg1	enzymatically released N-glycans	affinity purified immunoglobulin G			enzymatically released N-glycans	Cterm		affinity purified immunoglobulin G			We studied enzymatically released N-glycans of total plasma proteins and affinity purified immunoglobulin G (IgG) from patients and healthy controls using mass spectrometry (MS).
33076454	4	57	gly	proteins	583:590	arg1	enzymatically released N-glycans	proteins			enzymatically released N-glycans	Fterm		proteins			We studied enzymatically released N-glycans of total plasma proteins and affinity purified immunoglobulin G (IgG) from patients and healthy controls using mass spectrometry (MS).
32955262	3	23	gly	N-glycosylated	555:568	arg1	N-glycosylated protein regions			N-glycosylated protein regions						regions	We have recently demonstrated the utility of the glycosidase PNGase A to enable HDX-MS analysis of N-glycosylated protein regions.
33616012	0	4	gly	lectin	75:80	arg1	the carbohydrate-binding properties	lectin			the carbohydrate-binding properties	Fterm		lectin			In depth analysis on the carbohydrate-binding properties of a vasorelaxant lectin from Dioclea lasiophylla Mart Ex.
33761173	4	21	gly	glycoprotein	956:967	arg1	glycoprotein glycosylation	glycoprotein glycosylation				Fterm		glycoprotein			This article includes the detailed, streamlined sample preparation method for liquid chromatography-mass spectrometry data acquisition and subsequent bioinformatics-based data annotation using the publicly available GlycReSoft program for highly efficient identification and quantification of glycoprotein glycosylation.
32507163	7	16	part_of	EVA	983:985	arg1	these EVA composites	EVA		these EVA composites		OGER	Site	EVA	O60487	composites	The incorporation of alpha-1,3 glucan in these EVA composites resulted in the improvement of key composite properties, such as toughness, modulus, wear resistance, and hardness showing the reinforcing potential of these engineered polysaccharides.
34044019	8	67	gly	fucose	1604:1609	arg1	IgG1	IgG1			fucose	OGER		IgG1	P01857		The combination of these techniques provides molecular insight into the steric hindrance from the core Fc fucose in IgG1 and corroborates previously proposed Fab-receptor interactions.
32955262	9	62	gly	glycoproteins	1517:1529	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			Overall, our findings demonstrate the unique features of PNGase H+ for improving conformational analysis of glycoproteins by HDX-MS, in particular, challenging glycoproteins containing both glycosylations and disulfide bonds.
32955262	9	70	gly	glycoproteins	1569:1581	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			Overall, our findings demonstrate the unique features of PNGase H+ for improving conformational analysis of glycoproteins by HDX-MS, in particular, challenging glycoproteins containing both glycosylations and disulfide bonds.
34094206	3	40	part_of	protein	632:638	arg1	the glycosylation site	protein		the glycosylation site		Fterm	Site	protein		site	Here we report a method for selecting aptamers toward the glycosylation site of a protein.
35662980	11	74	gly	N-glycosylation	1930:1944	arg2	the N-glycosylation sites			the N-glycosylation sites						sites	An examination of the N-glycosylation sites of several protein crystal structures indicates that core fucosylation is mostly affected by the accessibility and nature of the N-glycan and not by the nature of the underlying peptide sequence.
33049835	6	32	gly	residues	774:781	arg1	terminal fucose and galactose residues			terminal fucose and galactose residues	terminal fucose and galactose residues		Site			residues and fragments	The fucoidan fraction 1TbF1 was sulfated fucogalactan containing a backbone from 1,6-linked residues of β-d-galactopyranose with branches at C3 and C4, terminal fucose and galactose residues and fragments from 1,3-; 1,4-; and 1,2-fucose residues.
33049835	6	32	gly	residues	774:781	arg1	fragments			fragments	fragments		Site			residues and fragments	The fucoidan fraction 1TbF1 was sulfated fucogalactan containing a backbone from 1,6-linked residues of β-d-galactopyranose with branches at C3 and C4, terminal fucose and galactose residues and fragments from 1,3-; 1,4-; and 1,2-fucose residues.
34350945	4	83	gly	fucosylated	992:1002	arg1	Lex				Lex						Using a variety of approaches including flow cytometry, immunofluorescence, glycomics and gene expression analysis, we observed that the low-grade bladder cancer cell lines RT4, 5637 and SW780 express high levels of the fucosylated Lewis-X antigen (Lex, CD15) (Galβ1-4(Fucα1-3)GlcNAcβ1-R), while normal bladder epithelial A/T/N cells lack Lex expression.
34350945	4	83	gly	fucosylated	992:1002	arg1	the fucosylated Lewis-X antigen				the fucosylated Lewis-X antigen						Using a variety of approaches including flow cytometry, immunofluorescence, glycomics and gene expression analysis, we observed that the low-grade bladder cancer cell lines RT4, 5637 and SW780 express high levels of the fucosylated Lewis-X antigen (Lex, CD15) (Galβ1-4(Fucα1-3)GlcNAcβ1-R), while normal bladder epithelial A/T/N cells lack Lex expression.
34350945	4	83	gly	fucosylated	992:1002	arg1	Galβ1-4(Fucα1-3)GlcNAcβ1-R				Galβ1-4(Fucα1-3)GlcNAcβ1-R						Using a variety of approaches including flow cytometry, immunofluorescence, glycomics and gene expression analysis, we observed that the low-grade bladder cancer cell lines RT4, 5637 and SW780 express high levels of the fucosylated Lewis-X antigen (Lex, CD15) (Galβ1-4(Fucα1-3)GlcNAcβ1-R), while normal bladder epithelial A/T/N cells lack Lex expression.
33876698	6	74	part_of	protein	1006:1012	arg1	the palmitate site	protein		the palmitate site		Fterm	Site	protein		site	The molecules can fit into the palmitate site of the protein, with the dimeric compounds forming more stable complexes than the monomer.
33380299	6	57	gly	sialylated	1026:1035	arg1	the sialylated structures				the sialylated structures						Furthermore, we report on the good practice of serum sample handling in order to prevent decomposition of the sialylated structures.
35049867	6	35	gly	GLP	946:948	arg1	The total sugar content	GLP			The total sugar content	OGER		GLP	Q9H9B1		The total sugar content of GLP and its degradation products (GLP-HV, GLP-H and GLP-V) were more than 97%, and their monosaccharides are mainly glucose and galactose.
35662980	1	71	gly	fucosylates	158:168	arg1	the innermost GlcNAc				the innermost GlcNAc						FUT8 is an essential α-1,6-fucosyltransferase that fucosylates the innermost GlcNAc of N-glycans, a process called core fucosylation.
34876606	4	27	gly	N-glycosylation	773:787	arg1	the wild type (S-614D) or variant (S-614G) SARS-CoV-2 spike glycoproteins	the wild type (S-614D) or variant (S-614G) SARS-CoV-2 spike glycoproteins				PUBTATOR		spike glycoproteins	43740568		In this report, we used mass spectrometry techniques to characterize and compare the N-glycosylation of the wild type (S-614D) or variant (S-614G) SARS-CoV-2 spike glycoproteins prepared under identical conditions.
34876606	4	57	gly	glycoproteins	852:864	arg1	the wild type (S-614D) or variant (S-614G) SARS-CoV-2 spike glycoproteins	the wild type (S-614D) or variant (S-614G) SARS-CoV-2 spike glycoproteins				PUBTATOR		spike glycoproteins	43740568		In this report, we used mass spectrometry techniques to characterize and compare the N-glycosylation of the wild type (S-614D) or variant (S-614G) SARS-CoV-2 spike glycoproteins prepared under identical conditions.
33164360	4	34	part_of	PCP	819:821	arg1	the chemical compositions	PCP		the chemical compositions		OGER	Site	PCP	P42785	positions	By consulting the relevant literature, we systematically summarized the chemical structures and the research progress on pharmacological activities of PCP and its derivatives in recent years to explore the chemical compositions and activities of PCP thoroughly.
34523784	1	41	gly	glycoprotein	146:157	arg1	the main therapeutic glycoprotein	the main therapeutic glycoprotein				Fterm		glycoprotein			Recombinant human erythropoietin (EPO) is the main therapeutic glycoprotein for the treatment of anemia in cancer and kidney patients.
34523784	1	41	gly	glycoprotein	146:157	arg1	Recombinant human erythropoietin	Recombinant human erythropoietin				PUBTATOR		erythropoietin	2056		Recombinant human erythropoietin (EPO) is the main therapeutic glycoprotein for the treatment of anemia in cancer and kidney patients.
31968367	0	47	part_of	Base	49:52	arg1	the Composition	Biopolymer Base		the Composition		OGER	Site	Biopolymer Base	Q86YQ2	position	Development of the Composition of the Biopolymer Base for Nasal Gel.
34127537	11	30	gly	N-glycopeptides	1596:1610	arg2	N-glycopeptides			N-glycopeptides						N-glycopeptides	CONCLUSIONS Our high-resolution data suggest that IgA O- and N-glycopeptides are promising targets for future investigations on the pathophysiology of IgAN and as potential noninvasive biomarkers for disease prediction and deteriorating kidney function.
32045434	3	56	gly	Hyperglycosylated	290:306	arg1	"Hyperglycosylated" variants	"Hyperglycosylated" variants				Fterm		variants			"Hyperglycosylated" variants secreted during early pregnancy have been proposed to be involved in initial implantation of the embryo and as a potential diagnostic marker for gestational diseases.
34483088	2	21	gly	used	440:443	arg2	composites			composites						composites	METHODS Four groups of composites (n = 10), containing 0%, 1%, 5%, and 10% w/w NP fillers, respectively, were used to bond brackets to the surfaces of 40 intact bovine incisors.
32973204	3	0	gly	O-glycopeptide	689:702	arg2	the glycodrosocin O-glycopeptide substrate			the glycodrosocin O-glycopeptide substrate						O-glycopeptide	We determine the high-resolution X-ray crystal structures of the unliganded form of OgpA, the complex with the glycodrosocin O-glycopeptide substrate and its product, providing a comprehensive set of snapshots of the enzyme along the catalytic cycle.
34494876	3	62	gly	presence	448:455	arg2	ACE2 AND N-linked glycans	ACE2			N-linked glycans	PUBTATOR		ACE2	Q9BYF1		Previous work has demonstrated the presence of N-linked glycans in ACE2.
32280962	6	5	part_of	PSG1	1126:1129	arg1	only the N and A2 domains	PSG1		only the N and A2 domains		PUBTATOR	Site	PSG1	5669	domains	In addition, we determined that out of the three N-glycosylation-carrying domains, only the N and A2 domains of recombinant PSG1 interact with Gal-1.
32280962	6	9	part_of	A2	1100:1101	arg1	only the N and A2 domains	A2		only the N and A2 domains		PUBTATOR	Site	A2	170589	domains	In addition, we determined that out of the three N-glycosylation-carrying domains, only the N and A2 domains of recombinant PSG1 interact with Gal-1.
34921890	2	4	gly	glycoprotein	291:302	arg1	The glycoprotein and polysaccharide fractions				The glycoprotein and polysaccharide fractions						The glycoprotein and polysaccharide fractions showing high cytotoxicity towards several human and animal cancer cell lines: A549, Hep-2, HeLa, С6 and SPEV-2 were isolated from basidiomycete Lentinus edodes vegetative mycelium and fruiting body and further characterized.
32681153	6	81	gly	glycopeptides	1129:1141	arg2	glycopeptides			glycopeptides						glycopeptides	Here we provide a detailed protocol for EXoO, which includes seven stages of: (1) extraction and proteolytic digestion of proteins to peptides, (2) sequential guanidination and de-salting of peptides, (3) enrichment of glycopeptides, (4) solid-phase peptide conjugation and release of O-GalNAc glycopeptides using the OpeRATOR protease, (5) liquid chromatography with tandem mass spectrometry analysis of O-GalNAc glycopeptides, (6) identification of O-GalNAc glycopeptides by database search and (7) quantification of O-GalNAc glycopeptides.
32577644	8	44	gly	protein	1510:1516	arg1	the glycan shield	S protein			the glycan shield	OGER		S protein	Q15517		Additionally, end-to-end accessibility analyses outline a complete overview of the vulnerabilities of the glycan shield of SARS-CoV-2 S protein, which may be exploited by therapeutic efforts targeting this molecular machine.
33063473	4	10	gly	glycosylated	733:744	arg1	glycosylated PD-1	glycosylated PD-1				OGER		PD-1	P18621		Here, we demonstrate varied N-glycan composition in PD-1, and show that the binding affinity of camrelizumab, a recently approved PD-1-specific MAb, to non-glycosylated PD-1 proteins from E. coli is substantially decreased compared with glycosylated PD-1.
33063473	4	33	gly	non-glycosylated	648:663	arg1	non-glycosylated PD-1 proteins	non-glycosylated PD-1 proteins				OGER		PD-1 proteins	P18621		Here, we demonstrate varied N-glycan composition in PD-1, and show that the binding affinity of camrelizumab, a recently approved PD-1-specific MAb, to non-glycosylated PD-1 proteins from E. coli is substantially decreased compared with glycosylated PD-1.
33063473	4	43	gly	composition	533:543	arg1	PD-1	PD-1			composition	OGER		PD-1	P18621		Here, we demonstrate varied N-glycan composition in PD-1, and show that the binding affinity of camrelizumab, a recently approved PD-1-specific MAb, to non-glycosylated PD-1 proteins from E. coli is substantially decreased compared with glycosylated PD-1.
32756606	3	15	part_of	S	539:539	arg1	the S fragments	S		the S fragments		PUBTATOR	Site	S	43740568	fragments	We see that some ACE2 glycans interact with the S fragments, and glycans are influencing the conformation of the ACE2 receptor.
33303137	5	52	gly	glycopeptides	896:908	arg2	the intact glycopeptides			glycopeptides	the mannose receptors					glycopeptides	In this work, we analyzed the intact glycopeptides of the mannose receptors in serum from breast cancer patients using isobaric tags for relative and absolute quantitation (iTRAQ) and LC-MS/MS.
32414843	5	74	part_of	gat1Δ	1304:1308	arg1	gat1Δ parasites	gat1		gat1Δ parasites		OGER	Site	gat1	P30531	parasites	Kinetic and crystallographic experiments showed that the glycosyltransferase Gat1 is specific for Skp1 in Toxoplasma and also in another protist, the crop pathogen Pythium ultimum The fifth sugar is important for glycan function as indicated by the slow-growth phenotype of gat1Δ parasites.
32039452	0	75	gly	N-glycosylation	54:68	arg1	proteins	proteins				Fterm		proteins			Engineering mammalian cells to produce plant-specific N-glycosylation on proteins.
32049016	1	9	gly	glycoprotein	188:199	arg1	the Envelope (Env) glycoprotein surface subunit (gp120)	the Envelope (Env) glycoprotein surface subunit (gp120)				Fterm		glycoprotein	100616444		Approximately 50% of the mass of the Envelope (Env) glycoprotein surface subunit (gp120) of human immunodeficiency virus type 1 (HIV-1) is composed of N-linked carbohydrate.
