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
28514686	1	50	gly	glycoprotein	171:182	arg1	Env	Env				Cterm		Env	155971		Advances in HIV-1 envelope glycoprotein (Env) design generate native-like trimers and high-resolution clade A, B, and G structures and elicit neutralizing antibodies.
28514686	1	50	gly	glycoprotein	171:182	arg1	HIV-1 envelope glycoprotein	HIV-1 envelope glycoprotein				PUBTATOR		envelope glycoprotein	155971		Advances in HIV-1 envelope glycoprotein (Env) design generate native-like trimers and high-resolution clade A, B, and G structures and elicit neutralizing antibodies.
27939510	0	42	gly	residue	86:92	arg1	polysaccharides			residue	polysaccharides					residue	Purification, antitumor and immunomodulatory activity of polysaccharides from soybean residue fermented with Morchella esculenta.
25124516	0	8	gly	disialylated	65:76	arg1	disialylated IgG	disialylated IgG				Cterm		IgG			Filariasis asymptomatically infected donors have lower levels of disialylated IgG compared to endemic normals.
29032210	0	4	gly	composition	9:19	arg1	lipopolysaccharide-stimulated RAW264.7 macrophage			position	lipopolysaccharide-stimulated RAW264.7 macrophage					position	Chemical composition of Cyclocarya paliurus polysaccharide and inflammatory effects in lipopolysaccharide-stimulated RAW264.7 macrophage.
27449907	7	89	gly	glycopeptide	1676:1687	arg2	engineered glycopeptide scaffolds			engineered glycopeptide scaffolds						glycopeptide	In this report, we describe engineered glycopeptide scaffolds from three different clades of HIV-1 that bind PG9 with high affinity when expressed in a wildtype cell line suitable for biopharmaceutical production.
26306633	7	2	gly	fucosylated	1212:1222	arg1	fucosylated structures				fucosylated structures						N-Glycoprotein analysis of B. mori fifth instar larvae revealed that high-mannose-type structure was predominant and GlcNAc-linked and fucosylated structures were observed but endogenous galactosyl-, N-acetylgalactosaminyl- and sialyl-N-glycoproteins were undetectable under the standard analytical approach.
26306633	7	4	gly	sialyl-N-glycoproteins	1305:1326	arg1	sialyl-N-glycoproteins	sialyl-N-glycoproteins				Fterm		sialyl-N-glycoproteins			N-Glycoprotein analysis of B. mori fifth instar larvae revealed that high-mannose-type structure was predominant and GlcNAc-linked and fucosylated structures were observed but endogenous galactosyl-, N-acetylgalactosaminyl- and sialyl-N-glycoproteins were undetectable under the standard analytical approach.
27508003	5	115	gly	proteins	961:968	arg1	the glucose, xylan and SCB substrates	proteins			the glucose, xylan and SCB substrates	Fterm		proteins			A total of 265 proteins were identified, with 153, 210 and 182 proteins in the glucose, xylan and SCB substrates, respectively.
25336511	1	55	gly	used	300:303	arg2	Biostable fiber-reinforced composites			Biostable fiber-reinforced composites						composites	Biostable fiber-reinforced composites, based on bisphenol-A-dimethacrylate and triethyleneglycoldimethacrylate thermoset polymer matrix reinforced with E-glass fibers have been successfully used in cranial reconstructions and the material has been approved for clinical use.
25629585	0	87	gly	glycoprotein	29:40	arg1	an automated N-linked glycoprotein identification tool	an automated N-linked glycoprotein identification tool				Fterm		glycoprotein			MAGIC: an automated N-linked glycoprotein identification tool using a Y1-ion pattern matching algorithm and in silico MS² approach.
27688023	6	1	gly	found	827:831	arg2	the active sites AND glucose and lactose molecules			the active sites	glucose and lactose molecules					sites	Because glucose and lactose molecules are found at the active sites in both structures, it is possible that these structures mimic the enzyme-product complex of YgjK.
28640663	6	9	gly	mannosylated	1123:1134	arg1	high mannosylated glycans				high mannosylated glycans						Compared with Remicade®, Flixabi® had a lower percentage of charged glycan, and Remsima® had a higher percentage of galactosylated glycan and a lower percentage of afucose plus high mannosylated glycans.
28356486	1	28	gly	leucine-rich	374:385	arg1	the small leucine-rich proteoglycans			leucine	the small leucine-rich proteoglycans					leucine	In a recent publication in Bioscience Reports "Contaminants in commercial preparations of 'purified' small leucine-rich proteoglycans may distort mechanistic studies", Brown et al. identified by mass spectrometry and immunoblotting that certain commercial preparations of the small leucine-rich proteoglycans (SLRPs) decorin and biglycan, in fact, contained a mix of several proteoglycans that also included fibromodulin and aggrecan.
28356486	1	39	gly	leucine-rich	199:210	arg1	' small leucine-rich proteoglycans			leucine	' small leucine-rich proteoglycans					leucine	In a recent publication in Bioscience Reports "Contaminants in commercial preparations of 'purified' small leucine-rich proteoglycans may distort mechanistic studies", Brown et al. identified by mass spectrometry and immunoblotting that certain commercial preparations of the small leucine-rich proteoglycans (SLRPs) decorin and biglycan, in fact, contained a mix of several proteoglycans that also included fibromodulin and aggrecan.
28356486	1	23	gly	contained	440:448	arg1	decorin AND biglycan	decorin			biglycan	PUBTATOR		SLRPs) decorin	1634		In a recent publication in Bioscience Reports "Contaminants in commercial preparations of 'purified' small leucine-rich proteoglycans may distort mechanistic studies", Brown et al. identified by mass spectrometry and immunoblotting that certain commercial preparations of the small leucine-rich proteoglycans (SLRPs) decorin and biglycan, in fact, contained a mix of several proteoglycans that also included fibromodulin and aggrecan.
27449907	1	78	gly	epitopes	207:214	arg1	an epitope			an epitope						epitope	The V1/V2 domain of the HIV-1 envelope protein gp120 possesses two important epitopes: a glycan-dependent epitope recognized by the prototypic broadly neutralizing monoclonal antibody (bN-mAb), PG9, as well as an epitope recognized by non-neutralizing antibodies that has been associated with protection from HIV infection in the RV144 HIV vaccine trial.
27449907	1	118	gly	possesses	183:191	arg1	The V1/V2 domain AND a glycan-dependent epitope			The V1/V2 domain	a glycan-dependent epitope					domain	The V1/V2 domain of the HIV-1 envelope protein gp120 possesses two important epitopes: a glycan-dependent epitope recognized by the prototypic broadly neutralizing monoclonal antibody (bN-mAb), PG9, as well as an epitope recognized by non-neutralizing antibodies that has been associated with protection from HIV infection in the RV144 HIV vaccine trial.
27449907	1	118	gly	possesses	183:191	arg1	the HIV-1 envelope protein gp120 AND a glycan-dependent epitope	the HIV-1 envelope protein gp120		two important epitopes	a glycan-dependent epitope	PUBTATOR		gp120	3700	epitopes	The V1/V2 domain of the HIV-1 envelope protein gp120 possesses two important epitopes: a glycan-dependent epitope recognized by the prototypic broadly neutralizing monoclonal antibody (bN-mAb), PG9, as well as an epitope recognized by non-neutralizing antibodies that has been associated with protection from HIV infection in the RV144 HIV vaccine trial.
24842272	1	65	gly	O-glycosylated	142:155	arg1	highly O-glycosylated proteins	highly O-glycosylated proteins				Fterm		proteins			Mucins are a class of highly O-glycosylated proteins found on the surface of cells in epithelial tissues.
27302279	4	18	gly	fucosylated	479:489	arg1	fucosylated IgG glycan structures				fucosylated IgG glycan structures						Decreased galactosylation, decreased sialylation (of fucosylated IgG glycan structures) and increased bisecting GlcNAc in IgG glycan structures were strongly associated with all-cause (q < 0.01) and CRC mortality (q = 0.04 for galactosylation and sialylation).
27302279	4	46	gly	sialylation	463:473	arg1	fucosylated IgG glycan structures				fucosylated IgG glycan structures						Decreased galactosylation, decreased sialylation (of fucosylated IgG glycan structures) and increased bisecting GlcNAc in IgG glycan structures were strongly associated with all-cause (q < 0.01) and CRC mortality (q = 0.04 for galactosylation and sialylation).
27302279	4	46	gly	sialylation	463:473	arg1	IgG glycan structures				IgG glycan structures						Decreased galactosylation, decreased sialylation (of fucosylated IgG glycan structures) and increased bisecting GlcNAc in IgG glycan structures were strongly associated with all-cause (q < 0.01) and CRC mortality (q = 0.04 for galactosylation and sialylation).
24299772	6	31	gly	residues	1092:1099	arg1	mannose-glucose isomerisation			residues at	mannose-glucose isomerisation					residues at	Depolymerisation and formation of anhydrohexose residues at the reducing end and mannose-glucose isomerisation were also observed.
27508003	0	111	gly	glycosylation	17:29	arg1	carbohydrate-active enzymes				carbohydrate-active enzymes						Mapping N-linked glycosylation of carbohydrate-active enzymes in the secretome of Aspergillus nidulans grown on lignocellulose.