32959924	4	30	gly	N-glycosylation	662:676	arg1	general				general						These results are complemented by the observation that N-glycosylation of GLMP in general, but not the type of N-glycans (high-mannose-type or complex-type) or individual N-glycan chains, are essential for protection.
32959924	4	30	gly	N-glycosylation	662:676	arg1	GLMP				GLMP						These results are complemented by the observation that N-glycosylation of GLMP in general, but not the type of N-glycans (high-mannose-type or complex-type) or individual N-glycan chains, are essential for protection.
32896318	10	43	gly	glycoproteins	1746:1758	arg1	plant glycoproteins	plant glycoproteins				Fterm		glycoproteins			Throughout the chapter, we provide recommendations for the handling of plant glycoproteins and highlight special considerations for experimental design, along with troubleshooting suggestions.
33063473	0	26	gly	N-glycosylation	0:14	arg1	PD-1	PD-1				OGER		PD-1	P18621		N-glycosylation of PD-1 promotes binding of camrelizumab.
35178379	1	62	gly	Glycosylation	112:124	arg1	viral envelope proteins	viral envelope proteins				Fterm		proteins			Glycosylation of viral envelope proteins is important for infectivity and immune evasion.
32103179	7	72	part_of	enzyme	1422:1427	arg1	the active site	enzyme		the active site		Fterm	Site	enzyme		site	A second cryo-electron microscopy structure of ALG6 bound to an analogue of dolichylphosphate-glucose at 3.9 Å resolution revealed the active site of the enzyme.
34931806	3	7	gly	glycoproteins	439:451	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			MCRs are metabolically incorporated into glycoproteins by living systems, and bio-orthogonal reactions can be subsequently employed to install visualization and enrichment tags.
34360826	7	58	gly	sialylated	829:838	arg1	neutral and sialylated complex N-glycans				neutral and sialylated complex N-glycans						Results showed the predominant occurrence of neutral and sialylated complex N-glycans with bisected N-acetylglucosamine and core- and/or antennary fucosylation.
32321762	0	31	gly	GPI	63:65	arg1	sialic acid	GPI			sialic acid	OGER		GPI	P06744		α2,3 linkage of sialic acid to a GPI anchor and an unpredicted GPI attachment site in human prion protein.
32623828	5	60	part_of	Medium	840:845	arg1	Medium composition	Medium		Medium composition		OGER	Site	Medium		position	Medium composition slightly affected AP breaking stress, although GP with a high cationic concentration medium could not be prepared.
31907375	5	28	gly	fucosylated	754:764	arg1	biantenary core fucosylated glycan				biantenary core fucosylated glycan						The significant increase in paucimannose and high-mannose glycans with 6-9 mannose residues and decline in the sialylated complex biantenary core fucosylated glycan with composition NeuAcGal2GlcNAc2Man3GlcNAc2Fuc were general features of tumors.
32205858	3	77	gly	glycosylation	426:438	arg1	glycodelin	glycodelin				PUBTATOR		glycodelin	5047		Here we aimed to elucidate whether the glycosylation and function of glycodelin is altered in endometrial carcinoma as compared with a normal endometrium.
33688648	0	26	part_of	SARS-CoV-2	44:53	arg1	the SARS-CoV-2 Spike Protein Receptor-Binding Domain	SARS		the SARS-CoV-2 Spike Protein Receptor-Binding Domain		OGER		SARS	P49591		Structural O-Glycoform Heterogeneity of the SARS-CoV-2 Spike Protein Receptor-Binding Domain Revealed by Native Top-Down Mass Spectrometry.
33688648	0	38	part_of	Spike	55:59	arg1	the SARS-CoV-2 Spike Protein Receptor-Binding Domain	Spike Protein		the SARS-CoV-2 Spike Protein Receptor-Binding Domain		PUBTATOR		Spike Protein	43740568		Structural O-Glycoform Heterogeneity of the SARS-CoV-2 Spike Protein Receptor-Binding Domain Revealed by Native Top-Down Mass Spectrometry.
33688648	0	79	part_of	Protein	61:67	arg1	the SARS-CoV-2 Spike Protein Receptor-Binding Domain	Spike Protein		the SARS-CoV-2 Spike Protein Receptor-Binding Domain		PUBTATOR		Spike Protein	43740568		Structural O-Glycoform Heterogeneity of the SARS-CoV-2 Spike Protein Receptor-Binding Domain Revealed by Native Top-Down Mass Spectrometry.
33750987	2	64	gly	glycosylation	326:338	arg2	N-linked glycosylation sites			N-linked glycosylation sites						sites	As the principal target of the immune response, the hemagglutinin (HA) surface antigen on influenza viruses continuously acquires and replaces N-linked glycosylation sites to shield immunogenic protein epitopes using host-derived glycans.
33675758	3	53	part_of	region	366:371	arg1	IgG	IgG		region		Cterm	Site	IgG		region	Two glycan chains are conserved in the Fc region in IgG; however, their importance for the structure of intact IgG1 has remained unclear.
33878161	4	37	gly	fucosylated	696:706	arg1	noncore fucosylated hybrid-type N-glycans				noncore fucosylated hybrid-type N-glycans						Furthermore, FUT8, which encodes α1,6-fucosyltransferase, was knocked out in the M2D-KO cell line, establishing a DF-KO cell line that can express noncore fucosylated hybrid-type N-glycans.
32426967	2	30	gly	glycoforms	398:407	arg1	A1AT	A1AT				PUBTATOR		A1AT	5265		In this study, a liquid chromatography-tandem mass spectrometry-based method is used for accurate structural analysis and quantification of site-specific glycoforms of serum α-1-antitrypsin (A1AT) in early-stage HCC and cirrhosis patients.
32426967	2	30	gly	glycoforms	398:407	arg1	serum α-1-antitrypsin	serum α-1-antitrypsin				PUBTATOR		-1-antitrypsin	5265		In this study, a liquid chromatography-tandem mass spectrometry-based method is used for accurate structural analysis and quantification of site-specific glycoforms of serum α-1-antitrypsin (A1AT) in early-stage HCC and cirrhosis patients.
34791559	1	61	gly	fucosylated	225:235	arg1	fucosylated glycans				fucosylated glycans						We performed a comparative analysis of the expression of fucosylated glycans and morphometric characteristics of the terminal villi of the placenta, depending on the severity of preeclampsia (PE).
33650863	2	71	gly	UMOD	245:248	arg1	Comprehensive glycan profiling	UMOD			Comprehensive glycan profiling	PUBTATOR		UMOD	7369		Comprehensive glycan profiling of UMOD provides valuable information to understand the exact mechanisms of glycan-regulated functions.
33756033	3	43	gly	glycopeptide	321:332	arg2	The central glycopeptide segments			The central glycopeptide segments						glycopeptide	The central glycopeptide segments were assembled by pseudoproline-assisted Lansbury aspartylation and subsequent enzymatic elongation of complex N-glycans.
34480673	0	37	gly	sialylated	7:16	arg1	Highly sialylated mucin-type glycopeptide			Highly sialylated mucin-type glycopeptide						glycopeptide	Highly sialylated mucin-type glycopeptide from porcine intestinal mucosa after heparin extraction: O-glycan profiling and immunological activity evaluation.
34480673	0	55	gly	glycopeptide	29:40	arg2	Highly sialylated mucin-type glycopeptide			Highly sialylated mucin-type glycopeptide						glycopeptide	Highly sialylated mucin-type glycopeptide from porcine intestinal mucosa after heparin extraction: O-glycan profiling and immunological activity evaluation.
34236658	3	2	gly	glycopeptide	440:451	arg2	automated glycopeptide identification software			automated glycopeptide identification software						glycopeptide	One of the key issues in running automated glycopeptide identification software is the selection of a reference glycan composition file.
32102970	4	71	part_of	N-linked	813:820	arg1	the N-linked intact glycopeptides	N-linked		the N-linked intact glycopeptides		Cterm	Site	N-linked		glycopeptides	After digestion, the N-linked intact glycopeptides were enriched by hydrophilic interaction liquid chromatography (HILIC) and a portion of the enriched N-linked intact glycopeptides were processed by Peptide-N-Glycosidase F (PNGase F) to generate N-linked deglycopeptides.
32102970	4	95	part_of	N-linked	944:951	arg1	the enriched N-linked intact glycopeptides	N-linked		the enriched N-linked intact glycopeptides		Cterm	Site	N-linked		glycopeptides	After digestion, the N-linked intact glycopeptides were enriched by hydrophilic interaction liquid chromatography (HILIC) and a portion of the enriched N-linked intact glycopeptides were processed by Peptide-N-Glycosidase F (PNGase F) to generate N-linked deglycopeptides.
32102970	4	141	part_of	N-linked	1039:1046	arg1	N-linked deglycopeptides	N-linked		N-linked deglycopeptides		Cterm	Site	N-linked		deglycopeptides	After digestion, the N-linked intact glycopeptides were enriched by hydrophilic interaction liquid chromatography (HILIC) and a portion of the enriched N-linked intact glycopeptides were processed by Peptide-N-Glycosidase F (PNGase F) to generate N-linked deglycopeptides.
33992099	12	99	gly	difucosylated	1992:2004	arg1	difucosylated oligosaccharide LeY				difucosylated oligosaccharide LeY						Correlation between the expression of difucosylated oligosaccharide LeY on the apical surfaces of the luminal and glandular epithelial cells was found in patients with thin endometrium and recurrent implantation failure.
34424752	8	30	gly	glycoproteins	1617:1629	arg1	high-mannose glycoproteins				high-mannose glycoproteins						In this study, we show by mutation analysis as well as a dose-dependent analysis of recombinant protein expression that EfEndo18A is primarily responsible for deglycosylating high-mannose glycoproteins and that the glycans removed by EfEndo18A support growth under nutrient-limiting conditions in vitro.
33991006	9	68	gly	glycosylated	1340:1351	arg1	The different glycosylated WTA-fragments	The different glycosylated WTA-fragments				Fterm		WTA-fragments			The different glycosylated WTA-fragments were used to probe binding of monoclonal antibodies using WTA-functionalized magnetic beads, revealing the binding specificity of these WTA-specific antibodies and the importance of the specific location of the GlcNAc modifications on the WTA-chains.
31922547	2	0	gly	glycoproteins	304:316	arg1	therapeutic glycoproteins	therapeutic glycoproteins				Fterm		glycoproteins			N-glycan biosynthesis pathways have been engineered in yeasts and fungi to enable the production of therapeutic glycoproteins with human-compatible N-glycosylation, and some glycoengineering approaches alter the synthesis of the lipid-linked oligosaccharide (LLO).
31922547	2	64	gly	N-glycosylation	340:354	arg1	therapeutic glycoproteins	therapeutic glycoproteins				Fterm		glycoproteins			N-glycan biosynthesis pathways have been engineered in yeasts and fungi to enable the production of therapeutic glycoproteins with human-compatible N-glycosylation, and some glycoengineering approaches alter the synthesis of the lipid-linked oligosaccharide (LLO).
33835779	2	1	gly	glycoproteins	356:368	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			Efficient MOE reagents are activated into nucleotide-sugars by cellular biosynthetic machineries, introduced into glycoproteins and traceable by bioorthogonal chemistry.
33835347	7	25	gly	N-glycoproteins	1357:1371	arg1	3437 intact N-glycoproteins	3437 intact N-glycoproteins				Fterm		N-glycoproteins			With spectrum-level FDR ≤1%, 20,038 intact N-Glycopeptides corresponding to 4518 peptide backbones, 228 N-glycan monosaccharide compositions 1026 N-glycan putative structures, 4460 N-glycosites and 3437 intact N-glycoproteins were identified.
33835347	7	45	gly	4460 N-glycosites	1323:1339	arg2	4460 N-glycosites			4460 N-glycosites						4460 N-glycosites	With spectrum-level FDR ≤1%, 20,038 intact N-Glycopeptides corresponding to 4518 peptide backbones, 228 N-glycan monosaccharide compositions 1026 N-glycan putative structures, 4460 N-glycosites and 3437 intact N-glycoproteins were identified.
34078286	5	68	part_of	lignin	1225:1230	arg1	a lignin polymer composition	lignin		a lignin polymer composition		Fterm	Site	lignin		position	RESULTS The following results can be highlighted: (i) pests' resistant materials may show cell walls with low p-coumaric acid and low hemicellulose content; (ii) inbred lines showing cell walls with high cellulose content and high diferulate cross-linking may present higher performance for ethanol production; (iii) and inbreds with enhanced digestibility may have cell walls poor in neutral detergent fibre and diferulates, combined with a lignin polymer composition richer in G subunits.
33423189	2	65	gly	N-glycosylation	298:312	arg2	Asn297			Asn297						Asn297	These interactions critically depend on N-glycosylation at Asn297 of each CH2 domain, where biantennary complex-type oligosaccharides contain microheterogeneities resulting primarily from the presence or absence of non-reducing terminal galactose residues.
32501643	11	21	gly	glycosylated	1589:1600	arg1	glycosylated APOE	glycosylated APOE				PUBTATOR		APOE	348		Importantly, L5 containing glycosylated APOE induced apoptosis in cultured endothelial cells through lectin-like oxidized LDL receptor-1 (LOX-1) signaling, and glycosylation removal from L5 attenuated L5-induced apoptosis.
33303137	3	10	gly	composition	532:542	arg1	each site			each site	each site		Site			site	However, the glycan composition on each site is still unknown because the glycan was removed by PNGase F in previous work.
32871472	5	5	gly	N-glycosylation	571:585	arg1	N200			N35, N192, N200 and N219						N35, N192, N200 and N219	Here we have investigated the effect of N-glycosylation (at N35, N192, N200 and N219) and mono-ubiquitination (at K178) of PD-L1 on the interaction with BMS-202 by molecular modeling.
32871472	5	5	gly	N-glycosylation	571:585	arg1	N219			N35, N192, N200 and N219						N35, N192, N200 and N219	Here we have investigated the effect of N-glycosylation (at N35, N192, N200 and N219) and mono-ubiquitination (at K178) of PD-L1 on the interaction with BMS-202 by molecular modeling.
32871472	5	5	gly	N-glycosylation	571:585	arg1	N35			N35, N192, N200 and N219						N35, N192, N200 and N219	Here we have investigated the effect of N-glycosylation (at N35, N192, N200 and N219) and mono-ubiquitination (at K178) of PD-L1 on the interaction with BMS-202 by molecular modeling.
32871472	5	5	gly	N-glycosylation	571:585	arg2	N200			N35, N192, N200 and N219						N35, N192, N200 and N219	Here we have investigated the effect of N-glycosylation (at N35, N192, N200 and N219) and mono-ubiquitination (at K178) of PD-L1 on the interaction with BMS-202 by molecular modeling.
32871472	5	5	gly	N-glycosylation	571:585	arg1	N192			N35, N192, N200 and N219						N35, N192, N200 and N219	Here we have investigated the effect of N-glycosylation (at N35, N192, N200 and N219) and mono-ubiquitination (at K178) of PD-L1 on the interaction with BMS-202 by molecular modeling.
32871472	5	5	gly	N-glycosylation	571:585	arg2	N35			N35, N192, N200 and N219						N35, N192, N200 and N219	Here we have investigated the effect of N-glycosylation (at N35, N192, N200 and N219) and mono-ubiquitination (at K178) of PD-L1 on the interaction with BMS-202 by molecular modeling.
32871472	5	5	gly	N-glycosylation	571:585	arg2	N219			N35, N192, N200 and N219						N35, N192, N200 and N219	Here we have investigated the effect of N-glycosylation (at N35, N192, N200 and N219) and mono-ubiquitination (at K178) of PD-L1 on the interaction with BMS-202 by molecular modeling.
32871472	5	5	gly	N-glycosylation	571:585	arg1	PD-L1	PD-L1		N35, N192, N200 and N219		PUBTATOR		PD-L1	29126	N35, N192, N200 and N219	Here we have investigated the effect of N-glycosylation (at N35, N192, N200 and N219) and mono-ubiquitination (at K178) of PD-L1 on the interaction with BMS-202 by molecular modeling.
32871472	5	5	gly	N-glycosylation	571:585	arg1	N219			N35, N192, N200 and N219						N35, N192, N200 and N219	Here we have investigated the effect of N-glycosylation (at N35, N192, N200 and N219) and mono-ubiquitination (at K178) of PD-L1 on the interaction with BMS-202 by molecular modeling.
32871472	5	5	gly	N-glycosylation	571:585	arg1	N35			N35, N192, N200 and N219						N35, N192, N200 and N219	Here we have investigated the effect of N-glycosylation (at N35, N192, N200 and N219) and mono-ubiquitination (at K178) of PD-L1 on the interaction with BMS-202 by molecular modeling.
32871472	5	5	gly	N-glycosylation	571:585	arg2	N200			N35, N192, N200 and N219						N35, N192, N200 and N219	Here we have investigated the effect of N-glycosylation (at N35, N192, N200 and N219) and mono-ubiquitination (at K178) of PD-L1 on the interaction with BMS-202 by molecular modeling.
32871472	5	5	gly	N-glycosylation	571:585	arg1	N192			N35, N192, N200 and N219						N35, N192, N200 and N219	Here we have investigated the effect of N-glycosylation (at N35, N192, N200 and N219) and mono-ubiquitination (at K178) of PD-L1 on the interaction with BMS-202 by molecular modeling.
32871472	5	5	gly	N-glycosylation	571:585	arg2	N35			N35, N192, N200 and N219						N35, N192, N200 and N219	Here we have investigated the effect of N-glycosylation (at N35, N192, N200 and N219) and mono-ubiquitination (at K178) of PD-L1 on the interaction with BMS-202 by molecular modeling.
32871472	5	5	gly	N-glycosylation	571:585	arg2	N219			N35, N192, N200 and N219						N35, N192, N200 and N219	Here we have investigated the effect of N-glycosylation (at N35, N192, N200 and N219) and mono-ubiquitination (at K178) of PD-L1 on the interaction with BMS-202 by molecular modeling.
32871472	5	5	gly	N-glycosylation	571:585	arg1	PD-L1	PD-L1		N35, N192, N200 and N219		PUBTATOR		PD-L1	29126	N35, N192, N200 and N219	Here we have investigated the effect of N-glycosylation (at N35, N192, N200 and N219) and mono-ubiquitination (at K178) of PD-L1 on the interaction with BMS-202 by molecular modeling.
32871472	5	5	gly	N-glycosylation	571:585	arg1	N35			N35, N192, N200 and N219						N35, N192, N200 and N219	Here we have investigated the effect of N-glycosylation (at N35, N192, N200 and N219) and mono-ubiquitination (at K178) of PD-L1 on the interaction with BMS-202 by molecular modeling.
32871472	5	5	gly	N-glycosylation	571:585	arg2	N200			N35, N192, N200 and N219						N35, N192, N200 and N219	Here we have investigated the effect of N-glycosylation (at N35, N192, N200 and N219) and mono-ubiquitination (at K178) of PD-L1 on the interaction with BMS-202 by molecular modeling.
32871472	5	5	gly	N-glycosylation	571:585	arg1	N192			N35, N192, N200 and N219						N35, N192, N200 and N219	Here we have investigated the effect of N-glycosylation (at N35, N192, N200 and N219) and mono-ubiquitination (at K178) of PD-L1 on the interaction with BMS-202 by molecular modeling.
32871472	5	5	gly	N-glycosylation	571:585	arg2	N35			N35, N192, N200 and N219						N35, N192, N200 and N219	Here we have investigated the effect of N-glycosylation (at N35, N192, N200 and N219) and mono-ubiquitination (at K178) of PD-L1 on the interaction with BMS-202 by molecular modeling.
32871472	5	5	gly	N-glycosylation	571:585	arg2	N219			N35, N192, N200 and N219						N35, N192, N200 and N219	Here we have investigated the effect of N-glycosylation (at N35, N192, N200 and N219) and mono-ubiquitination (at K178) of PD-L1 on the interaction with BMS-202 by molecular modeling.
32871472	5	5	gly	N-glycosylation	571:585	arg1	PD-L1	PD-L1		N35, N192, N200 and N219		PUBTATOR		PD-L1	29126	N35, N192, N200 and N219	Here we have investigated the effect of N-glycosylation (at N35, N192, N200 and N219) and mono-ubiquitination (at K178) of PD-L1 on the interaction with BMS-202 by molecular modeling.
32871472	5	5	gly	N-glycosylation	571:585	arg2	N200			N35, N192, N200 and N219						N35, N192, N200 and N219	Here we have investigated the effect of N-glycosylation (at N35, N192, N200 and N219) and mono-ubiquitination (at K178) of PD-L1 on the interaction with BMS-202 by molecular modeling.
32871472	5	5	gly	N-glycosylation	571:585	arg1	N192			N35, N192, N200 and N219						N35, N192, N200 and N219	Here we have investigated the effect of N-glycosylation (at N35, N192, N200 and N219) and mono-ubiquitination (at K178) of PD-L1 on the interaction with BMS-202 by molecular modeling.
32871472	5	5	gly	N-glycosylation	571:585	arg2	N35			N35, N192, N200 and N219						N35, N192, N200 and N219	Here we have investigated the effect of N-glycosylation (at N35, N192, N200 and N219) and mono-ubiquitination (at K178) of PD-L1 on the interaction with BMS-202 by molecular modeling.
32871472	5	5	gly	N-glycosylation	571:585	arg2	N219			N35, N192, N200 and N219						N35, N192, N200 and N219	Here we have investigated the effect of N-glycosylation (at N35, N192, N200 and N219) and mono-ubiquitination (at K178) of PD-L1 on the interaction with BMS-202 by molecular modeling.
32871472	5	5	gly	N-glycosylation	571:585	arg1	PD-L1	PD-L1		N35, N192, N200 and N219		PUBTATOR		PD-L1	29126	N35, N192, N200 and N219	Here we have investigated the effect of N-glycosylation (at N35, N192, N200 and N219) and mono-ubiquitination (at K178) of PD-L1 on the interaction with BMS-202 by molecular modeling.
32871472	5	5	gly	N-glycosylation	571:585	arg1	N192			N35, N192, N200 and N219						N35, N192, N200 and N219	Here we have investigated the effect of N-glycosylation (at N35, N192, N200 and N219) and mono-ubiquitination (at K178) of PD-L1 on the interaction with BMS-202 by molecular modeling.
32871472	5	5	gly	N-glycosylation	571:585	arg2	N35			N35, N192, N200 and N219						N35, N192, N200 and N219	Here we have investigated the effect of N-glycosylation (at N35, N192, N200 and N219) and mono-ubiquitination (at K178) of PD-L1 on the interaction with BMS-202 by molecular modeling.
32871472	5	5	gly	N-glycosylation	571:585	arg2	N219			N35, N192, N200 and N219						N35, N192, N200 and N219	Here we have investigated the effect of N-glycosylation (at N35, N192, N200 and N219) and mono-ubiquitination (at K178) of PD-L1 on the interaction with BMS-202 by molecular modeling.
32871472	5	5	gly	N-glycosylation	571:585	arg1	PD-L1	PD-L1		N35, N192, N200 and N219		PUBTATOR		PD-L1	29126	N35, N192, N200 and N219	Here we have investigated the effect of N-glycosylation (at N35, N192, N200 and N219) and mono-ubiquitination (at K178) of PD-L1 on the interaction with BMS-202 by molecular modeling.
32871472	5	5	gly	N-glycosylation	571:585	arg2	N35			N35, N192, N200 and N219						N35, N192, N200 and N219	Here we have investigated the effect of N-glycosylation (at N35, N192, N200 and N219) and mono-ubiquitination (at K178) of PD-L1 on the interaction with BMS-202 by molecular modeling.
32871472	5	5	gly	N-glycosylation	571:585	arg2	N219			N35, N192, N200 and N219						N35, N192, N200 and N219	Here we have investigated the effect of N-glycosylation (at N35, N192, N200 and N219) and mono-ubiquitination (at K178) of PD-L1 on the interaction with BMS-202 by molecular modeling.
32871472	5	5	gly	N-glycosylation	571:585	arg1	PD-L1	PD-L1		N35, N192, N200 and N219		PUBTATOR		PD-L1	29126	N35, N192, N200 and N219	Here we have investigated the effect of N-glycosylation (at N35, N192, N200 and N219) and mono-ubiquitination (at K178) of PD-L1 on the interaction with BMS-202 by molecular modeling.
32871472	5	5	gly	N-glycosylation	571:585	arg2	N219			N35, N192, N200 and N219						N35, N192, N200 and N219	Here we have investigated the effect of N-glycosylation (at N35, N192, N200 and N219) and mono-ubiquitination (at K178) of PD-L1 on the interaction with BMS-202 by molecular modeling.
32871472	5	5	gly	N-glycosylation	571:585	arg1	PD-L1	PD-L1		N35, N192, N200 and N219		PUBTATOR		PD-L1	29126	N35, N192, N200 and N219	Here we have investigated the effect of N-glycosylation (at N35, N192, N200 and N219) and mono-ubiquitination (at K178) of PD-L1 on the interaction with BMS-202 by molecular modeling.
32871472	5	5	gly	N-glycosylation	571:585	arg1	PD-L1	PD-L1		N35, N192, N200 and N219		PUBTATOR		PD-L1	29126	N35, N192, N200 and N219	Here we have investigated the effect of N-glycosylation (at N35, N192, N200 and N219) and mono-ubiquitination (at K178) of PD-L1 on the interaction with BMS-202 by molecular modeling.
32767150	8	36	gly	O-glycosylation	957:971	arg1	CGB7	CGB7				PUBTATOR		CGB7	94027		We found that N- and O-glycosylation patterns of CGB7 and CGB3/5/8 are quite similar.
32767150	8	36	gly	O-glycosylation	957:971	arg1	CGB3/5/8	CGB3/5/8				PUBTATOR		CGB3	1082		We found that N- and O-glycosylation patterns of CGB7 and CGB3/5/8 are quite similar.
34757822	6	16	gly	fucosylated	975:985	arg1	fucosylated HMOs	fucosylated HMOs				OGER		HMOs	P00540		One isolate, B. pseudocatenulatum MP80, which uniquely possessed GH95 and GH29 α-fucosidases, consumed the majority of fucosylated HMOs tested.
34113353	1	1	gly	attached	111:118	arg1	IgG AND Glycans	IgG			Glycans	PUBTATOR		IgG	668542		Glycans attached to immunoglobulin G (IgG) directly affect this antibody effector functions and regulate inflammation at several levels.
34113353	1	1	gly	attached	111:118	arg1	immunoglobulin G AND Glycans	immunoglobulin G			Glycans	Cterm		immunoglobulin G			Glycans attached to immunoglobulin G (IgG) directly affect this antibody effector functions and regulate inflammation at several levels.
33648177	6	4	part_of	Galp	841:844	arg1	terminal Manp residues	Galp		terminal Manp residues		OGER	Site	Galp	Q9UBC7	residues	Trace amount of 1,4-linked Glcp, terminal Galp, terminal Glcp and terminal Manp residues might attached to the 1,6-linked galactan through O-3 or 1,4-linked galactan through O-6 as side chains.
33688734	5	39	gly	positions	1091:1099	arg1	GlcN residues			positions	GlcN residues					positions	We propose that this specific composition of glucosamine (GlcN) and N-acetylglucosamine (GlcNAc) residues, as in GlcN(GlcNAc1, is due to a subsite specificity toward GlcN residues at the -2, -3, and -4 positions of the partially acetylated chitosan substrates.
33977722	2	4	gly	fucosylation	308:319	arg1	the Fc domain N-glycans				the Fc domain N-glycans						It is well established that core fucosylation of the Fc domain N-glycans of an antibody significantly reduces its affinity for FcγRIIIa receptors and antibody-dependent cellular cytotoxicity (ADCC).
33977722	2	61	gly	domain	331:336	arg1	the Fc domain N-glycans				the Fc domain N-glycans						It is well established that core fucosylation of the Fc domain N-glycans of an antibody significantly reduces its affinity for FcγRIIIa receptors and antibody-dependent cellular cytotoxicity (ADCC).
33689337	3	77	gly	protein	754:760	arg1	glycan functions	S protein			glycan functions	PUBTATOR		S protein	Q15517		In this work, multiple μs-long all-atom molecular dynamics simulations were performed to provide deeper insights into the structure and dynamics of S protein and glycan functions.
33915325	0	41	part_of	IgG1	48:51	arg1	CH2 domain	IgG1		CH2 domain		OGER	Site	IgG1	P01857	domain	Abolition of aggregation of CH2 domain of human IgG1 when combining glycosylation and protein stabilization.
32280962	3	50	gly	PSG1	528:531	arg1	the glycan composition	PSG1			the glycan composition	PUBTATOR		PSG1	5669		We carried out glycomic and glycoproteomic studies to characterize the glycan composition of PSG1 purified from serum of pregnant women and identified the presence of complex N-glycans containing poly LacNAc epitopes with α2,3 sialyation at four sites.
33889819	5	22	gly	hypersialylated	943:957	arg1	hypersialylated complex N-glycans				hypersialylated complex N-glycans						Mass spectrometry-based glycomic analyses of individual serum glycoproteins enabled to unveil hypersialylated complex N-glycans comprising up to two sialic acids per antenna.
33889819	5	44	gly	glycoproteins	911:923	arg1	individual serum glycoproteins	individual serum glycoproteins				Fterm		glycoproteins	6927		Mass spectrometry-based glycomic analyses of individual serum glycoproteins enabled to unveil hypersialylated complex N-glycans comprising up to two sialic acids per antenna.
32767150	2	51	gly	glycosylated	282:293	arg1	two highly glycosylated subunits	two highly glycosylated subunits				Fterm		subunits			hCG is a dimer consisting of two highly glycosylated subunits, alpha (CGA) and beta (CGB).
34757822	4	21	gly	fucosylated	715:725	arg1	fucosylated HMOs	fucosylated HMOs				OGER		HMOs	P00540		During growth on pooled human milk oligosaccharides (HMOs), we observed two distinct groups of B. pseudocatenulatum, isolates that readily consumed HMOs and those that did not, a difference driven by variable catabolism of fucosylated HMOs.