29556562	0	64	gly	highly-glycosylated	51:69	arg1	a highly-glycosylated peroxidase	a highly-glycosylated peroxidase				PUBTATOR		peroxidase	548137		Zo-peroxidase: Crystal structure and sequence of a highly-glycosylated peroxidase resistant to high concentrations of H2O2 from Japanese radish.
27508003	11	78	gly	released	1615:1622	arg1	the proteins AND N-glycans	the proteins			N-glycans	Fterm		proteins			A global analysis of N-glycans released from the proteins secreted by A. nidulans was also performed.
28258007	2	16	gly	utilized	402:409	arg2	chitosan supported bentonite (CSBent) composites			chitosan supported bentonite (CSBent) composites						composites	To improve the properties of bentonite (bent) and chitosan (CS), chitosan supported bentonite (CSBent) composites were prepared and utilized for phosphate removal.
26721884	12	92	gly	N-glycosylation	1658:1672	arg2	NKCC2 N-glycosylation sites			NKCC2 N-glycosylation sites						sites	In contrast, mutations of NKCC2 N-glycosylation sites abolished the effects of OS9, indicating that OS9-induced protein degradation is N-glycan-dependent.
27185147	4	30	gly	used	769:772	arg2	the ZnO-deposited BC composites			the ZnO-deposited BC composites						composites	Hence, the ZnO-deposited BC composites can be used as an antibacterial material in wound dressing and water disinfection applications.
24174266	2	24	gly	de-N-glycosylated	968:984	arg1	de-N-glycosylated peptides			de-N-glycosylated peptides						peptides	An efficient method to separate these two classes of N-glycans would significantly aid in detecting the lower abundant components by MS. Capitalizing on an initial observation that only high mannose type structures were recovered in the flow-through fraction when peptide-N-glycosidase F digested peptides were passed through a C18 cartridge in 0.1% formic acid, we demonstrated here that native complex type N-glycans can be retained by C18 cartridge and to be efficiently separated from both the smaller high mannose type structures, as well as de-N-glycosylated peptides by stepwise elution with increasing ACN concentration.
28953376	4	76	gly	intraglycopeptide	858:874	arg2	favorable intraglycopeptide enthalpy			favorable intraglycopeptide enthalpy						intraglycopeptide	A combination of sterics and favorable intraglycopeptide enthalpy explains the existence of only these two conformations.
25629585	9	93	gly	glycoproteins	1735:1747	arg1	26 glycoproteins	26 glycoproteins				Fterm		glycoproteins			In the HeLa cell proteome data set, MAGIC processed over a thousand MS(2) spectra in 3 min on a PC and reported 36 glycopeptides from 26 glycoproteins.
25629585	9	46	gly	glycopeptides	1713:1725	arg1	26 glycoproteins	glycoproteins		glycopeptides		Fterm		glycoproteins		glycopeptides	In the HeLa cell proteome data set, MAGIC processed over a thousand MS(2) spectra in 3 min on a PC and reported 36 glycopeptides from 26 glycoproteins.
25844452	2	47	gly	composition	368:378	arg1	the lipopolysaccharides			position,	the lipopolysaccharides					position,	In the lipid A fatty acid composition, the lipopolysaccharides under study were similar to those of other Azospirillum strains and were characterized by predominance of 3-hydroxytetradecanoic, 3-hydroxyhexadecanoic, and octadecenoic acids.
24559734	6	3	gly	galactose	1155:1163	arg1	the ratio 2:2:1	2:1			galactose	OGER		2:1	P35326		On the other hand, the pellicle polysaccharides of SL13E-3 and SKU1108 strains are composed of rhamnose, glucose and galactose in the ratio 2:2:1 and 1:5:2.5, respectively.
24559734	6	16	gly	rhamnose	1133:1140	arg1	the ratio 2:2:1	2:1			rhamnose	OGER		2:1	P35326		On the other hand, the pellicle polysaccharides of SL13E-3 and SKU1108 strains are composed of rhamnose, glucose and galactose in the ratio 2:2:1 and 1:5:2.5, respectively.
24559734	6	23	gly	glucose	1143:1149	arg1	the ratio 2:2:1	2:1			glucose	OGER		2:1	P35326		On the other hand, the pellicle polysaccharides of SL13E-3 and SKU1108 strains are composed of rhamnose, glucose and galactose in the ratio 2:2:1 and 1:5:2.5, respectively.
25157382	0	12	gly	resistance	125:134	arg1	Chemical composition			Chemical composition	Chemical composition		Site			position	Chemical composition of Pleurotus eryngii polysaccharides and their inhibitory effects on high-fructose diet-induced insulin resistance and oxidative stress in mice.
25157382	0	68	gly	composition	9:19	arg1	high-fructose diet-induced insulin resistance			position	high-fructose diet-induced insulin resistance					position	Chemical composition of Pleurotus eryngii polysaccharides and their inhibitory effects on high-fructose diet-induced insulin resistance and oxidative stress in mice.
28117421	2	51	gly	sugars	596:601	arg1	its composition			its composition	its composition		Site			position	Mycelia from two types of edible, medicinal fungi, Ganoderma lucidum and Pleurotus ostreatus, have been carefully cultivated, being fed by two bio-substrates: cellulose and cellulose/potato-dextrose, the second being easier to digest by mycelium due to presence of simple sugars in its composition.
28640663	12	34	gly	afucosylated	1762:1773	arg1	afucosylated and high mannosylated glycans				afucosylated and high mannosylated glycans						Combined percentages of afucosylated and high mannosylated glycans were positively correlated with FcγRIIIa binding and ADCC in NK92-CD16 cells, while no correlation was observed in PBMC.
28640663	12	80	gly	mannosylated	1784:1795	arg1	afucosylated and high mannosylated glycans				afucosylated and high mannosylated glycans						Combined percentages of afucosylated and high mannosylated glycans were positively correlated with FcγRIIIa binding and ADCC in NK92-CD16 cells, while no correlation was observed in PBMC.
28640663	4	6	gly	mannosylated	648:659	arg1	high mannosylated glycans				high mannosylated glycans						We assessed binding to tumor necrosis factor in a fluorescence competitive binding assay; potency in a luciferase reporter gene assay; percentages of galactosylated glycan, afucose plus high mannosylated glycans, and charged glycan; FcγRIIIa (CD16) binding (assessed by 3 methods); and antibody-dependent cell-mediated cytotoxicity (ADCC) in the NK92-CD16a cell line and in peripheral blood mononuclear cells (PBMC).
26871442	3	43	gly	N-glycosylation	511:525	arg2	N-glycosylation site deletions			N-glycosylation site deletions						site	In the case of HIV, it has been shown that CBAs select for mutant viruses with N-glycosylation site deletions which are more sensitive to neutralizing antibodies.
28091940	7	35	gly	sequence	1547:1554	arg1	unique disaccharides or oligosaccharides sequence composition				unique disaccharides or oligosaccharides sequence composition						Understanding CS and DS structure derived from different origins may lead to the production of CS or DS with unique disaccharides or oligosaccharides sequence composition and biological functions.
28989689	5	4	gly	glycosylation	979:991	arg2	glycosylation sites 181 and 197			glycosylation sites 181 and 197						sites	Incorporating PEG at glycosylation sites 181 and 197 in PrP induced only small changes to the secondary structure when compared to unmodified, wildtype PrP.
26190688	7	20	gly	chain	957:961	arg1	→6)-β-D-Glcp-(1→ side chain	chain			→6)-β-D-Glcp-(1→ side chain	OGER		chain	16193		The two-dimensional COSY, NOESY and TOCSY confirmed that these polysaccharides have a main chain of →3)-β-D-Glcp-(1→ with →6)-β-D-Glcp-(1→ side chain.
28953376	8	33	gly	glycoproteins	1641:1653	arg1	stable α-helical glycoproteins	stable α-helical glycoproteins				Fterm		glycoproteins			Thus, we suggest that incorporating a Glu at either the -4 or +4 position relative to an N-linked glycan may be a useful strategy for engineering stable α-helical glycoproteins.
24737672	7	36	gly	glycoproteins	1519:1531	arg1	misfolded glycoproteins	misfolded glycoproteins				Fterm		glycoproteins			Thus, MNS4 and MNS5 function in the formation of unique N-glycan structures that are specifically recognized by other components of the ERAD machinery, which ultimately results in the disposal of misfolded glycoproteins.
28953376	2	1	gly	interactions	498:509	arg1	α-helical glycosylation sites			α-helical glycosylation sites	α-helical glycosylation sites		Site			sites	To further elucidate the effects of N-glycosylation on protein structure and to provide principles useful for the rational design of α-helical glycopeptides, we investigate stabilizing protein-sugar interactions in α-helical glycosylation sites using an integrated structural bioinformatics analysis and molecular dynamics simulation approach.
28953376	2	16	gly	glycopeptides	442:454	arg2	α-helical glycopeptides			α-helical glycopeptides						glycopeptides	To further elucidate the effects of N-glycosylation on protein structure and to provide principles useful for the rational design of α-helical glycopeptides, we investigate stabilizing protein-sugar interactions in α-helical glycosylation sites using an integrated structural bioinformatics analysis and molecular dynamics simulation approach.