33065977	3	25	gly	N-glycosylation	414:428	arg1	IgG	IgG				Cterm		IgG			We investigated individual variation in N-glycosylation of the total plasma proteome and of IgG in MS. Both plasma protein and IgG N-glycans were chromatographically profiled and quantified in 83 MS cases and 88 age- and sex-matched controls.
33064451	3	74	gly	N-glycosylation	527:541	arg1	the SARS-CoV-2 spike proteins	the SARS-CoV-2 spike proteins				PUBTATOR		spike proteins	43740568		We conducted a comprehensive mass spectrometric analysis of the N-glycosylation profiles of the SARS-CoV-2 spike proteins using signature ions-triggered electron-transfer/higher-energy collision dissociation (EThcD) mass spectrometry.
34328324	1	7	gly	glycosylated	218:229	arg1	an extensively glycosylated surface spike (S) protein	an extensively glycosylated surface spike (S) protein				Fterm		protein			Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) utilizes an extensively glycosylated surface spike (S) protein to mediate host cell entry, and the S protein glycosylation plays key roles in altering the viral binding/function and infectivity.
32788422	5	63	gly	N-glycosylation	611:625	arg1	IgG	IgG				PUBTATOR		IgG	668542		Here we present population-specific N-glycosylation patterns of IgG, analyzed in 5 different populations totaling 10,482 IgG glycomes, and of IgG's fragment crystallizable region (Fc), analyzed in 2,579 samples from 27 populations sampled across the world.
32155332	1	23	part_of	mucin	168:172	arg1	circulating mucin fragments	mucin		circulating mucin fragments		PUBTATOR	Site	mucin	100508689	fragments	Autoantibody signatures of circulating mucin fragments stem from cancer tissues, and microenvironments are promising biomarkers for cancer diagnosis and therapy.
33937925	4	110	gly	glycosylation	942:954	arg2	the 8, 12, and 11 potential glycosylation sites			the 8, 12, and 11 potential glycosylation sites						sites	Of the 8, 12, and 11 potential glycosylation sites on the HAs of H1N1, H3N2, and B strains, respectively, most were highly occupied.
32484800	4	56	gly	sialylation	726:736	arg1	their N-linked glycans				their N-linked glycans						We previously reported that among hundreds of PrPC sialoglycoforms expressed by a cell, individual prion strains recruited PrPC molecules selectively, according to the sialylation status of their N-linked glycans.
34044019	6	49	part_of	Fc	1271:1272	arg1	an afucosylated Fc region	Fc		an afucosylated Fc region		Cterm	Site	Fc		region	By probing differences in solvent accessibility between native and afucosylated immunoglobulin G1 (IgG1) using hydroxyl radical footprinting-MS, we provide the first solution-phase evidence that an IgG1 bearing an afucosylated Fc region appears to require fewer conformational changes for FcγRIIIa binding.
33423189	0	30	gly	glycoprotein	80:91	arg1	mouse immunoglobulin G2b glycoprotein	mouse immunoglobulin G2b glycoprotein				Fterm		glycoprotein			NMR assignments of the N-glycans of the Fc fragment of mouse immunoglobulin G2b glycoprotein.
33423189	0	41	gly	fragment	43:50	arg1	the N-glycans			fragment	the N-glycans					fragment	NMR assignments of the N-glycans of the Fc fragment of mouse immunoglobulin G2b glycoprotein.
32576591	2	54	gly	glycopeptides	317:329	arg2	glycopeptides			glycopeptides						glycopeptides	Our ability to generate rich fragmentation of glycopeptides has dramatically improved over the last decade yet our informatic approaches still lag behind.
34328324	0	97	gly	Heterogeneity	23:35	arg1	the SARS-CoV-2 Spike Protein Receptor-Binding Domain	the SARS-CoV-2 Spike Protein Receptor-Binding Domain				Fterm		Domain			Structural O-Glycoform Heterogeneity of the SARS-CoV-2 Spike Protein Receptor-Binding Domain Revealed by Top-Down Mass Spectrometry.
33352114	6	5	part_of	glycoprotein	897:908	arg1	glycoprotein residues	glycoprotein		glycoprotein residues		Fterm	Site	glycoprotein		residues	Frequency distributions of distances between glycoprotein residues and their closest N-linked glycosylation sites in glycoprotein crystal structures suggests relevance of the Parodi limit to UGGT activity in vivo.
34161137	4	48	gly	glycoproteins	691:703	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			Using multiple human cell lines, we show that depletion of GARP subunits impairs Golgi modification of N- and O-glycans and reduces the stability of glycoproteins and Golgi enzymes.
32568201	2	32	gly	glycosylated	340:351	arg1	CSF	CSF				OGER		CSF			In cerebrospinal fluid (CSF), apoE is heavily glycosylated.
32568201	2	32	gly	glycosylated	340:351	arg1	apoE	apoE				PUBTATOR		apoE	348		In cerebrospinal fluid (CSF), apoE is heavily glycosylated.
33895177	3	31	part_of	AF1	709:711	arg1	the composites	AF1		the composites		PUBTATOR	Site	AF1	1946	composites	Moreover, due to the tubular structure, the loaded silver content of the composites (AgNPs and AF1 nanotube, AF1-Ag) could reach about 50% by thermogravimetric analysis (TG) evaluation.
34834161	9	56	gly	N-glycosites	1791:1802	arg2	Fab N-glycosites			Fab N-glycosites						N-glycosites	These findings suggest that Fab N-glycosites have higher accessibility to enzymes responsible for glycan maturation.
34669426	2	27	gly	glycosylation	400:412	arg2	missing potential N-linked glycosylation sites			missing potential N-linked glycosylation sites						sites	The absence of conserved glycans, due to missing potential N-linked glycosylation sites (PNGS), can result in strain-specific, autologous neutralizing antibody (NAb) responses.
34662214	5	23	gly	fucosylated	1108:1118	arg1	fucosylated and high mannose structures				fucosylated and high mannose structures						Here, we utilize N-glycan profiling by nanoLC-chip QTOF mass cytometry to characterize the bacterial neuraminidase-associated compositional shift of the macrophage glycocalyx, which revealed a decrease in sialylated and an increase in fucosylated and high mannose structures.
32433878	1	2	gly	glycosylation	220:232	arg1	ECM	ECM				OGER		ECM	Q13201		Glycans play a central role in the development and homeostasis of the central nervous system (CNS), so changes in the glycosylation profile of the cell surface and extracellular matrix (ECM) components are evident in CNS disorders.
33303137	0	13	gly	receptor	58:65	arg1	intact glycopeptides			intact glycopeptides	intact glycopeptides		Site			glycopeptides	Comparative analysis of intact glycopeptides from mannose receptor among different breast cancer subtypes using mass spectrometry.
33303137	0	61	gly	glycopeptides	31:43	arg1	mannose receptor			glycopeptides	mannose receptor					glycopeptides	Comparative analysis of intact glycopeptides from mannose receptor among different breast cancer subtypes using mass spectrometry.
33196194	10	36	gly	unglycosylated	1264:1277	arg1	unglycosylated peptides			unglycosylated peptides						peptides	Moreover, unglycosylated peptides were also observed at a level of 1-2%.
31829411	8	73	gly	N-glycoforms	1954:1965	arg1	high potency IgG1 Fc N-glycoforms	high potency IgG1 Fc N-glycoforms				OGER		IgG1	P01857		These results provide an atomistic level-of-detail framework for the design of high potency IgG1 Fc N-glycoforms.
34424752	3	47	gly	N-linked	744:751	arg1	an abundant glycan structure	N-linked			an abundant glycan structure	Cterm		N-linked			The GH18 catalytic domain is present in proteins that are classified as either chitinases or β-1,4 endo-β-N-acetylglucosaminidases (ENGases) based on their β-1,4 endo-N-acetyl-β-d-glucosaminidase activity, and ENGase activity is commonly associated with cleaving N-linked glycoprotein, an abundant glycan structure on host epithelial surfaces.
34424752	3	32	gly	glycoprotein	753:764	arg1	cleaving N-linked glycoprotein	glycoprotein			an abundant glycan structure	Fterm		glycoprotein			The GH18 catalytic domain is present in proteins that are classified as either chitinases or β-1,4 endo-β-N-acetylglucosaminidases (ENGases) based on their β-1,4 endo-N-acetyl-β-d-glucosaminidase activity, and ENGase activity is commonly associated with cleaving N-linked glycoprotein, an abundant glycan structure on host epithelial surfaces.
33566602	3	36	part_of	proteins	601:608	arg1	46 N-glycosites	proteins		46 N-glycosites		Fterm	Site	proteins		N-glycosites	In total, 399 N-glycosites corresponding to 198 proteins were identified, of which 46 N-glycosites from 30 proteins were significantly altered.
33774232	7	59	part_of	WO3/N-CQDs	1175:1184	arg1	The best performance composite	CQDs EDA 2		The best performance composite		OGER	Site	CQDs EDA 2	Q92838	composite	The best performance composite is WO3/N-CQDs EDA 2.5% with an efficiency of 96.86%, removal rate constant of 0.02017/min, and chemical oxidation demand (COD) removal efficiency achieved 84.61%.
32126781	2	64	gly	glycopeptides	379:391	arg2	glycopeptides			glycopeptides						glycopeptides	This includes MS/MS-based structural interrogation of glycopeptides for applications in glycoproteomics.
32045434	18	91	gly	hCG-related	2436:2446	arg1	hCG-related bisected type N-glycans	hCG			hCG-related bisected type N-glycans	OGER		hCG			hCG isolated from pregnancy urine inhibits NK cell cytotoxicity in vitro at nanomolar levels and bisected type glycans have previously been implicated in the suppression of NK cell cytotoxicity, suggesting that hCG-related bisected type N-glycans may directly suppress NK cell cytotoxicity.
34925422	2	4	gly	N-glycoproteins	321:335	arg1	N-glycoproteins	N-glycoproteins				Fterm		N-glycoproteins			Here, N-glycoproteomic and N-glycomic approaches were used to unveil the N-glycoproteins and N-glycans in the model diatom Phaeodactylum tricornutum.
32335838	8	58	gly	used	1430:1433	arg2	BNC-CaCO3 composite			BNC-CaCO3 composite						composite	Overall, the above results suggest that cellulose produced by K. xylinus strain SGP8 showed excellent material properties, and modified BNC (BNC-CaCO3 composite) could effectively be used for remediation of toxic levels of Cd from the contaminated system.
33142561	1	28	gly	hyaluronan	221:230	arg1	the hyaluronan carbohydrate structure	hyaluronan binding protein			the hyaluronan carbohydrate structure	PUBTATOR		hyaluronan binding protein	3026		Hyaluronan specifically binds to aggrecan globular domain 1, which is often referred to as just hyaluronan binding protein (HABP), however, the hyaluronan carbohydrate structure recognized by HABP had not been studied in detail.
33142561	1	30	gly	binding	232:238	arg1	the hyaluronan carbohydrate structure	hyaluronan binding protein			the hyaluronan carbohydrate structure	PUBTATOR		hyaluronan binding protein	3026		Hyaluronan specifically binds to aggrecan globular domain 1, which is often referred to as just hyaluronan binding protein (HABP), however, the hyaluronan carbohydrate structure recognized by HABP had not been studied in detail.
32194116	4	29	gly	glycoproteins	690:702	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			GSPS, GSF1, GSF2 and GSF3 were suggested to be proteopolysaccharides or glycoproteins.
33278948	4	52	part_of	Cast	374:377	arg1	Cast nanocomposites	Cast		Cast nanocomposites		OGER	Site	Cast	P20810	nanocomposites	Cast nanocomposites were fabricated with plant engineered pure amylose (AM), produced in bulk quantity in transgenic barley grain, and cellulose nanofibers (CNF), extracted from agrowaste sugar beet pulp.
32578950	1	20	gly	glycoproteins	206:218	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			To investigate glycans' influence on the behavior of glycoproteins on charged surfaces, avidin and its nonglycosylated and neutralized version neutravidin were studied by label-free chronopotentiometric stripping (CPS) analysis and alternating current voltammetry combined with a mercury electrode.
32578950	1	24	gly	nonglycosylated	256:270	arg1	its nonglycosylated and neutralized version neutravidin	its nonglycosylated and neutralized version neutravidin				Fterm		neutravidin			To investigate glycans' influence on the behavior of glycoproteins on charged surfaces, avidin and its nonglycosylated and neutralized version neutravidin were studied by label-free chronopotentiometric stripping (CPS) analysis and alternating current voltammetry combined with a mercury electrode.
33300874	7	43	gly	N-glycosylation	1103:1117	arg1	flagellar proteins	flagellar proteins				Fterm		proteins			Thus, we conclude that proper N-glycosylation of flagellar proteins is crucial for adhering C. reinhardtii cells onto surfaces, indicating that N-glycans mediate surface adhesion via direct surface contact.
32216024	10	106	gly	heterogeneity	1932:1944	arg1	the polysaccharide containing biopolymers				the polysaccharide containing biopolymers						The heterogeneity of the polysaccharide containing biopolymers of the H. lusitanum P6-12 surface is probably conditioned by their different functions in plant colonization and formation of an efficient symbiosis, as well as in cell adaptation to existence in plant tissues.
32501643	10	43	gly	APOE	1342:1345	arg1	the negatively charged sialic acid-containing glycan residue	APOE			the negatively charged sialic acid-containing glycan residue	PUBTATOR		APOE	348		The electrostatic force between the negatively charged sialic acid-containing glycan residue of APOE and positively charged amino acids at the receptor-binding area suggested that glycosylation interferes with APOE's attraction to receptors, lipid-binding ability, and lipid transportation and metabolism functions.
32016408	0	22	gly	Protein	91:97	arg1	Cell Wall Composition	Protein			Cell Wall Composition	Fterm		Protein			Cell Wall Composition and Ultrastructural Immunolocalization of Pectin and Arabinogalactan Protein during Olea europaea L. Fruit Abscission.
34389709	4	36	gly	peptide	812:818	arg1	the peptide and saccharide chains				the peptide and saccharide chains						The resultant vinyl C-glycosyl amino acids and peptides, which bear common O/N-protecting groups, are amenable to further transformations, including elongation of the peptide and saccharide chains.
34921890	6	92	gly	glycoproteins	1134:1146	arg1	carbohydrate-binding glycoproteins				carbohydrate-binding glycoproteins						Comparative analysis of transcriptomes of L. edodes vegetative mycelium, fruiting body and primordium revealed the presence of carbohydrate-binding glycoproteins (lectins) specific for each stage of basidiomycete morphogenesis.
32623356	7	26	gly	N-glycosylation	919:933	arg1	HMGB1	HMGB1				PUBTATOR		HMGB1	3146		Here we have investigated the effect of the N-glycosylation of HMGB1 on its interaction with GLR using molecular modelling, after incorporation of three N-glycans on a Human HMGB1 structure (PDB code 2YRQ).
33376194	2	62	gly	glycoproteins	275:287	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			Among these analytes, glycans released from glycoproteins and glycolipids have been characterized as underivatized or fluorescently tagged derivatives by HPLC coupled to various detection methods.