28953376	2	70	gly	glycosylation	524:536	arg2	α-helical glycosylation sites			α-helical glycosylation sites						sites	To further elucidate the effects of N-glycosylation on protein structure and to provide principles useful for the rational design of α-helical glycopeptides, we investigate stabilizing protein-sugar interactions in α-helical glycosylation sites using an integrated structural bioinformatics analysis and molecular dynamics simulation approach.
28953376	2	84	gly	N-glycosylation	335:349	arg1	protein structure	protein structure				Fterm		protein			To further elucidate the effects of N-glycosylation on protein structure and to provide principles useful for the rational design of α-helical glycopeptides, we investigate stabilizing protein-sugar interactions in α-helical glycosylation sites using an integrated structural bioinformatics analysis and molecular dynamics simulation approach.
26280087	4	12	gly	glycopeptides	832:844	arg2	N-linked glycopeptides			N-linked glycopeptides						glycopeptides	We also report for the first time natural HLA class I presentation of O- and N-linked glycopeptides derived from membrane proteins.
27760230	1	5	gly	Strain	69:74	arg1	Different Extracellular Polysaccharide Content	Strain			Different Extracellular Polysaccharide Content	Fterm		Strain			trifolii Strain 24.2 and Its Derivatives with Different Extracellular Polysaccharide Content.
25211026	5	25	gly	undersialylated	857:871	arg1	C	C				Cterm		C	19122		The current study demonstrates that undersialylated PrP(C) is selected during prion amplification in Protein Misfolding Cyclic Amplification (PMCAb) at the expense of oversialylated PrP(C).
25211026	5	25	gly	undersialylated	857:871	arg1	undersialylated PrP	undersialylated PrP				PUBTATOR		PrP	19122		The current study demonstrates that undersialylated PrP(C) is selected during prion amplification in Protein Misfolding Cyclic Amplification (PMCAb) at the expense of oversialylated PrP(C).
25211026	5	93	gly	oversialylated	988:1001	arg1	C	C				Cterm		C	19122		The current study demonstrates that undersialylated PrP(C) is selected during prion amplification in Protein Misfolding Cyclic Amplification (PMCAb) at the expense of oversialylated PrP(C).
25211026	5	93	gly	oversialylated	988:1001	arg1	oversialylated PrP	oversialylated PrP				PUBTATOR		PrP	19122		The current study demonstrates that undersialylated PrP(C) is selected during prion amplification in Protein Misfolding Cyclic Amplification (PMCAb) at the expense of oversialylated PrP(C).
29296958	7	71	gly	O-glycosites	1477:1488	arg2	O-glycosites			O-glycosites						O-glycosites	The importance of O-glycosites in proximity to proteolytic cleavage sites was further supported by in vitro peptide assays demonstrating that proteolysis of key hemostatic proteins can be inhibited by the presence of O-glycans.
26296208	2	10	gly	glycoproteins	540:552	arg1	cell wall glycoproteins	cell wall glycoproteins				Fterm		glycoproteins			Enzymes in this family are localised to the Golgi apparatus, and have been shown to be involved in both N- and O-linked glycosylation of newly-synthesised proteins, including cell wall glycoproteins.
26296208	2	36	gly	glycosylation	475:487	arg1	newly-synthesised proteins	newly-synthesised proteins				Fterm		proteins			Enzymes in this family are localised to the Golgi apparatus, and have been shown to be involved in both N- and O-linked glycosylation of newly-synthesised proteins, including cell wall glycoproteins.
26296208	2	36	gly	glycosylation	475:487	arg1	cell wall glycoproteins	cell wall glycoproteins				Fterm		glycoproteins			Enzymes in this family are localised to the Golgi apparatus, and have been shown to be involved in both N- and O-linked glycosylation of newly-synthesised proteins, including cell wall glycoproteins.
26686161	1	56	gly	HN1	237:239	arg1	mycelial polysaccharides	HN1			mycelial polysaccharides	OGER		HN1	Q9UK76		Optimization of extraction, characterization and antioxidant activity of mycelial polysaccharides from Paecilomyces hepiali HN1 (PHMPs) were investigated.
28347786	3	55	gly	had	471:473	arg1	all GPs AND the typical saccharide absorptions	all GPs			the typical saccharide absorptions	OGER		GPs			The results revealed that all GPs had the typical saccharide absorptions, and all were heteropolysaccharides.
24415556	4	20	gly	glycoprotein	816:827	arg1	the glycoprotein folding process	the glycoprotein folding process				Fterm		glycoprotein			On the other hand, direct evidence to support the glucosyltransferase activity of UGGT2 has been lacking, leaving it unclear as to whether it has any function in the glycoprotein folding process.
25498203	4	26	gly	G3983	582:586	arg1	the lipopolysaccharides			G3983 and G3977	the lipopolysaccharides			Cronobacter spp	Q8TCT9	G3983 and G3977	In this work, short-chain O-polysaccharides consisting on the average of 2-3 repeating units were obtained by mild acid or mild alkaline degradation of the lipopolysaccharides of C. dublinensis G3983 and G3977 and studied by composition analysis, Smith degradation, and (1)H and (13)C NMR spectroscopy.
25498203	4	34	gly	G3977	592:596	arg1	the lipopolysaccharides			G3983 and G3977	the lipopolysaccharides			Cronobacter spp	Q8TCT9	G3983 and G3977	In this work, short-chain O-polysaccharides consisting on the average of 2-3 repeating units were obtained by mild acid or mild alkaline degradation of the lipopolysaccharides of C. dublinensis G3983 and G3977 and studied by composition analysis, Smith degradation, and (1)H and (13)C NMR spectroscopy.
24254641	3	49	gly	proteins	435:442	arg1	the urinary asparagine-linked glycan (N-glycan) profile	proteins			the urinary asparagine-linked glycan (N-glycan) profile	Fterm		proteins			We determined the urinary asparagine-linked glycan (N-glycan) profile of prostatic proteins of healthy volunteers (n = 25), patients with benign prostate hyperplasia (BPH; n = 62) and newly diagnosed PCa patients (n = 42) using DNA-sequencer-assisted fluorophore-assisted carbohydrate electrophoresis.
24254641	3	78	gly	asparagine-linked	378:394	arg1	the urinary asparagine-linked glycan (N-glycan) profile			asparagine	the urinary asparagine-linked glycan (N-glycan) profile					asparagine	We determined the urinary asparagine-linked glycan (N-glycan) profile of prostatic proteins of healthy volunteers (n = 25), patients with benign prostate hyperplasia (BPH; n = 62) and newly diagnosed PCa patients (n = 42) using DNA-sequencer-assisted fluorophore-assisted carbohydrate electrophoresis.
24737672	4	43	gly	glycosylated	784:795	arg1	the heavily glycosylated brassinosteroid receptor	the heavily glycosylated brassinosteroid receptor				Fterm		receptor			Our genetic and biochemical data show that the two ER-resident proteins MNS4 and MNS5 are involved in the degradation of misfolded variants of the heavily glycosylated brassinosteroid receptor, BRASSINOSTEROID INSENSITIVE1, while MNS1 to MNS3 appear dispensable for this ERAD process.
25211026	6	81	gly	sialylated	1055:1064	arg1	Sc	Sc				Cterm		Sc	19122		As a result, PMCAb-derived PrP(Sc) was less sialylated than brain-derived PrP(Sc).
25211026	6	81	gly	sialylated	1055:1064	arg1	PMCAb-derived PrP	PMCAb-derived PrP				PUBTATOR		PrP	19122		As a result, PMCAb-derived PrP(Sc) was less sialylated than brain-derived PrP(Sc).
25171516	1	16	gly	glycosylated	146:157	arg1	Proteoglycans	proteins			Proteoglycans	Fterm		proteins			Proteoglycans (PGs) are important glycosylated proteins found on the cell surface and in the extracellular matrix.
25211026	8	58	gly	de-sialylation	1215:1228	arg1	C	C				Cterm		C	19122		Nevertheless, enzymatic de-sialylation of PrP(C) using sialidase was found to increase the rate of PrP(Sc) amplification in PMCAb from 10- to 10,000-fold in a strain-dependent manner.
25211026	8	58	gly	de-sialylation	1215:1228	arg1	PrP	PrP				PUBTATOR		PrP	19122		Nevertheless, enzymatic de-sialylation of PrP(C) using sialidase was found to increase the rate of PrP(Sc) amplification in PMCAb from 10- to 10,000-fold in a strain-dependent manner.
25211026	8	132	gly	PrP	1233:1235	arg1	enzymatic de-sialylation	PrP			enzymatic de-sialylation	PUBTATOR		PrP	19122		Nevertheless, enzymatic de-sialylation of PrP(C) using sialidase was found to increase the rate of PrP(Sc) amplification in PMCAb from 10- to 10,000-fold in a strain-dependent manner.
24842272	0	43	gly	glycopeptides	98:110	arg2	the corresponding glycopeptides			the corresponding glycopeptides						glycopeptides	A convergent strategy for the synthesis of type-1 elongated mucin cores 1-3 and the corresponding glycopeptides.
28797225	9	72	gly	isolated	1674:1681	arg1	the R strain AND the pellicle polysaccharide	the R strain			the pellicle polysaccharide	Fterm		strain			The R:ΔpolE mutant strain was not able to form a regular pellicle anymore, but secreted an EPS into the medium, which exhibited a similar sugar monomer composition as the pellicle polysaccharide isolated from the R strain.
28797225	9	72	gly	isolated	1674:1681	arg1	the R strain AND a similar sugar monomer composition	the R strain			a similar sugar monomer composition	Fterm		strain			The R:ΔpolE mutant strain was not able to form a regular pellicle anymore, but secreted an EPS into the medium, which exhibited a similar sugar monomer composition as the pellicle polysaccharide isolated from the R strain.
27508003	15	119	gly	glycoprotein	2393:2404	arg1	glycoprotein structures	glycoprotein structures				Fterm		glycoprotein			A comprehensive analysis of the protein glycosylation processes in A. nidulans will assist with a better understanding of glycoprotein structures, profiles, activities and functions.
25915761	4	43	gly	carry	603:607	arg1	H5N1 HA1 envelope proteins AND O-glycans	proteins		threonines	O-glycans	Fterm		proteins		threonines	Similarly-positioned, highly-conserved threonines in the influenza A virus H1N1 HA1 and H5N1 HA1 envelope proteins were also found to carry O-glycans when expressed as secreted proteins.
25915761	7	11	gly	O-glycosylation	1143:1157	arg1	the C-terminal threonine			the C-terminal threonine						threonine	In striking contrast to these findings, gp120 on purified virions of HIV-1 Bal and SIV CP-MAC lacked any detectable O-glycosylation of the C-terminal threonine.
24740695	4	4	gly	glycoproteins	712:724	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			In addition, AaP-1, AaP-2, AaP-3, and AaP-4 were found to be glycoproteins, containing 21.75, 22.27, 25.62, and 18.31 % of carbohydrates, respectively.
24740695	4	1	gly	containing	727:736	arg1	glycoproteins AND carbohydrates	glycoproteins			carbohydrates	Fterm		glycoproteins			In addition, AaP-1, AaP-2, AaP-3, and AaP-4 were found to be glycoproteins, containing 21.75, 22.27, 25.62, and 18.31 % of carbohydrates, respectively.
25171516	2	21	gly	protein	254:260	arg1	glycosaminoglycan (GAG) side chains	protein			glycosaminoglycan (GAG) side chains	Fterm		protein			They are made up of a core protein with glycosaminoglycan (GAG) side chains.
28989689	1	23	gly	N-glycosylated	141:154	arg1	The prion protein	protein				Fterm		protein			The prion protein (PrP) is an N-glycosylated protein attached to the outer leaflet of eukaryotic cell membranes via a glycosylphosphatidylinositol (GPI) anchor.
26280087	3	8	gly	O-GlcNAc	515:522	arg1	an HLA peptide			an HLA peptide	an HLA peptide		Site			peptide	A cytosolic O-GlcNAc modification is normally terminal and does not extend to produce a polysaccharide, but O-GlcNAc on an HLA peptide presents a special case because the loaded HLA class I complex traffics through the endoplasmic reticulum and Golgi apparatus on its way to the cell membrane and is hence exposed to glycosyltransferases.
26483702	2	58	gly	glycosylated	270:281	arg1	a heavily glycosylated protein	a heavily glycosylated protein				Fterm		protein			Native UT-A1 from kidney inner medulla (IM) is a heavily glycosylated protein with two glycosylation forms of 97 and 117 kDa.
26483702	2	58	gly	glycosylated	270:281	arg1	Native UT-A1	Native UT-A1				PUBTATOR		Native UT-A1	27411		Native UT-A1 from kidney inner medulla (IM) is a heavily glycosylated protein with two glycosylation forms of 97 and 117 kDa.
26484870	8	39	gly	glycosylated	1355:1366	arg1	Antigenic sites			Antigenic sites						sites	Antigenic sites that elicit neutralizing antibodies are more heavily glycosylated than those that elicit non-neutralizing antibodies, which suggest that HCMV gB uses glycans to shield neutralizing epitopes while exposing non-neutralizing epitopes.
28953376	1	38	gly	glycoproteins	135:147	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			Glycosylation not only impacts the functions of glycoproteins but can also improve glycoprotein stability and folding efficiency-characteristics that are desirable for protein engineering and therapeutic design.
28953376	1	69	gly	glycoprotein	170:181	arg1	glycoprotein stability	glycoprotein stability				Fterm		glycoprotein			Glycosylation not only impacts the functions of glycoproteins but can also improve glycoprotein stability and folding efficiency-characteristics that are desirable for protein engineering and therapeutic design.
24415556	3	6	gly	glycoproteins	600:612	arg1	immature glycoproteins	immature glycoproteins				Fterm		glycoproteins			UGGT1 is a well-documented enzyme which functions as a folding sensor in the endoplasmic reticulum, by the virtue of its ability to transfer a glucose residue to non-glucosylated high-mannose-type glycans of immature glycoproteins exhibiting non-native conformation.
28891420	7	48	gly	protein	1447:1453	arg1	polysaccharides	protein			polysaccharides	Fterm		protein			Finally, through the Fourier transform infrared spectroscopy, it was found that Al(III) was beneficial for the proliferation and secretion of TB-EPS functional groups, especially the functional groups of protein and polysaccharides.
24842272	7	0	gly	glycopeptides	1342:1354	arg2	type-1 mucin glycopeptides			type-1 mucin glycopeptides						glycopeptides	The obtained glycosylated 9-fluorenylmethoxycarbonyl (Fmoc)-protected amino acid building blocks were employed in synthesis of type-1 mucin glycopeptides, which are useful in biological applications.
28068519	1	45	gly	heparin	228:234	arg1	the mono- and disaccharide subunits	heparin			the mono- and disaccharide subunits	Fterm		heparin			An NMR HSQC method has recently been proposed for the quantitative determination of the mono- and disaccharide subunits of heparin and low molecular weight heparins (LMWH).
28989689	2	20	gly	glycosylation	351:363	arg1	misfolded prion protein	misfolded prion protein				Fterm		protein			Different prion strains have distinct glycosylation patterns and the extent of glycosylation of potentially pathogenic misfolded prion protein (PrPSc) has a major impact on several prion-related diseases (transmissible spongiform encephalopathies, TSEs).
25211026	0	24	gly	glycoform	117:125	arg1	PrPSc glycoform	PrPSc glycoform				PUBTATOR		PrPSc	19122		Sialylation of prion protein controls the rate of prion amplification, the cross-species barrier, the ratio of PrPSc glycoform and prion infectivity.
25211026	0	124	gly	protein	21:27	arg1	Sialylation	protein			Sialylation	Fterm		protein	19122		Sialylation of prion protein controls the rate of prion amplification, the cross-species barrier, the ratio of PrPSc glycoform and prion infectivity.
29296958	6	32	gly	O-glycosites	1230:1241	arg2	O-glycosites			O-glycosites						O-glycosites	Using an unbiased screen to identify associations between O-glycosites and protein annotations we found that O-glycans were over-represented close (± 15 amino acids) to tandem repeat regions, protease cleavage sites, within propeptides, and located on a select group of protein domains.
24057866	0	48	gly	IgG	41:43	arg1	fucosylation	IgG			fucosylation	Cterm		IgG			Changes in fucosylation of human seminal IgG and secretory component of IgA in leukocytospermic patients.
24057866	0	95	gly	fucosylation	11:22	arg1	human seminal IgG	human seminal IgG				Cterm		IgG			Changes in fucosylation of human seminal IgG and secretory component of IgA in leukocytospermic patients.
25211026	13	53	gly	sialylation	1894:1904	arg1	C	C				Cterm		C	19122		2D analysis of charge distribution revealed that the sialylation status of brain-derived PrP(C) differed from that of spleen-derived PrP(C).
25211026	13	53	gly	sialylation	1894:1904	arg1	brain-derived PrP	brain-derived PrP				PUBTATOR		PrP	19122		2D analysis of charge distribution revealed that the sialylation status of brain-derived PrP(C) differed from that of spleen-derived PrP(C).
25211026	13	133	gly	PrP	1930:1932	arg1	the sialylation status	PrP			the sialylation status	PUBTATOR		PrP	19122		2D analysis of charge distribution revealed that the sialylation status of brain-derived PrP(C) differed from that of spleen-derived PrP(C).
26553286	3	62	gly	glycoprotein	568:579	arg1	often a glycoprotein	often a glycoprotein				PUBTATOR		a glycoprotein	351		The synthesis of (neo)glycoconjugates with bi- to oligo-valency (glycoclusters) affords tools to delineate structure-activity relationships by blocking lectin binding to an artificial matrix, often a glycoprotein, or cultured cell lines.
24342348	0	7	gly	N-glycoprotein	242:255	arg1	N-glycoprotein linkage region analogs	N-glycoprotein linkage region analogs				Fterm		N-glycoprotein			Examination of the influence of C5-hydroxymethyl group and configurations of hydroxyl groups at C2, C3, and C4 stereocentres on the N-glycosidic torsion: synthesis and X-ray crystallographic investigation of N-(D-ribopyranosyl)alkanamides as N-glycoprotein linkage region analogs.