33376194	2	81	gly	released	261:268	arg2	glycoproteins AND glycans	glycoproteins			glycans	Fterm		glycoproteins			Among these analytes, glycans released from glycoproteins and glycolipids have been characterized as underivatized or fluorescently tagged derivatives by HPLC coupled to various detection methods.
34543843	1	16	gly	glycoproteins	187:199	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			Glycosylation plays a crucial role in the folding, structure, quality control and trafficking of glycoproteins.
33439436	2	56	gly	glycosylated	364:375	arg1	Ara h 1 (63 kDa)				Ara h 1 (63 kDa)						The molecular characterization of Ara h 1 (63 kDa), a glycosylated allergen, has almost been completed, and the occurrence of two homologous genes (clone 41B and clone P17) has been identified.
32423029	2	19	part_of	proteins	439:446	arg1	large extracellular domains	proteins		large extracellular domains		Fterm	Site	proteins		domains	Notch receptors are type-I transmembrane proteins with large extracellular domains (ECD), containing 29-36 epidermal growth factor-like (EGF) repeats.
34056088	3	60	gly	glycoprotein	564:575	arg1	spike glycoprotein production	spike glycoprotein production				PUBTATOR		spike glycoprotein	43740568		Viral spikes carry glycans that facilitate immune evasion by shielding specific protein epitopes from antibody neutralization, and antigen efficacy is influenced by spike glycoprotein production in vivo.
34698497	2	48	gly	heterogeneity	365:377	arg1	cell surface glycans				cell surface glycans						The revelation of glycosylation-mediated regulation mechanisms of biological processes relies critically on the tools that can reflect the spatial heterogeneity of cell surface glycans, for example, distinguishing glycans exhibited in lipid raft or nonraft domains.
33262351	2	3	gly	heterogeneity	304:316	arg1	HGSC	HGSC				OGER		HGSC	P56915		To investigate the roles of protein glycosylation in the heterogeneity of high-grade serous ovarian carcinoma (HGSC), we perform mass spectrometry-based glycoproteomic characterization of 119 TCGA HGSC tissues.
33262351	2	56	gly	glycosylation	283:295	arg1	HGSC	HGSC				OGER		HGSC	P56915		To investigate the roles of protein glycosylation in the heterogeneity of high-grade serous ovarian carcinoma (HGSC), we perform mass spectrometry-based glycoproteomic characterization of 119 TCGA HGSC tissues.
33871970	7	38	gly	fucosylation	1250:1261	arg1	sialylation				sialylation						The data showed distinct glycosylation for CHO- and HEK293-RBD with the latter exhibiting antenna fucosylation, a higher level of sialylation, and a combination of core 1 and core 2 type O-glycans.
33871970	7	38	gly	fucosylation	1250:1261	arg1	core 1 and core 2 type O-glycans				core 1 and core 2 type O-glycans						The data showed distinct glycosylation for CHO- and HEK293-RBD with the latter exhibiting antenna fucosylation, a higher level of sialylation, and a combination of core 1 and core 2 type O-glycans.
33761173	6	9	gly	glycoprotein	1091:1102	arg1	purified glycoprotein Support Protocol 1	purified glycoprotein Support Protocol 1				Fterm		glycoprotein			Basic Protocol 1: Characterization of glycans and site occupancy on purified glycoprotein Support Protocol 1: In-gel digestion of glycoproteins Support Protocol 2: Detection of glycoproteins from cells/tissue through glycopeptide enrichment Basic Protocol 2: Acquisition of glycopeptides through high-resolution nano-LC-MS/MS Basic Protocol 3: Identification and quantification of glycopeptides using GlycReSoft.
33761173	6	63	gly	glycopeptides	1288:1300	arg2	glycopeptides			glycopeptides						glycopeptides	Basic Protocol 1: Characterization of glycans and site occupancy on purified glycoprotein Support Protocol 1: In-gel digestion of glycoproteins Support Protocol 2: Detection of glycoproteins from cells/tissue through glycopeptide enrichment Basic Protocol 2: Acquisition of glycopeptides through high-resolution nano-LC-MS/MS Basic Protocol 3: Identification and quantification of glycopeptides using GlycReSoft.
33761173	6	73	gly	glycoproteins	1191:1203	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			Basic Protocol 1: Characterization of glycans and site occupancy on purified glycoprotein Support Protocol 1: In-gel digestion of glycoproteins Support Protocol 2: Detection of glycoproteins from cells/tissue through glycopeptide enrichment Basic Protocol 2: Acquisition of glycopeptides through high-resolution nano-LC-MS/MS Basic Protocol 3: Identification and quantification of glycopeptides using GlycReSoft.
33761173	6	81	gly	glycopeptide	1231:1242	arg2	glycopeptide enrichment Basic Protocol 2			glycopeptide enrichment Basic Protocol 2						glycopeptide	Basic Protocol 1: Characterization of glycans and site occupancy on purified glycoprotein Support Protocol 1: In-gel digestion of glycoproteins Support Protocol 2: Detection of glycoproteins from cells/tissue through glycopeptide enrichment Basic Protocol 2: Acquisition of glycopeptides through high-resolution nano-LC-MS/MS Basic Protocol 3: Identification and quantification of glycopeptides using GlycReSoft.
33761173	6	87	gly	glycopeptides	1395:1407	arg2	glycopeptides			glycopeptides						glycopeptides	Basic Protocol 1: Characterization of glycans and site occupancy on purified glycoprotein Support Protocol 1: In-gel digestion of glycoproteins Support Protocol 2: Detection of glycoproteins from cells/tissue through glycopeptide enrichment Basic Protocol 2: Acquisition of glycopeptides through high-resolution nano-LC-MS/MS Basic Protocol 3: Identification and quantification of glycopeptides using GlycReSoft.
33761173	6	89	gly	glycoproteins	1144:1156	arg1	glycoproteins Support Protocol 2	glycoproteins Support Protocol 2				Fterm		glycoproteins			Basic Protocol 1: Characterization of glycans and site occupancy on purified glycoprotein Support Protocol 1: In-gel digestion of glycoproteins Support Protocol 2: Detection of glycoproteins from cells/tissue through glycopeptide enrichment Basic Protocol 2: Acquisition of glycopeptides through high-resolution nano-LC-MS/MS Basic Protocol 3: Identification and quantification of glycopeptides using GlycReSoft.
34767672	4	12	gly	glycoproteins	813:825	arg1	these special glycoproteins	these special glycoproteins				Fterm		glycoproteins			Because arabinogalactan-proteins (AGPs) are considered common for all land plant cell walls, we were interested in whether these special glycoproteins are present in CGA.
32155332	0	56	gly	O-Glycosylation	9:23	arg2	Consecutive Threonine TTX Motifs			Consecutive Threonine TTX Motifs							Impaired O-Glycosylation at Consecutive Threonine TTX Motifs in Mucins Generates Conformationally Restricted Cancer Neoepitopes.
34335667	4	9	gly	GAA	740:742	arg1	The N-glycan composition	GAA			The N-glycan composition	PUBTATOR		GAA	2548		The N-glycan composition of the GAA consisted of a predominantly paucimannosidic structure, Man3GlcNAc2 (M3), without the plant-specific N-glycans.
34342671	0	57	gly	glycoproteins	132:144	arg1	other glycoproteins	glycoproteins			neutral N-glycans	Fterm		glycoproteins			Formation and fragmentation of doubly and triply charged ions in the negative ion spectra of neutral N-glycans from viral and other glycoproteins.
32743578	1	7	gly	glycosylated	187:198	arg1	its highly glycosylated trimeric Spike protein	its highly glycosylated trimeric Spike protein				PUBTATOR		Spike protein	43740568		The current COVID-19 pandemic is caused by the SARS-CoV-2 betacoronavirus, which utilizes its highly glycosylated trimeric Spike protein to bind to the cell surface receptor ACE2 glycoprotein and facilitate host cell entry.
32743578	1	27	gly	glycoprotein	265:276	arg1	the cell surface receptor ACE2 glycoprotein	the cell surface receptor ACE2 glycoprotein				PUBTATOR		ACE2 glycoprotein	59272		The current COVID-19 pandemic is caused by the SARS-CoV-2 betacoronavirus, which utilizes its highly glycosylated trimeric Spike protein to bind to the cell surface receptor ACE2 glycoprotein and facilitate host cell entry.
32321762	6	13	part_of	PrPC	1157:1160	arg1	Ser231	PrPC		Ser231		PUBTATOR	AminoAcid	PrPC	5621	Ser231	Gly229 in human PrPC does not correspond to Ser231, the previously reported ω site of Syrian hamster PrPC We found that ∼41% and 28% of GPI anchors in human PrPCs from human and knock-in mouse brains, respectively, have N-acetylneuraminic acid in the side chain.
32321762	6	13	part_of	PrPC	1157:1160	arg1	the previously reported ω site	PrPC		the previously reported ω site		PUBTATOR	Site	PrPC	5621	site	Gly229 in human PrPC does not correspond to Ser231, the previously reported ω site of Syrian hamster PrPC We found that ∼41% and 28% of GPI anchors in human PrPCs from human and knock-in mouse brains, respectively, have N-acetylneuraminic acid in the side chain.
32321762	6	30	part_of	Gly229	1056:1061	arg1	human PrPC	PrPC		Gly229		PUBTATOR	AminoAcid	PrPC	5621	Gly229	Gly229 in human PrPC does not correspond to Ser231, the previously reported ω site of Syrian hamster PrPC We found that ∼41% and 28% of GPI anchors in human PrPCs from human and knock-in mouse brains, respectively, have N-acetylneuraminic acid in the side chain.
34101384	6	5	gly	glycoprotein	1016:1027	arg1	glycoprotein samples	glycoprotein samples				Fterm		glycoprotein			Protocols for the preparation of glycoprotein samples and glycosylation analysis using NanoMonitor and lectin-based ELISA are described here.
32544320	6	40	gly	glycopeptides	889:901	arg2	glycopeptides			glycopeptides						glycopeptides	Comprehensive structural isomeric separation of glycopeptides was observed by high-resolution MS and confirmed by MS/MS.
31959207	6	61	part_of	hRSPO1	1129:1134	arg1	the hRSPO1 coding sequence	hRSPO1		the hRSPO1 coding sequence		PUBTATOR	Site	hRSPO1	284654	sequence	HEK293 cells were stably co-transfected with the recombinant expression vector containing the hRSPO1 coding sequence and a hygromycin resistance plasmid, selected for hygror and subjected to cell clones isolation.
33077685	3	46	part_of	SARS-CoV-2	482:491	arg1	the 753 SARS-CoV-2 genome sequences	753 SARS		the 753 SARS-CoV-2 genome sequences		OGER	Site	753 SARS	P49591	sequences	All 22 potential N-glycosites were identified in the S-protein protomer and were found to be preserved among the 753 SARS-CoV-2 genome sequences.
32517158	0	34	part_of	Endomucin	16:24	arg1	the Endomucin Extracellular Domain	Endomucin		the Endomucin Extracellular Domain		PUBTATOR		Endomucin	59308		Elements of the Endomucin Extracellular Domain Essential for VEGF-Induced VEGFR2 Activity.
32106961	4	47	gly	neutral/sialylated	914:931	arg1	the neutral/sialylated glycans				the neutral/sialylated glycans						Therefore, the neutral/sialylated glycans could be simultaneously enriched through the fluorous solid-phase extraction (FSPE) and quantified by mass spectrometry.
34669426	5	17	gly	subtypes	959:966	arg1	diverse SOSIP trimers	trimers			subtypes	Fterm		trimers			We also analyzed the highly variable NAb responses induced in rabbits by diverse SOSIP trimers from subtypes A, B, and C. Statistical analysis, using linear regression, revealed that the cumulative area exposed on a trimer by glycan holes correlates with the magnitude of the autologous NAb response.
32767150	0	45	gly	O-glycosylation	7:21	arg1	CGB7 versus CGB3/5/8 variants	CGB7 versus CGB3/5/8 variants				Fterm		variants			N- and O-glycosylation patterns and functional testing of CGB7 versus CGB3/5/8 variants of the human chorionic gonadotropin (hCG) beta subunit.
34876606	6	34	gly	glycans	1152:1158	arg1	all altered sequons			all altered sequons	all altered sequons						The S-614G variant showed a decrease in the relative abundance of complex-type glycans (up to 45%) and an increase in oligomannose glycans (up to 33%) on all altered sequons.
34069622	9	96	part_of	CS/HA	1767:1771	arg1	The CS/HA composite	CS/HA		The CS/HA composite		PUBTATOR	Site	CS/HA	1431	composite	The CS/HA composite showed an intermediate response.
32025672	2	64	gly	glycosylated	289:300	arg1	a glycosylated soybean protein	a glycosylated soybean protein				Fterm		protein			In this paper, a soybean protein isolate and maltose were used as raw materials to prepare a glycosylated soybean protein under gamma-ray treatment to improve the functional properties and evaluate the changes in the structure.
32125558	7	83	gly	sialylated	1227:1236	arg1	These resultant sialylated glycans				These resultant sialylated glycans						These resultant sialylated glycans exhibited more than approximately 14.5 times increase as compared to that of the wild type.
32929138	1	19	gly	glycoprotein	168:179	arg1	the spike (S) glycoprotein	the spike (S) glycoprotein				Fterm		glycoprotein			Here we have generated 3D structures of glycoforms of the spike (S) glycoprotein from SARS-CoV-2, based on reported 3D structures and glycomics data for the protein produced in HEK293 cells.
32929138	1	49	gly	glycoforms	140:149	arg1	the spike (S) glycoprotein	the spike (S) glycoprotein				Fterm		glycoprotein			Here we have generated 3D structures of glycoforms of the spike (S) glycoprotein from SARS-CoV-2, based on reported 3D structures and glycomics data for the protein produced in HEK293 cells.
33734311	3	21	gly	fucosylate	556:565	arg1	Man5GlcNAc2				Man5GlcNAc2						In contrast, we recently demonstrated that, in a proper protein context, FUT8 could also fucosylate Man5GlcNAc2 without a GlcNAc at the non-reducing end.
32828279	3	33	gly	sialylglycoproteins	525:543	arg1	sialylglycoproteins	sialylglycoproteins				Fterm		sialylglycoproteins			An endo-β-N-acetylglucosaminidase mutant Endo-CC N180H, which is developed as an excellent chemoenzymatic tool for creating sialylglycoproteins, was employed for the glycosylation of flavonoids.
32844281	7	59	gly	glycans	1270:1276	arg1	fetuin	fetuin			glycans	Fterm		fetuin			Optimization of the modified method resulted in 20-100 times greater peak areas for the detected N-linked glycans in fetuin and horseradish peroxidase compared with the standard method.
32844281	7	59	gly	glycans	1270:1276	arg1	horseradish peroxidase	peroxidase			glycans	Fterm		peroxidase			Optimization of the modified method resulted in 20-100 times greater peak areas for the detected N-linked glycans in fetuin and horseradish peroxidase compared with the standard method.
34726315	6	16	gly	sugars	1181:1186	arg1	glcat14a/b	glcat14a/b			sugars	PUBTATOR		glcat14a/b	833996		Monosaccharide composition analysis revealed significant reductions in all sugars in glcat14a/b and glcat14a/b/c mutants except for arabinose and galactose, while immunolabeling showed decreased amounts of AGP sugar epitopes recognized by glcat14a/b and glcat14a/b/c mutants compared with the wild type.