26871442	6	46	gly	glycoproteins	988:1000	arg1	the E1E2 envelope glycoproteins	the E1E2 envelope glycoproteins				Fterm		glycoproteins			At the end of lectin exposure, the genome of the isolated strains was sequenced and several potential resistance mutations in the E1E2 envelope glycoproteins were identified.
25753715	1	8	gly	glycoproteins	209:221	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			The frequency of glycosylated protein 3D structures in the Protein Data Bank (PDB) is significantly lower than the proportion of glycoproteins in nature, and if glycan 3D structures are present, then they often exhibit a large degree of errors.
27760230	7	9	gly	pssA	840:843	arg1	exopolysaccharide	pssA			exopolysaccharide	OGER		pssA	P48651		trifolii strain 24.2 and its derivatives producing various levels of exopolysaccharide (EPS), namely, pssA mutant Rt5819 deficient in EPS synthesis, rosR mutant Rt2472 producing diminished amounts of this polysaccharide, and two EPS-overproducing strains, Rt24.2(pBA1) and Rt24.2(pBR1), under different growth conditions (medium type, bacterial culture age, cell viability, and pH).
26820354	0	22	gly	strain	52:57	arg1	Bioactive exopolysaccharides	strain			Bioactive exopolysaccharides	Fterm		strain			Bioactive exopolysaccharides from a S. thermophilus strain: Screening, purification and characterization.
26290580	0	3	gly	peptidoglycan	71:83	arg1	muropeptides			muropeptides	muropeptides		Site			muropeptides	Structural characterization of muropeptides from Chlamydia trachomatis peptidoglycan by mass spectrometry resolves "chlamydial anomaly".
29156586	8	90	gly	glycopeptides	1421:1433	arg2	221 glycopeptides			221 glycopeptides						glycopeptides	This study reveals unsuspected structural diversity of compounds such as 221 glycopeptides, displaying different glycan structures.
27939510	1	9	gly	residue	171:177	arg1	Crude polysaccharides			residue	Crude polysaccharides					residue	Crude polysaccharides (MPS) from soybean residue fermented with Morchella esculenta were extracted and purified by DEAE Sephadex A-50 chromatography and Sephadex G-100 size-exclusion chromatography in sequence.
28390831	5	38	gly	presence	552:559	arg2	ANG AND rhamnose	ANG			rhamnose	OGER		ANG	P03950		The sugar composition of the gums indicated the presence of arabinose, galactose, and rhamnose in ANG and AG.
28390831	5	38	gly	presence	552:559	arg2	ANG AND galactose	ANG			galactose	OGER		ANG	P03950		The sugar composition of the gums indicated the presence of arabinose, galactose, and rhamnose in ANG and AG.
28390831	5	38	gly	presence	552:559	arg2	ANG AND arabinose	ANG			arabinose	OGER		ANG	P03950		The sugar composition of the gums indicated the presence of arabinose, galactose, and rhamnose in ANG and AG.
26280087	5	22	gly	peptides	890:897	arg1	centrally located oligosaccharides			peptides	centrally located oligosaccharides					peptides	HLA class I peptides with centrally located oligosaccharides have been shown to be immunogenic and may thus be important targets for immune surveillance.
24737672	2	39	gly	N-glycosylated	360:373	arg1	Many secretory proteins				Many secretory proteins						Many secretory proteins are N-glycosylated, and despite some recent progress, little is known about the mechanism that selects misfolded glycoproteins for degradation in plants.
24737672	2	50	gly	glycoproteins	469:481	arg1	misfolded glycoproteins	misfolded glycoproteins				Fterm		glycoproteins			Many secretory proteins are N-glycosylated, and despite some recent progress, little is known about the mechanism that selects misfolded glycoproteins for degradation in plants.
27449907	0	53	gly	glycoprotein	39:50	arg1	HIV-1 glycoprotein 120	HIV-1 glycoprotein 120				Fterm		glycoprotein			Fragments of the V1/V2 domain of HIV-1 glycoprotein 120 engineered for improved binding to the broadly neutralizing PG9 antibody.
27083821	1	10	gly	glycosylation	182:194	arg1	unprotected d-xylose				unprotected d-xylose						Microwave-assisted, phosphomolybdic acid (PMoA) catalyzed, glycosylation of unprotected d-xylose and d-lyxose, obtained after tandem Mo(VI)-catalyzed xylan hydrolysis-epimerization reaction, provides alkyl xylosides and lyxosides in short reaction times.
27083821	1	10	gly	glycosylation	182:194	arg1	d-lyxose				d-lyxose						Microwave-assisted, phosphomolybdic acid (PMoA) catalyzed, glycosylation of unprotected d-xylose and d-lyxose, obtained after tandem Mo(VI)-catalyzed xylan hydrolysis-epimerization reaction, provides alkyl xylosides and lyxosides in short reaction times.
24174266	0	36	gly	de-N-glycosylated	90:106	arg1	de-N-glycosylated peptides			de-N-glycosylated peptides						peptides	Facile removal of high mannose structures prior to extracting complex type N-glycans from de-N-glycosylated peptides retained by C18 solid phase to allow more efficient glycomic mapping.
24174266	0	59	gly	peptides	108:115	arg1	extracting complex type N-glycans			peptides	extracting complex type N-glycans					peptides	Facile removal of high mannose structures prior to extracting complex type N-glycans from de-N-glycosylated peptides retained by C18 solid phase to allow more efficient glycomic mapping.
27515282	1	35	gly	protein	155:161	arg1	high-molecular weight glycosaminoglycan chains	protein			high-molecular weight glycosaminoglycan chains	Fterm		protein			AIMS Exogenously administered biglycan (core protein with high-molecular weight glycosaminoglycan chains) has been shown to protect neonatal cardiomyocytes against simulated ischemia/reperfusion injury (SI/R), however, the mechanism of action is not clear.
28153461	2	11	gly	position	559:566	arg1	almost every disaccharide unit			position	almost every disaccharide unit					position	The backbone of HmG was identified as chondroitin 6-O sulfate, while the major O-4 sulfated fucose branches linked to O-3 position of glucuronic acid in almost every disaccharide unit.
28153461	2	18	gly	linked	545:550	arg1	O-3 position AND the major O-4 sulfated fucose branches			O-3 position	the major O-4 sulfated fucose branches					position	The backbone of HmG was identified as chondroitin 6-O sulfate, while the major O-4 sulfated fucose branches linked to O-3 position of glucuronic acid in almost every disaccharide unit.
28821034	0	9	gly	enzymes	110:116	arg1	extracellular polysaccharide	enzymes			extracellular polysaccharide	Fterm		enzymes			The relationship between monosaccharide composition of extracellular polysaccharide and activities of related enzymes in Nostoc flagelliforme under different culture conditions.
27448235	3	69	gly	glycoproteins	595:607	arg1	structural glycoproteins	structural glycoproteins				Fterm		glycoproteins			The plant cell wall consists predominantly of polysaccharides with the addition of structural glycoproteins, phenolic esters, minerals, lignin, and associated enzymes.
28953376	7	28	gly	intraglycopeptide	1446:1462	arg2	favorable electrostatic intraglycopeptide interactions			favorable electrostatic intraglycopeptide interactions						intraglycopeptide	Via metadynamics simulations of model α-helical glycopeptides with each of these two interactions, we find that both interactions are stabilizing as a result of favorable electrostatic intraglycopeptide interactions.
28953376	7	61	gly	glycopeptides	1309:1321	arg2	model α-helical glycopeptides			model α-helical glycopeptides						glycopeptides	Via metadynamics simulations of model α-helical glycopeptides with each of these two interactions, we find that both interactions are stabilizing as a result of favorable electrostatic intraglycopeptide interactions.
26266984	6	48	gly	head	862:865	arg1	the pyrophosphate-oligosaccharide head group				the pyrophosphate-oligosaccharide head group						While the pyrophosphate-oligosaccharide head group of lipid-linked oligosaccharides enters the translocation cavity and interacts with positively charged side chains, the lipidic polyprenyl tail binds and activates the transporter but remains exposed to the lipid bilayer during the reaction.
26266984	6	48	gly	head	862:865	arg1	lipid-linked oligosaccharides				lipid-linked oligosaccharides						While the pyrophosphate-oligosaccharide head group of lipid-linked oligosaccharides enters the translocation cavity and interacts with positively charged side chains, the lipidic polyprenyl tail binds and activates the transporter but remains exposed to the lipid bilayer during the reaction.
25915761	6	3	gly	monosialylated	864:877	arg1	mainly monosialylated core 1 O-glycans				mainly monosialylated core 1 O-glycans						Secreted HIV-1 gp140 was modified to a lesser extent with mainly monosialylated core 1 O-glycans, suggesting that the ectodomain of the gp41 transmembrane component may limit the accessibility of Thr499 to glycosyltransferases.
25915761	6	53	gly	modified	824:831	arg1	Secreted HIV-1 gp140 AND mainly monosialylated core 1 O-glycans	Secreted HIV-1 gp140			mainly monosialylated core 1 O-glycans	Cterm		1 gp140			Secreted HIV-1 gp140 was modified to a lesser extent with mainly monosialylated core 1 O-glycans, suggesting that the ectodomain of the gp41 transmembrane component may limit the accessibility of Thr499 to glycosyltransferases.