34726315	6	23	gly	epitopes	1322:1329	arg1	AGP sugar epitopes				AGP sugar epitopes						Monosaccharide composition analysis revealed significant reductions in all sugars in glcat14a/b and glcat14a/b/c mutants except for arabinose and galactose, while immunolabeling showed decreased amounts of AGP sugar epitopes recognized by glcat14a/b and glcat14a/b/c mutants compared with the wild type.
32483376	5	53	gly	receptor	993:1000	arg1	this two-step glycan-editing approach	opioid receptor delta 1			this two-step glycan-editing approach	PUBTATOR		opioid receptor delta 1	O00548		Using a combination of the expression system of the Lec4 CHO cell line and this two-step glycan-editing approach, opioid receptor delta 1 (OPRD1) was investigated to correlate its glycostructures with the biological functions of receptor dimerization, agonist-induced signaling and internalization.
32483376	5	54	gly	opioid	986:991	arg1	this two-step glycan-editing approach	opioid receptor delta 1			this two-step glycan-editing approach	PUBTATOR		opioid receptor delta 1	O00548		Using a combination of the expression system of the Lec4 CHO cell line and this two-step glycan-editing approach, opioid receptor delta 1 (OPRD1) was investigated to correlate its glycostructures with the biological functions of receptor dimerization, agonist-induced signaling and internalization.
32102970	10	46	gly	glycoproteins	1758:1770	arg1	526 N-linked glycoproteins	526 N-linked glycoproteins				Fterm		glycoproteins			In total, 526 N-linked glycoproteins, 1036 N-linked glycosites, 22,677 N-linked intact glycopeptides and 738 N-glycan masses were identified under 1% FDR, representing the most in-depth serum N-glycoproteome identified by LC-MS/MS at N-linked intact glycopeptide level.
32102970	10	99	gly	glycopeptide	1985:1996	arg2	N-linked intact glycopeptide level			N-linked intact glycopeptide level						glycopeptide	In total, 526 N-linked glycoproteins, 1036 N-linked glycosites, 22,677 N-linked intact glycopeptides and 738 N-glycan masses were identified under 1% FDR, representing the most in-depth serum N-glycoproteome identified by LC-MS/MS at N-linked intact glycopeptide level.
32102970	10	101	gly	glycopeptides	1822:1834	arg2	22,677 N-linked intact glycopeptides			22,677 N-linked intact glycopeptides						glycopeptides	In total, 526 N-linked glycoproteins, 1036 N-linked glycosites, 22,677 N-linked intact glycopeptides and 738 N-glycan masses were identified under 1% FDR, representing the most in-depth serum N-glycoproteome identified by LC-MS/MS at N-linked intact glycopeptide level.
32102970	10	107	gly	glycosites	1787:1796	arg2	1036 N-linked glycosites			1036 N-linked glycosites						glycosites	In total, 526 N-linked glycoproteins, 1036 N-linked glycosites, 22,677 N-linked intact glycopeptides and 738 N-glycan masses were identified under 1% FDR, representing the most in-depth serum N-glycoproteome identified by LC-MS/MS at N-linked intact glycopeptide level.
32321401	4	69	gly	glycoproteins	773:785	arg1	the five high abundant serum glycoproteins	the five high abundant serum glycoproteins				Fterm		glycoproteins			METHODS The N-glycan pool of human serum and the five high abundant serum glycoproteins were analyzed.
32799357	0	102	gly	derived	147:153	arg2	pectin AND xyloglucan and anionic oligosaccharides	pectin			xyloglucan and anionic oligosaccharides	Fterm		pectin			Another building block in the plant cell wall: Barley xyloglucan xyloglucosyl transferases link covalently xyloglucan and anionic oligosaccharides derived from pectin.
32224182	7	36	gly	AAP	1247:1249	arg1	a furan type polysaccharide	AAP			a furan type polysaccharide	OGER		AAP	P08697		The FT-IR analysis and monosaccharide composition analysis of degraded AAP (D-AAP-VI) showed that D-AAP-VI was a furan type polysaccharide, which was different from the total AAP (pyran type).
32426967	1	78	gly	glycosylation	115:127	arg1	serum proteins	serum proteins				Fterm		proteins			The change in glycosylation of serum proteins is often associated with the development of various diseases and thus can be used for diagnosis.
33777069	7	73	gly	glycoproteins	1087:1099	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			Affinity purification via the JIM84 antibody, directed against Lewis A structures on complex plant N-glycans, was used to enrich Lewis A bearing glycoproteins, which were subsequently identified via nano-LC-MS.
33631789	11	99	gly	Fc-glycosylation	2052:2067	arg1	anti-TNF-alpha Abs	anti-TNF-alpha Abs				PUBTATOR		TNF-alpha Abs	7124		CONCLUSIONS The specific modification in the Fc-glycosylation pattern of anti-TNF-alpha Abs does not affect their immunogenicity under the tested conditions.
33933541	2	34	gly	GLP	366:368	arg1	a 1 → 4)-α-D-Glcp glycoside linkage	GLP			a 1 → 4)-α-D-Glcp glycoside linkage	OGER		GLP	Q9H9B1		Using monosaccharide composition, methylation analysis, GC-MS, 1D and 2D NMR, the structure of GLP was determined to be a 1 → 4)-α-D-Glcp glycoside linkage, while the terminal group of 1→)-α-D-Glcp was bonded to the main chain via O-6.
32420732	5	42	gly	glycosylation	1029:1041	arg2	the N221 and N255 glycosylation sites			the N221 and N255 glycosylation sites						sites	These differences were mapped to the crystal structure and demonstrated synergistic HDX changes focused around the N221 and N255 glycosylation sites, which contain mannose-6-phosphate motifs important for I2S uptake into cells.
32681153	2	52	gly	Ser	247:249	arg1	residues			residues						residues	A major type of protein glycosylation is O-GalNAcylation, in which GalNAc-type glycans are attached to protein Ser or Thr residues via an O-linked glycosidic bond.
34791559	6	106	gly	fucosylated	1587:1597	arg1	fucosylated glycans				fucosylated glycans						Our results indicate a changed expression of fucosylated glycans in the glycocalyx of placental barrier structures and the morphometric parameters of villi in PE of different severity, which can affect the function of the placental barrier.
34957619	11	60	gly	α2,6-sialylation	1490:1505	arg1	E-cadherin	E-cadherin				OGER		E-cadherin	P12830		Finally, we found that ST6GAL1-mediated α2,6-sialylation of E-cadherin may participate in collective migration of uterine LE.
34957619	11	72	gly	E-cadherin	1510:1519	arg1	ST6GAL1-mediated α2,6-sialylation	E-cadherin			ST6GAL1-mediated α2,6-sialylation	OGER		E-cadherin	P12830		Finally, we found that ST6GAL1-mediated α2,6-sialylation of E-cadherin may participate in collective migration of uterine LE.
32546343	7	42	gly	glycoforms	1188:1197	arg1	IgA	IgA			glycoforms	OGER		IgA	P11912		PSC patients had decreased bisecting glycoforms and increased biantennary glycoforms on IgA compared to PBC.
34189908	7	2	gly	glycoprotein	1390:1401	arg1	robust glycoprotein semisynthesis	robust glycoprotein semisynthesis				Fterm		glycoprotein			Herein, we report the characterization of the DDC of amino thioacids and the efficient ability of glycosyl asparagine thioacid to be used for robust glycoprotein semisynthesis.
34328324	2	22	part_of	protein	484:490	arg1	the S protein regional-binding domain	S protein		the S protein regional-binding domain		OGER	Site	S protein	Q15517	domain	However, the molecular structures and glycan heterogeneity of the new O-glycans found on the S protein regional-binding domain (S-RBD) remain cryptic because of the challenges in intact glycoform analysis by conventional bottom-up glycoproteomic approaches.
34328324	2	76	part_of	S	482:482	arg1	the S protein regional-binding domain	S protein		the S protein regional-binding domain		OGER	Site	S protein	Q15517	domain	However, the molecular structures and glycan heterogeneity of the new O-glycans found on the S protein regional-binding domain (S-RBD) remain cryptic because of the challenges in intact glycoform analysis by conventional bottom-up glycoproteomic approaches.
32045434	0	47	gly	hyperglycosylation	18:35	arg1	human chorionic gonadotropin	human chorionic gonadotropin				OGER		chorionic gonadotropin			Insights into the hyperglycosylation of human chorionic gonadotropin revealed by glycomics analysis.
32468908	10	3	gly	glycoforms	1409:1418	arg1	the sidechain B glycoforms	sidechain B				Fterm		sidechain B			Our analysis of the sidechain B glycoforms in RG-II from different dicots and nonpoalean monocots suggests that this sidechain has a minimum structure of an O-acetylated hexasaccharide (Ara-[MeFuc]-Gal-AceA-Rha-Api-).
32517158	1	53	gly	glycoprotein	136:147	arg1	the type I transmembrane glycoprotein	the type I transmembrane glycoprotein				Fterm		glycoprotein			Endomucin (EMCN) is the type I transmembrane glycoprotein, mucin-like component of the endothelial cell glycocalyx.
32517158	1	53	gly	glycoprotein	136:147	arg1	Endomucin	Endomucin				PUBTATOR		Endomucin	59308		Endomucin (EMCN) is the type I transmembrane glycoprotein, mucin-like component of the endothelial cell glycocalyx.
33087860	3	38	gly	MACs	446:449	arg1	Host-derived mucus glycans	MACs			Host-derived mucus glycans	OGER		MACs	P29966		Host-derived mucus glycans on gut-secreted mucin proteins serve as a continuous endogenous source of MACs for resident microbes; here we investigate the potential role of purified, orally administered mucus glycans in maintaining a healthy microbial community.
33087860	3	61	gly	glycans	364:370	arg1	gut-secreted mucin proteins	mucin proteins			glycans	PUBTATOR		mucin proteins	100508689		Host-derived mucus glycans on gut-secreted mucin proteins serve as a continuous endogenous source of MACs for resident microbes; here we investigate the potential role of purified, orally administered mucus glycans in maintaining a healthy microbial community.
33878161	3	5	gly	proteins	497:504	arg1	hybrid-type N-glycans	proteins			hybrid-type N-glycans	Fterm		proteins			In this study, we knocked out genes encoding Golgi α-mannosidase-II, MAN2A1 and MAN2A2 in human embryonic kidney 293 (HEK293) cells, establishing an M2D-KO cell line that can produce recombinant proteins mainly with hybrid-type N-glycans.
35126971	3	58	gly	glycosylation	699:711	arg2	the sites			the sites						sites	Moreover, the functional role of the glycan shield in the SARS-CoV-2 pathogenesis suggests that the evolution of the sites of glycosylation is potentially intertwined with the evolution of the protein sequence to affect optimal activity.
34260212	6	44	gly	glycosylation	1470:1482	arg1	the orthogonally protected 6dgulHepp fluoride				the orthogonally protected 6dgulHepp fluoride						The assembly is characterized by highly efficient construction of the synthetically challenging β-(1,2-cis)-d-ido-heptopyranoside by inversion of the C2 configuration of β-(1,2-trans)-d-gulo-heptopyranoside, which is conveniently obtained by anchimerically assisted stereoselective glycosylation of the orthogonally protected 6dgulHepp fluoride.
34174476	0	49	gly	glycopeptide	100:111	arg2	a glycopeptide			a glycopeptide						glycopeptide	Mass spectrometric characterisation of the major peptides of the male ejaculatory duct, including a glycopeptide with an unusual zwitterionic glycosylation.
34174476	0	50	gly	glycosylation	142:154	arg1	a glycopeptide			a glycopeptide						glycopeptide	Mass spectrometric characterisation of the major peptides of the male ejaculatory duct, including a glycopeptide with an unusual zwitterionic glycosylation.
32898175	5	74	gly	glycoproteins	1000:1012	arg1	oligo mannose-rich glycoproteins				oligo mannose-rich glycoproteins						Glycan arrays revealed surface-exposed glycans with a high affinity for mannose-binding lectins indicating the predominance of oligo mannose-rich glycoproteins, as well as other glycans with a high affinity for complex-type N-glycans.
33413029	9	63	gly	N-glycosylation	1165:1179	arg2	The ion binding and N-glycosylation sites			The ion binding and N-glycosylation sites						sites	The ion binding and N-glycosylation sites were also predicted.
34101384	1	12	gly	glycoproteins	149:161	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			Glycans (oligosaccharide chains attached to glycoproteins) are a promising class of biomarkers, found in body fluids such as serum, saliva, urine, etc., that can be used for the diagnosis of disease conditions.
34101384	1	63	gly	attached	137:144	arg1	glycoproteins AND oligosaccharide chains	glycoproteins			oligosaccharide chains	Fterm		glycoproteins			Glycans (oligosaccharide chains attached to glycoproteins) are a promising class of biomarkers, found in body fluids such as serum, saliva, urine, etc., that can be used for the diagnosis of disease conditions.
34540145	7	7	gly	glycoproteins	1613:1625	arg1	CD63/GGT/concanavalin A-reactive glycoproteins	CD63/GGT/concanavalin A-reactive glycoproteins				Fterm		glycoproteins			Accordingly, they were grouped into two molecular patterns mainly consisting of overlapped CD9/gal-3/wheat germ agglutinin-reactive glycoproteins and CD63/GGT/concanavalin A-reactive glycoproteins.
34540145	7	70	gly	glycoproteins	1562:1574	arg1	overlapped CD9/gal-3/wheat germ agglutinin-reactive glycoproteins				overlapped CD9/gal-3/wheat germ agglutinin-reactive glycoproteins						Accordingly, they were grouped into two molecular patterns mainly consisting of overlapped CD9/gal-3/wheat germ agglutinin-reactive glycoproteins and CD63/GGT/concanavalin A-reactive glycoproteins.
34523784	6	2	gly	glycopeptides	670:682	arg2	The glycopeptides			The glycopeptides						glycopeptides	The glycopeptides were obtained by pseudoproline-assisted Lansbury aspartylation.
34876606	5	22	gly	N-glycosylation	936:950	arg2	the N-glycosylation sequons			the N-glycosylation sequons							The data showed that half of the N-glycosylation sequons changed their distribution of glycans in the S-614G variant.
33876698	12	40	gly	glycoforms	1725:1734	arg1	PPT1	PPT1				PUBTATOR		PPT1	5538		These N-glycans do not impede drug binding, thus suggesting that all glycoforms of PPT1 can be targeted with these compounds.Communicated by Ramaswamy H. Sarma.
34523784	0	52	gly	Erythropoietin	67:80	arg1	Sialylated Glycoforms	Human Erythropoietin			Sialylated Glycoforms	OGER		Human Erythropoietin	P01588		Chemical and Enzymatic Synthesis of Sialylated Glycoforms of Human Erythropoietin.
33064451	4	81	part_of	protein	803:809	arg1	the recombinant ectodomain	spike protein		the recombinant ectodomain		PUBTATOR	Site	spike protein	43740568	ectodomain	The patterns of N-glycosylation within the recombinant ectodomain and S1 subunit of the SARS-CoV-2 spike protein were characterized using this approach.
34485242	6	47	gly	O-glycosylation	728:742	arg2	46 novel O-glycosylation sites			46 novel O-glycosylation sites						sites	The application of the developed method to the HKU1 S1 subunit resulted in 46 novel O-glycosylation sites, among which 55.6% were predicted to be exposed on the outer protein surface.
34424752	7	10	gly	deglycosylation	1377:1391	arg1	high-mannose-type glycoproteins				high-mannose-type glycoproteins						However, it remained uncertain which glycosidase is primarily responsible for the deglycosylation of high-mannose-type glycoproteins.
34424752	7	62	gly	glycoproteins	1414:1426	arg1	high-mannose-type glycoproteins				high-mannose-type glycoproteins						However, it remained uncertain which glycosidase is primarily responsible for the deglycosylation of high-mannose-type glycoproteins.
32161592	4	31	gly	MGL	581:583	arg1	Tn antigen-mediated activation	MGL			Tn antigen-mediated activation	PUBTATOR		MGL	Q99685		Tn antigen-mediated activation of the C-type lectin MGL on dendritic cells induces regulatory T cells via the enhanced secretion of IL-10.
34775751	3	17	gly	fucosylation	747:758	arg1	a microbial sourced polysaccharide				a microbial sourced polysaccharide						These could be circumvented by semisynthesis, a strategy relying upon the regioselective fucosylation and sulfation of a microbial sourced polysaccharide sharing the same chondroitin backbone of fCS but devoid of any fucose (Fuc) and sulfate decoration on it.
33084194	2	44	gly	contains	286:293	arg1	LAP AND carbohydrates	LAP			carbohydrates	PUBTATOR		LAP	P11117		LAP contains carbohydrates (82.45±1.23 %), protein (1.56±0.21 %), and uronic acids (3.56±0.34 %).
32513872	7	79	gly	glycosylated	1863:1874	arg1	incompletely glycosylated PrP	incompletely glycosylated PrP				OGER		PrP	P32119		Our findings not only highlight an innovative and facile strategy for prion detection and strain differentiation, but are also consistent with a mechanism of prion replication in which structural instability of incompletely glycosylated PrP contributes to the conformational conversion of PrPC to PrPSc.
33792699	7	63	gly	attached	1391:1398	arg1	Asn388 AND a bisecting-GlcNAc			Asn388	a bisecting-GlcNAc					Asn388	Further, liquid chromatography/mass spectrometry analysis on ERC/mesothelin from epithelioid mesothelioma cells confirmed the presence of a bisecting-GlcNAc attached to Asn388 of ERC/mesothelin.
33141553	0	95	gly	Glycosylation	0:12	arg1	Serum Clusterin	Serum Clusterin				PUBTATOR		Clusterin	1191		Glycosylation of Serum Clusterin in Wild-Type Transthyretin-Associated (ATTRwt) Amyloidosis: A Study of Disease-Associated Compositional Features Using Mass Spectrometry Analyses.
32102970	8	74	gly	deglycopeptides	1486:1500	arg2	N-linked deglycopeptides library construction			N-linked deglycopeptides library construction						deglycopeptides	The spectra of these N-linked deglycopeptides were utilized for N-linked deglycopeptides library construction and identification of N-linked intact glycopeptides.
32102970	8	84	gly	glycopeptides	1561:1573	arg2	N-linked intact glycopeptides			N-linked intact glycopeptides						glycopeptides	The spectra of these N-linked deglycopeptides were utilized for N-linked deglycopeptides library construction and identification of N-linked intact glycopeptides.
32102970	8	137	gly	deglycopeptides	1443:1457	arg2	these N-linked deglycopeptides			these N-linked deglycopeptides						deglycopeptides	The spectra of these N-linked deglycopeptides were utilized for N-linked deglycopeptides library construction and identification of N-linked intact glycopeptides.
33756033	6	4	gly	IL-6	853:856	arg1	the 2,6-sialylated glycoforms	IL-6			the 2,6-sialylated glycoforms	PUBTATOR		IL-6	24498		The clearance rates were atypical, since the 2,6-sialylated glycoforms of IL-6 cleared faster than the corresponding asialo IL-6 with terminal galactoses.
33756033	6	15	gly	glycoforms	839:848	arg1	IL-6	IL-6				PUBTATOR		IL-6	24498		The clearance rates were atypical, since the 2,6-sialylated glycoforms of IL-6 cleared faster than the corresponding asialo IL-6 with terminal galactoses.
33756033	6	23	gly	2,6-sialylated	824:837	arg1	the 2,6-sialylated glycoforms	IL-6			the 2,6-sialylated glycoforms	PUBTATOR		IL-6	24498		The clearance rates were atypical, since the 2,6-sialylated glycoforms of IL-6 cleared faster than the corresponding asialo IL-6 with terminal galactoses.
32896318	3	7	gly	glycoproteins	566:578	arg1	cell surface glycoproteins	cell surface glycoproteins				Fterm		glycoproteins			In plants, additional layers of complexity exist as cell surface glycoproteins are in close contact, and in some cases, establish direct linkages with the polysaccharide networks present in the cell wall.
33688648	4	24	gly	O-glycoforms	974:985	arg1	the S-RBD	the S-RBD				PUBTATOR		S	43740568		By combining trapped ion mobility spectrometry (TIMS), which can separate the protein conformers of S-RBD and analyze their gas phase structural variants, with ultrahigh-resolution Fourier transform ion cyclotron resonance (FTICR) MS analysis, the O-glycoforms of the S-RBD are comprehensively characterized, so that seven O-glycoforms and their relative molecular abundance are structurally elucidated for the first time.
34921890	7	82	gly	glycoprotein	1413:1424	arg1	fungal glycoprotein fractions	fungal glycoprotein fractions				Fterm		glycoprotein			Histological examination revealed some morphological indicators of immune system activation and the absence of toxic effect on gastro-intestinal mucosa of animals at peroral administration of fungal glycoprotein fractions.
33616012	2	3	gly	glycoproteins	164:176	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			Lectins are a class of proteins or glycoproteins capable of recognizing and interacting with carbohydrates in a specific and reversible manner.
32433878	6	38	gly	residues	1610:1617	arg1	Gal(β1-4)β-Glc			residues	Gal(β1-4)β-Glc					residues	To this purpose, collagen polymers underwent one step reductive amination with maltose (Glc(α1-4)α-Glc) and lactose (Gal(β1-4)β-Glc) so that the pyranosidic structure of the reducing sugar could be sacrificed (acting as a linker) and the α-Glc and β-Gal residues exposed, respectively.
32433878	6	38	gly	residues	1610:1617	arg1	Glc(α1-4)α-Glc			residues	Glc(α1-4)α-Glc					residues	To this purpose, collagen polymers underwent one step reductive amination with maltose (Glc(α1-4)α-Glc) and lactose (Gal(β1-4)β-Glc) so that the pyranosidic structure of the reducing sugar could be sacrificed (acting as a linker) and the α-Glc and β-Gal residues exposed, respectively.
34218176	2	73	part_of	strain	478:483	arg1	natural nanofiller-reinforced composites	strain		natural nanofiller-reinforced composites		Fterm	Site	strain		composites	Developing natural nanofiller-reinforced composites as strain biosensors is an appealing solution to reduce environmental impacts and overcome technical bottleneck.
33743327	9	12	part_of	heparin-core	1309:1320	arg1	a heparin-core protein linkage domain	heparin		a heparin-core protein linkage domain		Fterm	Site	heparin		domain	Structural information of each component was then obtained with MS, including eight common disaccharides, eight enzyme resistant tetrasaccharides and a heparin-core protein linkage domain.
33076454	3	50	gly	glycosylation	487:499	arg1	nucleotide sugars				nucleotide sugars						Here, we present insights into the disrupted N-glycosylation of various CDG patients exhibiting defects in the transport of nucleotide sugars, Golgi glycosylation or Golgi trafficking.
32102970	7	9	part_of	N-linked	1313:1320	arg1	N-linked glycosylation motifs	N-linked		N-linked glycosylation motifs		Cterm	Site	N-linked		motifs	Four types of N-linked glycosylation motifs (NXS/T/C/V, X≠P) were used to recognize the N-linked deglycopeptides.
32102970	7	55	part_of	N-linked	1387:1394	arg1	the N-linked deglycopeptides	N-linked		the N-linked deglycopeptides		Cterm	Site	N-linked		deglycopeptides	Four types of N-linked glycosylation motifs (NXS/T/C/V, X≠P) were used to recognize the N-linked deglycopeptides.
32756606	0	14	part_of	SARS-CoV-2	124:133	arg1	the SARS-CoV-2 spike protein binding domain	SARS		the SARS-CoV-2 spike protein binding domain		OGER	Site	SARS	P49591	domain	Development and simulation of fully glycosylated molecular models of ACE2-Fc fusion proteins and their interaction with the SARS-CoV-2 spike protein binding domain.
32756606	0	24	part_of	spike	135:139	arg1	the SARS-CoV-2 spike protein binding domain	spike		the SARS-CoV-2 spike protein binding domain		PUBTATOR	Site	spike	43740568	domain	Development and simulation of fully glycosylated molecular models of ACE2-Fc fusion proteins and their interaction with the SARS-CoV-2 spike protein binding domain.
32648306	0	38	gly	lectin	68:73	arg1	the carbohydrate-binding ability	lectin			the carbohydrate-binding ability	Fterm		lectin			Exploring the carbohydrate-binding ability of Canavalia bonariensis lectin in inflammation models.
32280962	0	42	gly	glycoprotein	46:57	arg1	pregnancy-specific glycoprotein 1	pregnancy-specific glycoprotein 1			Glycan characterization	OGER		pregnancy-specific glycoprotein 1	P11464		Glycan characterization of pregnancy-specific glycoprotein 1 and its identification as a novel Galectin-1 ligand.
33284837	8	69	part_of	CD4	1361:1363	arg1	CD4 and coreceptor binding domains	CD4		CD4 and coreceptor binding domains		PUBTATOR	Site	CD4	920	domains	While both founder networks had a more heterogeneous connected network structure, interestingly founder B subnetworks around positions 640 and 837 preferentially contained CD4 and coreceptor binding domains.
32841605	3	7	gly	glycoprotein	676:687	arg1	each glycoprotein	each glycoprotein				Fterm		glycoprotein	43740575		We combined this information with bioinformatics analyses of natural variants and with existing 3D structures of both glycoproteins to generate molecular dynamics simulations of each glycoprotein both alone and interacting with one another.
32841605	3	52	gly	glycoproteins	611:623	arg1	both glycoproteins	both glycoproteins				Fterm		glycoproteins	43740575		We combined this information with bioinformatics analyses of natural variants and with existing 3D structures of both glycoproteins to generate molecular dynamics simulations of each glycoprotein both alone and interacting with one another.
31952476	15	29	gly	sialylated	2563:2572	arg1	sialylated short chain O-glycans				sialylated short chain O-glycans						Furthermore, increased expression of sialylated short chain O-glycans by TGCs could facilitate the modulation of maternal immune tolerance.
33498300	2	4	part_of	protein	253:259	arg1	the hinge region	protein		the hinge region		Fterm	Site	protein		region	We previously identified markers of attenuation in the envelope (E) protein of the prototype strain (ALFV3929), including the hinge region (E273-277) and lack of glycosylation at E154-156.
34213122	17	37	part_of	enoxaparin	2553:2562	arg1	the compositions	enoxaparin		the compositions		Fterm	Site	enoxaparin		positions	Then, the compositions of enoxaparin and UFH can be precisely determined.
33709491	3	41	gly	glycoforms	445:454	arg1	RBD glycoforms	RBD glycoforms				Cterm		RBD			However, the high heterogeneity of RBD glycoforms may lead to an incomplete neutralization effect and impact the immunogenic integrity of RBD-based vaccines.
34367227	4	71	gly	glycoproteins	636:648	arg1	Viral envelope glycoproteins	Viral envelope glycoproteins				Fterm		glycoproteins			Viral envelope glycoproteins are important targets for immunization, yet in some cases they accumulate poorly in plants and may not be properly processed.
32546343	5	36	gly	glycoforms	937:946	arg1	Agalactosylated, HexNAc terminated IgG1 glycoforms				Agalactosylated, HexNAc terminated IgG1 glycoforms						Agalactosylated, HexNAc terminated IgG1 glycoforms were enriched in both PBC and PSC.
32437608	5	12	part_of	sucrase	949:955	arg1	the catalytic domain 2	sucrase		the catalytic domain 2		Fterm	Site	sucrase		domain	In this work, we observed that the catalytic domain 2 of the L. kunkeei branching sucrase used not only dextran but also IMMP as the acceptor substrate, introducing -(1→3,6)-α-d-Glcp-(1→6)-branches.
32155332	2	115	gly	O-glycosylation	373:387	arg2	consecutive threonine motifs			threonine motifs						threonine motifs	This study highlights dynamic epitopes generated by aberrantly truncated immature O-glycosylation at consecutive threonine motifs (TTX) found in mucins and intrinsically disordered proteins (IDPs).
34669426	8	80	gly	glycoprotein	1417:1428	arg1	The glycoprotein surface	The glycoprotein surface				Fterm		glycoprotein			The glycoprotein surface is covered with glycans that shield off the underlying protein components from recognition by the immune system.
31922547	6	52	gly	glycoprotein	1193:1204	arg1	a heterologous glycoprotein	a heterologous glycoprotein				Fterm		glycoprotein			Our results show ERAD targeting of a heterologous glycoprotein in yeast, and suggest that proteins in the ER can be targeted to ERAD via other mechanisms than the Htm1p-Yos9p-dependent route when the LLO biosynthesis is altered.
33908020	3	10	gly	glycoproteins	460:472	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			Based on a spectral region specific to carbohydrate absorption, we present here a detailed protocol to compare the FTIR spectra of glycoproteins in terms of global glycosylation level and in terms of glycan composition.
32904601	7	9	gly	hACE2	1190:1194	arg1	The PTM and glycan maps	hACE2			The PTM and glycan maps	PUBTATOR		hACE2	59272		The PTM and glycan maps of HCoV-19 S protein and hACE2 provide additional structural details for studying the mechanisms underlying host attachment and the immune response of HCoV-19, as well as knowledge for developing desperately needed remedies and vaccines.
32904601	7	74	gly	protein	1178:1184	arg1	The PTM and glycan maps	HCoV-19 S protein			The PTM and glycan maps	OGER		HCoV-19 S protein	Q15517		The PTM and glycan maps of HCoV-19 S protein and hACE2 provide additional structural details for studying the mechanisms underlying host attachment and the immune response of HCoV-19, as well as knowledge for developing desperately needed remedies and vaccines.
34485242	5	3	gly	O-glycopeptides	566:580	arg2	O-glycopeptides			O-glycopeptides						O-glycopeptides	The enrichment method for O-glycopeptides with HBS was developed and validated using standard proteins.
34890647	8	56	part_of	Fab	1537:1539	arg1	the Fab domain	Fab		the Fab domain		PUBTATOR	Site	Fab	2187	domain	Moreover, HDX-MS data evince that the Fab domain has glycan-protein binding contacts within the IgG1-FcγRI complex.