25726973	2	15	gly	glycoprotein	303:314	arg1	GP5	GP5				PUBTATOR		5 (GP5	2814		Glycans of major envelope glycoprotein 5 (GP5) are proposed as important for virus assembly and entry into permissive cells.
25726973	2	27	gly	glycoprotein	303:314	arg1	Glycans	envelope glycoprotein 5			Glycans	PUBTATOR		envelope glycoprotein 5	155971		Glycans of major envelope glycoprotein 5 (GP5) are proposed as important for virus assembly and entry into permissive cells.
24462668	4	30	gly	sequence	890:897	arg1	the RE oligosaccharide sequence(s)				the RE oligosaccharide sequence(s)						Here we report the isolation and structural characterisation of the RE oligosaccharide sequence(s) of wheat endosperm cell wall AXs.
24663085	5	0	gly	attached	922:929	arg2	the O-6 position AND -α-D-Glcp-(1 → 4)-α-D-GALPA-(1 → 4)-α-D-Glcp-(1 → 4)-β-D-Glcp-(1 → units with poly saccharide side chains composed of → 2)-β-D-Fruf-(1 → 2)-L-sorbose-			the O-6 position	-α-D-Glcp-(1 → 4)-α-D-GALPA-(1 → 4)-α-D-Glcp-(1 → 4)-β-D-Glcp-(1 → units with poly saccharide side chains composed of → 2)-β-D-Fruf-(1 → 2)-L-sorbose-					position	Structural analysis indicated that LP1 consisted of a backbone of → 4)-α-D-Glcp-(1 → 4)-α-D-GALPA-(1 → 4)-α-D-Glcp-(1 → 4)-β-D-Glcp-(1 → units with poly saccharide side chains composed of → 2)-β-D-Fruf-(1 → 2)-L-sorbose-(1 → attached to the O-6 position of the α-D-Glcp residues.
27998108	12	36	gly	used	2569:2572	arg2	[CEL+KER] composites			[CEL+KER] composites						composites	These results, together with our previous finding that [CEL+KER] composites can be used for the controlled delivery of drugs such as ciprofloxacin, clearly indicate that the [CEL+KER+Ag0NPs] composite possesses all of the required properties for it to be successfully used as a high-performance dressing to treat chronic ulcerous infected wounds.
25649385	3	47	gly	motif	597:601	arg1	the three tandem repeats			motif	the three tandem repeats					motif	In the Clostridium difficile cell wall protein family, we show the three tandem repeats of the CWB2 motif are essential for correct anchoring to the cell wall.
26063800	1	27	gly	glycoproteins	248:260	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			The T-synthase (core 1 β3-galactosyltransferase) and its molecular chaperone Cosmc regulate the biosynthesis of mucin type O-glycans on glycoproteins, and evidence suggests that both T-synthase and Cosmc are transcriptionally suppressed in several human diseases, although the transcriptional regulation of these two genes is not understood.
26063800	1	34	gly	O-glycans	235:243	arg1	glycoproteins	glycoproteins			O-glycans	Fterm		glycoproteins			The T-synthase (core 1 β3-galactosyltransferase) and its molecular chaperone Cosmc regulate the biosynthesis of mucin type O-glycans on glycoproteins, and evidence suggests that both T-synthase and Cosmc are transcriptionally suppressed in several human diseases, although the transcriptional regulation of these two genes is not understood.
23701219	9	22	gly	used	1307:1310	arg2	composites			composites						composites	The in vitro release profiles of the resulting materials were evaluated in order to ascertain whether composites can be used as encapsulated systems for drug delivery systems.
27508003	13	13	gly	N-glycosylated	1884:1897	arg1	The most common and frequent N-glycosylated motifs			The most common and frequent N-glycosylated motifs						motifs	CONCLUSIONS The most common and frequent N-glycosylated motifs, an overview of the N-glycosylation of the CAZymes and the number of mannoses found in N-glycans were analyzed.
27508003	13	92	gly	CONCLUSIONS	1843:1853	arg1	The most common and frequent N-glycosylated motifs			The most common and frequent N-glycosylated motifs						motifs	CONCLUSIONS The most common and frequent N-glycosylated motifs, an overview of the N-glycosylation of the CAZymes and the number of mannoses found in N-glycans were analyzed.
25629585	3	33	gly	glycopeptide	498:509	arg2	intact N-linked glycopeptide collision-induced-dissociation spectra			intact N-linked glycopeptide collision-induced-dissociation spectra						glycopeptide	In this paper, we present a mass spectrometry-based automated glycopeptide identification platform (MAGIC) to identify peptide sequences and glycan compositions directly from intact N-linked glycopeptide collision-induced-dissociation spectra.
25629585	3	35	gly	glycopeptide	369:380	arg2	a mass spectrometry-based automated glycopeptide identification platform			a mass spectrometry-based automated glycopeptide identification platform						glycopeptide	In this paper, we present a mass spectrometry-based automated glycopeptide identification platform (MAGIC) to identify peptide sequences and glycan compositions directly from intact N-linked glycopeptide collision-induced-dissociation spectra.
24721094	5	17	gly	JSP1	663:666	arg1	three polysaccharide fractions	JSP1			three polysaccharide fractions	PUBTATOR		JSP1	56940		After precipitation with ethanol at final concentration of 40%, 60% and 80% in turn, three polysaccharide fractions of JSP1, JSP2 and JSP3 were obtained from JSP, respectively.
25915761	8	67	gly	carbohydrates	1233:1245	arg1	Thr499			Thr499	Thr499		AminoAcid	Gp120	155971	Thr499	Our results indicate the absence of O-linked carbohydrates on Thr499 as it exists on the surface of virions and suggest caution in the interpretation of analyses of post-translational modifications that utilize recombinant forms of envelope protein.
27554431	4	64	gly	glycoproteins	565:577	arg1	Lefty proteins	Lefty proteins				Fterm		proteins			Lefty proteins (human Lefty A and B) are secreted glycoproteins, but their mode of secretion and the significance of their "glycan" moiety remain mostly unexplored.
27554431	4	64	gly	glycoproteins	565:577	arg1	secreted glycoproteins	secreted glycoproteins				Fterm		glycoproteins			Lefty proteins (human Lefty A and B) are secreted glycoproteins, but their mode of secretion and the significance of their "glycan" moiety remain mostly unexplored.
29032210	1	6	gly	composition	184:194	arg1	lipopolysaccharide (LPS)-stimulated RAW264.7 macrophage			position	lipopolysaccharide (LPS)-stimulated RAW264.7 macrophage					position	This study was designed to study the chemical composition of Cyclocarya paliurus polysaccharide and inflammatory effects in lipopolysaccharide (LPS)-stimulated RAW264.7 macrophage.
26362834	6	16	gly	origin	1066:1071	arg1	ten commercial sucrose-based sugar products	origin			ten commercial sucrose-based sugar products	Fterm		origin			The method was applied to ten commercial sucrose-based sugar products of different botanical origin.
27474571	4	42	gly	UCP	1116:1118	arg1	monosaccharide composition	UCP (1			monosaccharide composition	OGER		UCP (1	P25874		Results showed that no considerable change was observed on the structure between the polysaccharide of Cyclocarya paliurus (CP) and the ultrasonic polysaccharide of Cyclocarya paliurus (UCP) by FT-IR, and no apparent differences were found on the content of sugar, uronic acid and protein after the ultrasonic treatment, but difference appeared in the ratio of monosaccharide composition of CP (1.0:4.6:3.5:4.5) and UCP (1.0:5.9:3.9:4.4), and the antioxidant activities of CP were promoted after ultrasonic treatment.
24415556	5	21	gly	N-glycosylated	973:986	arg1	N-glycosylated proteins	N-glycosylated proteins				Fterm		proteins			This study aimed to reveal the property of human UGGT2 by using synthetic substrates such as fluorescently labeled glycans and N-glycosylated proteins.
25726973	1	12	gly	nonglycosylated	251:265	arg1	three nonglycosylated proteins	three nonglycosylated proteins				Fterm		proteins			Porcine reproductive and respiratory syndrome virus (PRRSV) is a positive-sense ssRNA virus whose envelope contains four glycoproteins and three nonglycosylated proteins.
25726973	1	18	gly	glycoproteins	227:239	arg1	four glycoproteins	four glycoproteins				Fterm		glycoproteins			Porcine reproductive and respiratory syndrome virus (PRRSV) is a positive-sense ssRNA virus whose envelope contains four glycoproteins and three nonglycosylated proteins.
28953376	3	68	gly	glycosylation	773:785	arg2	natural α-helical glycosylation sites			natural α-helical glycosylation sites						sites	We identify two glycan conformations with an Asn χ1 of 180° or 300° that are amenable to α-helical structure in natural α-helical glycosylation sites in the Protein Data Bank.
28602514	4	26	gly	cell-surface/ECM	750:765	arg1	proteoglycans	ECM			proteoglycans	OGER		ECM	Q13201		Based on this observation, we have investigated here the effects of JAD on proteoglycans and glycosaminoglycan (GAG) polysaccharides, which are major cell-surface/ECM components and are involved in a multitude of biological processes.