33881228	8	30	gly	mannosylated	1189:1200	arg1	mannosylated glycans				mannosylated glycans						Exposure of mannosylated glycans in LN was shown to occur at the cell surface of kidney cells, promoting increased recognition by specific glycan-recognizing receptors expressed by immune cells.
33566602	5	14	gly	N-glycans	854:862	arg1	Mucin-5B	Mucin-5B			N-glycans	PUBTATOR		Mucin-5B	Q9HC84		Removal of the N-glycans in Mucin-5B may result in a loss of CEVM's mechanical properties.
34083726	4	14	gly	glycoproteins	850:862	arg1	many plasma and tissue glycoproteins	glycoproteins			N-glycans	Fterm		glycoproteins			3-O-SGal is expressed on N-glycans of many plasma and tissue glycoproteins, but recognition by O6 is often masked by sialic acid and thus exposed by treatment with neuraminidase.
34925381	0	32	gly	Epitopes	18:25	arg1	Glycan Masking				Glycan Masking						Glycan Masking of Epitopes in the NTD and RBD of the Spike Protein Elicits Broadly Neutralizing Antibodies Against SARS-CoV-2 Variants.
34925422	1	23	gly	N-glycoproteins	203:217	arg1	N-glycoproteins	N-glycoproteins				Fterm		N-glycoproteins			N-glycosylation is an important posttranslational modification in all eukaryotes, but little is known about the N-glycoproteins and N-glycans in microalgae.
33167499	3	18	part_of	have	542:545	arg1	Scw4 AND phosphorylated and glutathionylated residues	Scw4		phosphorylated and glutathionylated residues		PUBTATOR	Site	Scw4	853196	residues	We demonstrate that the main ncGTGs Bgl2 and Scw4 have phosphorylated and glutathionylated residues and are represented in CW as different pools of molecules having various firmness of attachment.
33167499	3	18	part_of	have	542:545	arg1	Bgl2 AND phosphorylated and glutathionylated residues	ncGTGs Bgl2		residues		PUBTATOR	Site	ncGTGs Bgl2	853199	residues	We demonstrate that the main ncGTGs Bgl2 and Scw4 have phosphorylated and glutathionylated residues and are represented in CW as different pools of molecules having various firmness of attachment.
34364435	0	39	gly	glycopeptide	116:127	arg2	mass spectrometry-based intact glycopeptide analyses			mass spectrometry-based intact glycopeptide analyses						glycopeptide	An integrated strategy for the construction of a species-specific glycan library for mass spectrometry-based intact glycopeptide analyses.
33484712	6	68	gly	glycosylated	1354:1365	arg1	glycosylated residues			glycosylated residues						residues	During the conformational transitions between them, interdomain interactions mediated by glycosylated residues are switched to play key roles on the stabilization of another form.
33992099	9	27	gly	L-selectin	1542:1551	arg1	MECA-79 glycans	L-selectin			MECA-79 glycans	OGER		L-selectin	P14151		RESULTS Complex glycans analysis taking into account the adjusted specificity of glycan-binding MAbs revealed 1.3 times less expression of MECA-79 glycans on the apical surface of the luminal epithelial cells of thin endometrium compared to normal endometrium; this deficiency may adversely affect implantation, since MECA-79 glycans are a ligand of L-selectin and mediate intercellular interactions.
33756033	5	54	gly	glycoform	645:653	arg1	Each IL-6 glycoform	Each IL-6 glycoform				PUBTATOR		IL-6	24498		Each IL-6 glycoform was tested in three animals and reproducibly showed individual serum clearances depending on the structure of the N-glycan.
34360826	4	70	gly	glycosylation	449:461	arg1	RBC membrane proteins	RBC membrane proteins				Fterm		proteins			Although several proteomic studies have been carried out, the glycosylation of RBC membrane proteins has not been systematically investigated.
32109354	2	44	gly	glycopeptides	401:413	arg2	evolved HMP mimic glycopeptides			evolved HMP mimic glycopeptides						glycopeptides	In our previous efforts, vaccinating rabbits with evolved HMP mimic glycopeptides containing Man9 resulted in an overall antibody response targeting the glycan core and linker rather than the full glycan or Manα1→2Man tips of Man9 glycans.
32109354	2	24	gly	containing	415:424	arg1	evolved HMP mimic glycopeptides AND Man9			evolved HMP mimic glycopeptides	Man9					glycopeptides	In our previous efforts, vaccinating rabbits with evolved HMP mimic glycopeptides containing Man9 resulted in an overall antibody response targeting the glycan core and linker rather than the full glycan or Manα1→2Man tips of Man9 glycans.
32039452	8	8	gly	glycoproteins	1498:1510	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			These results demonstrate that N-glycosylation in mammalian cells is amenable for extensive cross-kingdom engineering and that engineered CHO cells may be used to produce glycoproteins with plant glycosylation.
32039452	8	71	gly	glycosylation	1523:1535	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			These results demonstrate that N-glycosylation in mammalian cells is amenable for extensive cross-kingdom engineering and that engineered CHO cells may be used to produce glycoproteins with plant glycosylation.
33889819	2	40	gly	glycoproteins	359:371	arg1	the nascent glycoproteins	the nascent glycoproteins				Fterm		glycoproteins	6927		All those genetic diseases due to a defective glycan biosynthesis and attachment to the nascent glycoproteins fall within the wide area of congenital disorders of glycosylation (CDG), mostly causing multisystem involvement.
32178593	4	32	gly	glycoprotein	767:778	arg1	COVID-19 spike glycoprotein	COVID-19 spike glycoprotein				Fterm		glycoprotein			Furthermore, our study also highlights the key finding that the S1 domain of COVID-19 spike glycoprotein potentially interacts with the human CD26, a key immunoregulatory factor for hijacking and virulence.
32213588	6	1	part_of	protein	1132:1138	arg1	the helical domain	transferrin receptor protein 1		the helical domain		PUBTATOR	Site	transferrin receptor protein 1	7037	domain	Exclusive elucidation of differentially expressed membrane glycoproteins and molecular modeling suggested that extended high-mannose glycosylation at the helical domain of transferrin receptor protein 1 promotes conformational changes that improve noncovalent interaction energies and lead to enhancement of cell migration in metastatic cholangiocarcinoma.
32568312	10	106	gly	glycopeptides	2075:2087	arg2	these abnormally expressed N-linked intact glycopeptides			these abnormally expressed N-linked intact glycopeptides						glycopeptides	In conclusion, these abnormally expressed N-linked intact glycopeptides have potential for non-invasive monitoring and pre-stratification of prostate diseases.
32088200	8	34	gly	glycopeptide	1251:1262	arg2	LC-ESI-MS/MS glycopeptide detection			LC-ESI-MS/MS glycopeptide detection						glycopeptide	This method measures site-specific PSA modification by using mild acid hydrolysis to eliminate PSA and sialic acids while leaving the glycan backbone intact, together with protease digestion followed by LC-ESI-MS/MS glycopeptide detection.
31949166	1	48	gly	highly-glycosylated	144:162	arg1	α-Dystroglycan	protein			α-Dystroglycan	Fterm		protein	79147		α-Dystroglycan (α-DG) is a highly-glycosylated surface membrane protein.
32102970	5	2	gly	glycopeptides	1086:1098	arg2	N-linked intact glycopeptides			N-linked intact glycopeptides						glycopeptides and deglycopeptides	Both N-linked intact glycopeptides and deglycopeptides were analyzed by LC-MS/MS.
32102970	5	7	gly	deglycopeptides	1104:1118	arg2	deglycopeptides			deglycopeptides						glycopeptides and deglycopeptides	Both N-linked intact glycopeptides and deglycopeptides were analyzed by LC-MS/MS.
34873736	6	13	gly	DLP-1	1170:1174	arg1	(1→4)-β-D-Glcp	DLP-1			(1→4)-β-D-Glcp	PUBTATOR		DLP-1	71365		Nuclear magnetic resonance analysis showed that (1→4)-β-D-Manp, (1→4)-β-D-Glcp, and (1→4)-2-O-acetyl-β-D-Manp were the main linkage types of DLP-1, whereas DLP-2 was constituted by a large amount of (1→4)-β-D-Manp, (1→4)-β-D-Glcp, and other residues.
34873736	6	45	gly	residues	1270:1277	arg1	(1→4)-β-D-Glcp			residues	(1→4)-β-D-Glcp					residues	Nuclear magnetic resonance analysis showed that (1→4)-β-D-Manp, (1→4)-β-D-Glcp, and (1→4)-2-O-acetyl-β-D-Manp were the main linkage types of DLP-1, whereas DLP-2 was constituted by a large amount of (1→4)-β-D-Manp, (1→4)-β-D-Glcp, and other residues.
34873736	6	50	gly	1→4	1114:1116	arg1	(1→4)-β-D-Glcp	and (1→4			(1→4)-β-D-Glcp	OGER		and (1→4	O75717		Nuclear magnetic resonance analysis showed that (1→4)-β-D-Manp, (1→4)-β-D-Glcp, and (1→4)-2-O-acetyl-β-D-Manp were the main linkage types of DLP-1, whereas DLP-2 was constituted by a large amount of (1→4)-β-D-Manp, (1→4)-β-D-Glcp, and other residues.
34019795	3	54	gly	patch	383:387	arg1	Env	Env			patch	PUBTATOR		Env	100616444		2G12 is a broadly neutralizing Ab (bnAb) that targets a conserved glycan patch on Env of geographically diverse HIV-1 strains using a unique heavy-chain (VH) domain-swapped architecture that results in fragment antigen-binding (Fab) dimerization.
34735142	4	52	gly	polysaccharide	915:928	arg1	a naturally cellulose-deficient strain	strain			polysaccharide	Fterm		strain			Two-dimensional 13C-13C correlation ssNMR spectra of a uniformly 13C-labeled green microalga Parachlorella beijerinckii reveal that starch is the most abundant polysaccharide in a naturally cellulose-deficient strain, and this polymer adopts a well-organized and highly rigid structure in the cell.
32501643	9	69	part_of	APOE	1151:1154	arg1	serine 94	APOE		serine 94, threonine 194, and threonine 289		PUBTATOR	SpecificSite	APOE	348	serine 94, threonine 194, and threonine 289	The glycan sequence N-acetylgalactosamine, galactose, and sialic acid was consistently expressed on serine 94, threonine 194, and threonine 289 of APOE in L5 and was predicted to contribute to L5's negative surface charge and hydrophilicity.
32501643	9	69	part_of	APOE	1151:1154	arg1	threonine 194	APOE		serine 94, threonine 194, and threonine 289		PUBTATOR	SpecificSite	APOE	348	serine 94, threonine 194, and threonine 289	The glycan sequence N-acetylgalactosamine, galactose, and sialic acid was consistently expressed on serine 94, threonine 194, and threonine 289 of APOE in L5 and was predicted to contribute to L5's negative surface charge and hydrophilicity.
32501643	9	69	part_of	APOE	1151:1154	arg1	threonine 194	APOE		serine 94, threonine 194, and threonine 289		PUBTATOR	SpecificSite	APOE	348	serine 94, threonine 194, and threonine 289	The glycan sequence N-acetylgalactosamine, galactose, and sialic acid was consistently expressed on serine 94, threonine 194, and threonine 289 of APOE in L5 and was predicted to contribute to L5's negative surface charge and hydrophilicity.
34669426	1	9	gly	glycoprotein	184:195	arg1	Env	Env				PUBTATOR		Env	100616444		The human immunodeficiency virus type 1 (HIV-1) trimeric envelope glycoprotein (Env) is heavily glycosylated, creating a dense glycan shield that protects the underlying peptidic surface from antibody recognition.
34669426	1	9	gly	glycoprotein	184:195	arg1	trimeric envelope glycoprotein	trimeric envelope glycoprotein				PUBTATOR		envelope glycoprotein	100616444		The human immunodeficiency virus type 1 (HIV-1) trimeric envelope glycoprotein (Env) is heavily glycosylated, creating a dense glycan shield that protects the underlying peptidic surface from antibody recognition.
33940104	2	54	gly	sugar	437:441	arg1	PSF	PSF			sugar	OGER		PSF			Results showed that the contents of reducing sugar and sulfate in PSF with UV/H2O2 treatment for 2 h increased by 202.86% and 31.77%, respectively, and the contents of total sugar, protein and uronic acid decreased by 14.29%, 57.11% and 43.18% compared with those of original polysaccharides.
33068214	4	3	gly	O-glycosite	729:739	arg2	O-glycosite mapping			O-glycosite mapping						O-glycosite	However, O-glycosite mapping remains challenging since mucin-type O-glycans are densely packed, often protecting proteins from cleavage by proteases.
33077685	4	27	gly	glycosites	515:524	arg2	The glycosites			The glycosites						glycosites	The glycosites exhibited glycoform heterogeneity as expected for a human cell-expressed protein subunit.
33450956	4	41	part_of	has	664:666	arg1	The protein AND an N-terminal signal peptide	The protein		an N-terminal signal peptide		Fterm	Site	protein		peptide	The protein has an N-terminal signal peptide of 14 amino acids as is expected for proteins synthesized in hepatopancreas tubule cells and secreted into the hemolymph.
32155332	2	26	part_of	found	427:431	arg2	intrinsically disordered proteins AND consecutive threonine motifs	intrinsically disordered proteins		consecutive threonine motifs		Fterm	AminoAcid	proteins		threonine motifs	This study highlights dynamic epitopes generated by aberrantly truncated immature O-glycosylation at consecutive threonine motifs (TTX) found in mucins and intrinsically disordered proteins (IDPs).
35662980	2	42	gly	attached	415:422	arg1	the underlying protein/peptide AND N-glycans			the underlying protein/peptide	N-glycans					protein/peptide	In vitro, FUT8 exhibits substrate preference for the biantennary complex N-glycan oligosaccharide (G0), but the role of the underlying protein/peptide to which N-glycans are attached remains unclear.
33087860	1	66	gly	composition	169:179	arg1	Microbiota-accessible carbohydrates			position	Microbiota-accessible carbohydrates					position	Microbiota-accessible carbohydrates (MACs) are powerful modulators of microbiota composition and function.
32603137	4	20	gly	sialylated	651:660	arg1	sialylated glycans				sialylated glycans						The glycoprotein bovine fetuin was chosen for this analysis as its glycome is well-characterized and heavily composed of sialylated glycans.
32603137	4	58	gly	glycoprotein	534:545	arg1	The glycoprotein bovine fetuin	The glycoprotein bovine fetuin				Fterm		glycoprotein			The glycoprotein bovine fetuin was chosen for this analysis as its glycome is well-characterized and heavily composed of sialylated glycans.
32423029	1	57	gly	glycosylation	191:203	arg1	Notch signaling	Notch signaling				PUBTATOR		Notch	31293		Biochemical and genetic studies have indicated that O-linked glycosylation such as O-glucose (Glc), fucose (Fuc), and N-acetylglucosamine (GlcNAc) is critical for Notch signaling; however, it is not fully understood how O-glycans regulate the Notch receptor function.