28602514	4	26	gly	cell-surface/ECM	750:765	arg1	glycosaminoglycan (GAG) polysaccharides	ECM			glycosaminoglycan (GAG) polysaccharides	OGER		ECM	Q13201		Based on this observation, we have investigated here the effects of JAD on proteoglycans and glycosaminoglycan (GAG) polysaccharides, which are major cell-surface/ECM components and are involved in a multitude of biological processes.
25046106	10	15	gly	NSP	1920:1922	arg1	xylose	NSP			xylose	OGER		NSP	O95405		The total amount of digested NSP (r=0.57; P=0.002), xylose (r=0.53; P=0.004) and dietary fiber (r=0.60; P=0.001) in ileal digesta were positively correlated with an increased abundance of Bacteroides-Prevotella-Porphyromonas.
28989689	0	12	gly	carrying	43:50	arg1	Semisynthetic prion protein (PrP) variants AND glycan mimics	Semisynthetic prion protein (PrP) variants			glycan mimics	Fterm		variants			Semisynthetic prion protein (PrP) variants carrying glycan mimics at position 181 and 197 do not form fibrils.
26280087	1	13	gly	glycosylated	105:116	arg1	glycosylated human leukocyte antigen (HLA) class I-bound peptides			glycosylated human leukocyte antigen (HLA) class I-bound peptides						peptides	We report unexpected mass spectrometric observations of glycosylated human leukocyte antigen (HLA) class I-bound peptides.
29430281	1	51	gly	isolated	385:392	arg1	SMS AND hot-water-extractable polysaccharides	SMS			hot-water-extractable polysaccharides	OGER		SMS	P52788		In order to contribute to the exploitation and utilization of spent mushroom substrates (SMS) of Laetiporus sulphureus, hot-water-extractable polysaccharides (H-SMPS) and enzymatic-extractable polysaccharides (E-SMPS) were successfully isolated from SMS of L. sulphureus.
29430281	1	51	gly	isolated	385:392	arg1	SMS AND enzymatic-extractable polysaccharides	SMS			enzymatic-extractable polysaccharides	OGER		SMS	P52788		In order to contribute to the exploitation and utilization of spent mushroom substrates (SMS) of Laetiporus sulphureus, hot-water-extractable polysaccharides (H-SMPS) and enzymatic-extractable polysaccharides (E-SMPS) were successfully isolated from SMS of L. sulphureus.
24254641	0	68	gly	glycoproteins	46:58	arg1	urinary prostate glycoproteins	urinary prostate glycoproteins				Fterm		glycoproteins			Capillary electrophoresis of urinary prostate glycoproteins assists in the diagnosis of prostate cancer.
26721884	11	57	gly	OS9	1584:1586	arg1	the mannose 6-phosphate receptor homology domain	OS9			the mannose 6-phosphate receptor homology domain	PUBTATOR		OS9	10956		Inactivation of the mannose 6-phosphate receptor homology domain of OS9 had no effect on its action on NKCC2.
25915761	5	12	gly	disialylated	718:729	arg1	disialylated core 1 glycans				disialylated core 1 glycans						In all cases, the threonines were modified predominantly with disialylated core 1 glycans, together with related core 1 and core 2 structures.
25915761	5	15	gly	modified	690:697	arg1	the threonines AND disialylated core 1 glycans			the threonines	disialylated core 1 glycans					threonines	In all cases, the threonines were modified predominantly with disialylated core 1 glycans, together with related core 1 and core 2 structures.
26225911	1	61	gly	used	223:226	arg2	Chitosan/nano-hydroxyapatite (HA) composites			Chitosan/nano-hydroxyapatite (HA) composites						composites	Chitosan/nano-hydroxyapatite (HA) composites were first prepared and then used together with chitosan and silk fibroin (SF) to produce a type of four-layer porous scaffold that is potentially applicable for articular cartilage repair.
27607237	2	1	gly	glycoproteins	381:393	arg1	N-linked glycoproteins	N-linked glycoproteins				Fterm		glycoproteins			Glycoside hydrolases (GHs) are essential in this process, and are involved in processing of N-linked glycoproteins or degradation of carbohydrate structures.
26041171	5	24	gly	used	740:743	arg2	The composite			The composite						composite	The composite was used as an insoluble carrier for entrapment of the dairy enzyme rennin, leading to the production of an active biocatalyst for milk coagulation (initiation of milk clotting at about 20 min and full coagulation at about 200 min), creating perspectives for several applications in food enzyme research and technology.
29108390	1	76	gly	glycosylated	232:243	arg1	Tn-antigen	Tn-antigen, sTn			Truncated O-glycans	PUBTATOR		Tn-antigen, sTn	1917		Truncated O-glycans, including Tn-antigen, sTn-antigen, T-antigen, sT-antigen, are incomplete glycosylated structures and their expression occur frequently in tumor tissue.
29202699	8	73	gly	presence	1218:1225	arg1	the SS1 strain AND Rhamnose	the SS1 strain			Rhamnose	Fterm		strain			RESULTS The major difference between the two strains of H. pylori is the presence of Rhamnose, Fucose and GalNAc in the SS1 strain, which was either not found or with low abundance in the G27 strain.
29202699	8	73	gly	presence	1218:1225	arg2	the SS1 strain AND GalNAc	the SS1 strain			GalNAc	Fterm		strain			RESULTS The major difference between the two strains of H. pylori is the presence of Rhamnose, Fucose and GalNAc in the SS1 strain, which was either not found or with low abundance in the G27 strain.
29202699	8	73	gly	presence	1218:1225	arg2	the SS1 strain AND Fucose	the SS1 strain			Fucose	Fterm		strain			RESULTS The major difference between the two strains of H. pylori is the presence of Rhamnose, Fucose and GalNAc in the SS1 strain, which was either not found or with low abundance in the G27 strain.
29296958	4	27	gly	glycoproteins	829:841	arg1	649 glycoproteins	649 glycoproteins				Fterm		glycoproteins			We identified the hitherto largest O-glycoproteome from native tissue with a total of 649 glycoproteins and 1123 nonambiguous O-glycosites, demonstrating that O-glycosylation is a ubiquitous modification of extracellular proteins.
29296958	4	37	gly	O-glycosites	865:876	arg2	1123 nonambiguous O-glycosites			1123 nonambiguous O-glycosites						O-glycosites	We identified the hitherto largest O-glycoproteome from native tissue with a total of 649 glycoproteins and 1123 nonambiguous O-glycosites, demonstrating that O-glycosylation is a ubiquitous modification of extracellular proteins.
25124516	4	62	gly	N-glycosylation	579:593	arg1	the Fc region			the Fc region						region	N-glycosylation of the Fc region of antibodies is a post-translational modification required for the structure and molecular function, influencing host inflammatory and regulatory responses.
27688023	7	11	gly	found	971:975	arg1	subsite -1 AND A glucose molecule			subsite -1	A glucose molecule					subsite	A glucose molecule found at subsite -1 in both structures adopts an unusual 1S3 skew-boat conformation.
24415556	1	7	gly	glycoprotein	202:213	arg1	glycoprotein glucosyltransferase				glycoprotein glucosyltransferase						Being recognized as an important constituent of the glycoprotein folding cycle, uridine diphosphate-glucose:glycoprotein glucosyltransferase (UGGT) has been a subject of intense study.
24415556	1	47	gly	glycoprotein	146:157	arg1	the glycoprotein folding cycle	the glycoprotein folding cycle				Fterm		glycoprotein			Being recognized as an important constituent of the glycoprotein folding cycle, uridine diphosphate-glucose:glycoprotein glucosyltransferase (UGGT) has been a subject of intense study.
25211026	11	0	gly	PrP	1667:1669	arg1	the sialylation status	PrP			the sialylation status	PUBTATOR		PrP	19122		Surprisingly, the sialylation status of PrP(C) was also found to control PrP(Sc) glycoform ratio.
25211026	11	20	gly	sialylation	1645:1655	arg1	PrP	PrP				PUBTATOR		PrP	19122		Surprisingly, the sialylation status of PrP(C) was also found to control PrP(Sc) glycoform ratio.
25211026	11	20	gly	sialylation	1645:1655	arg1	C	C				Cterm		C	19122		Surprisingly, the sialylation status of PrP(C) was also found to control PrP(Sc) glycoform ratio.
29156586	6	32	gly	glycosylated	1034:1045	arg1	small glycosylated peptides			small glycosylated peptides						peptides	A previous study has shown that Dendroaspis angusticeps venom contains not only a cocktail of classical toxins, but also small glycosylated peptides.
26731606	5	73	gly	leucine-rich	1224:1235	arg1	two cell wall-associated leucine-rich repeat receptor-like kinases			leucine	two cell wall-associated leucine-rich repeat receptor-like kinases					leucine	These mutants phenocopy a salt-overly sensitive mutant called sos5, which lacks a fasciclin-like AGP (SOS5/FLA4) as well as a fei1fei2 double mutant, which lacks two cell wall-associated leucine-rich repeat receptor-like kinases.
25915761	2	1	gly	O-glycosylated	348:361	arg1	the threonine			the threonine						threonine	When the gp120s of HIV-1 NL4-3, HIV-1 YU2, HIV-1 Bal, HIV-1 JRFL, and HIV-1 JRCSF were expressed as secreted proteins, the threonine at consensus position 499 was found to be O-glycosylated.
25124516	7	31	gly	disialylated	1422:1433	arg1	disialylated IgG	disialylated IgG				Cterm		IgG			Using capillary electrophoresis, we found that there was no difference in galactosylation of total IgG between the three groups; however, asymptomatically infected patients had significantly lower levels of disialylated IgG compared to endemic normals and patients with pathology.
26774420	8	48	gly	origin	1196:1201	arg1	polysaccharides	origin			polysaccharides	Fterm		origin			Analysis of the S15(T) genome revealed the presence of 404 genes that are involved in carbohydrate metabolism, which indicates the metabolic potential to degrade polysaccharides of plant and fungal origin.
28347786	2	39	gly	GPs	356:358	arg1	monosaccharide compositions	GPs			monosaccharide compositions	OGER		GPs			The chemical characterization and monosaccharide compositions of GPs, named as GP-1, GP-2, GP-3, and GP-4, were determined by PMP-HPLC and FT-IR.
25498203	0	3	gly	G3977	81:85	arg1	the O-polysaccharides			G3983 and G3977	the O-polysaccharides			Cronobacter spp	Q8TCT9	G3983 and G3977	Related structures of the O-polysaccharides of Cronobacter dublinensis G3983 and G3977 containing 3-(N-acetyl-L-alanyl)amino-3,6-dideoxy-D-galactose.
25498203	0	45	gly	G3983	71:75	arg1	the O-polysaccharides			G3983 and G3977	the O-polysaccharides			Cronobacter spp	Q8TCT9	G3983 and G3977	Related structures of the O-polysaccharides of Cronobacter dublinensis G3983 and G3977 containing 3-(N-acetyl-L-alanyl)amino-3,6-dideoxy-D-galactose.
27310468	1	1	gly	sialylated	135:144	arg1	a sialylated Fc-fusion protein	a sialylated Fc-fusion protein				Fterm		protein			A Chinese hamster ovary (CHO) bioprocess, where the product is a sialylated Fc-fusion protein, was operated at pilot and manufacturing scale and significant variation of sialylation level was observed.
27118501	10	17	gly	used	1464:1467	arg2	the same compositions			the same compositions						positions	Although the same compositions and manufacturing methods were used for all the pellets sizes, the cores produced through a 0.6 and 0.8 mm mesh screens showed similar properties while the properties of cores produced through a 1.0 mm mesh screen were rather different.
28620376	5	32	gly	glycosylation	724:736	arg1	murine IgG-Fc	murine IgG-Fc				PUBTATOR		IgG	668542		To characterize the glycosylation profile of murine IgG-Fc and in addition evaluate the systematic glycosylation differences between mouse strains, sexes, and IgG subclasses, we used nanoliquid chromatography mass spectrometry (nanoLC-MS(/MS)) to look at the subclass-specific IgG Fc-glycopeptides of male and female mice from the strains BALB/c, C57BL/6, CD-1, and Swiss Webster.
28620376	5	86	gly	Fc-glycopeptides	985:1000	arg1	C57BL/6	C57BL/6, CD-1		Fc-glycopeptides		PUBTATOR		C57BL/6, CD-1	111334	Fc-glycopeptides	To characterize the glycosylation profile of murine IgG-Fc and in addition evaluate the systematic glycosylation differences between mouse strains, sexes, and IgG subclasses, we used nanoliquid chromatography mass spectrometry (nanoLC-MS(/MS)) to look at the subclass-specific IgG Fc-glycopeptides of male and female mice from the strains BALB/c, C57BL/6, CD-1, and Swiss Webster.
28620376	5	86	gly	Fc-glycopeptides	985:1000	arg1	CD-1	C57BL/6, CD-1		Fc-glycopeptides		PUBTATOR		C57BL/6, CD-1	111334	Fc-glycopeptides	To characterize the glycosylation profile of murine IgG-Fc and in addition evaluate the systematic glycosylation differences between mouse strains, sexes, and IgG subclasses, we used nanoliquid chromatography mass spectrometry (nanoLC-MS(/MS)) to look at the subclass-specific IgG Fc-glycopeptides of male and female mice from the strains BALB/c, C57BL/6, CD-1, and Swiss Webster.
28620376	5	86	gly	Fc-glycopeptides	985:1000	arg1	CD-1	C57BL/6, CD-1				PUBTATOR		C57BL/6, CD-1	111334		To characterize the glycosylation profile of murine IgG-Fc and in addition evaluate the systematic glycosylation differences between mouse strains, sexes, and IgG subclasses, we used nanoliquid chromatography mass spectrometry (nanoLC-MS(/MS)) to look at the subclass-specific IgG Fc-glycopeptides of male and female mice from the strains BALB/c, C57BL/6, CD-1, and Swiss Webster.
26704999	4	58	gly	possessed	449:457	arg1	PGP AND sugar composition	PGP			sugar composition	OGER		PGP	A6NDG6		Data indicated that PGP possessed sugar composition of rhamnose (2%), arabinose (3%), mannose (3%), galactose (94%) and uronic acid (17%) confirming that PGP thus isolated is a galactan.
24407857	3	35	gly	derived	170:176	arg2	chitin AND a polysaccharide	chitin			a polysaccharide	Fterm		chitin			Chitosan (CS), a polysaccharide derived from chitin, the second most abundant polysaccharide, is widely used in the medical world because of its natural and nontoxic properties and its innate ability for antibacterial and hemostasis effects.
28950882	6	87	gly	strain	1194:1199	arg1	28.95% total sugar	strain			28.95% total sugar	Fterm		strain			The composition of the bioflocculant from the epsB recombinant strain was 28.95% total sugar, 3.464% protein and 44.03% γ-PGA, while in the original strain, these components represented 53.67%, 3.246% and 34.13%, respectively.
26337523	2	78	gly	SPS-CF	1206:1211	arg1	xylose	SPS			xylose	OGER		SPS	P49903		However, the results of the present study re-performed for monosaccharide composition of this polysaccharide using, in addition to HPLC of PMP-labelled sugars, other separation methods, i.e. high-performance anion-exchange chromatography with pulsed amperometric detection (HPAEC-PAD), gas chromatography with flame ionising detection (GC-FID) and thin-layer chromatography (TLC), clearly demonstrated that the most prominent neutral monosaccharides of SPS-CF are xylose (38.6-49.4 mol %) and rhamnose (39.6-45 mol %), while mannose and galactose are present at a much lesser extent or in negligible amount.
26337523	2	78	gly	SPS-CF	1206:1211	arg1	the most prominent neutral monosaccharides	SPS			the most prominent neutral monosaccharides	OGER		SPS	P49903		However, the results of the present study re-performed for monosaccharide composition of this polysaccharide using, in addition to HPLC of PMP-labelled sugars, other separation methods, i.e. high-performance anion-exchange chromatography with pulsed amperometric detection (HPAEC-PAD), gas chromatography with flame ionising detection (GC-FID) and thin-layer chromatography (TLC), clearly demonstrated that the most prominent neutral monosaccharides of SPS-CF are xylose (38.6-49.4 mol %) and rhamnose (39.6-45 mol %), while mannose and galactose are present at a much lesser extent or in negligible amount.
24407857	10	43	gly	used	1744:1747	arg2	the biodegradable, biocompatible and nontoxic [CEL + CS] composites			the biodegradable, biocompatible and nontoxic [CEL + CS] composites						composites	These results clearly indicate that the biodegradable, biocompatible and nontoxic [CEL + CS] composites, particularly those dried by lyophilizing, can be effectively used as a material in wound dressings.
28433181	2	15	gly	SPS2p	418:422	arg1	the monosaccharide composition	SPS2p			the monosaccharide composition	PUBTATOR		SPS2p	22928		The molecular weight of SPS2p showed only one molecular weight distribution (2.6×104Da) and the monosaccharide composition of SPS2p showed the presence of arabinose, mannose, glucose and galactose at the ratio of 1.31:1.00:3.59:1.59.
26484870	4	18	gly	glycoprotein	834:845	arg1	any betaherpesvirus glycoprotein	any betaherpesvirus glycoprotein				Fterm		glycoprotein			Here, we report the crystal structure of the HCMV gB ectodomain determined to 3.6-Å resolution, which is the first atomic-level structure of any betaherpesvirus glycoprotein.
24057866	2	78	gly	Lewis	437:441	arg1	AAL-reactive core fucose	Lewis(			AAL-reactive core fucose	PUBTATOR		Lewis(	2526		The seminal IgG and SC are decorated with AAL-reactive core fucose, and antennary UEA- and LTA-reactive fucose of Lewis(y) and Lewis(x) structures, respectively.
24057866	2	78	gly	Lewis	437:441	arg1	LTA-reactive fucose	Lewis(			LTA-reactive fucose	PUBTATOR		Lewis(	2526		The seminal IgG and SC are decorated with AAL-reactive core fucose, and antennary UEA- and LTA-reactive fucose of Lewis(y) and Lewis(x) structures, respectively.
26088135	10	13	gly	glycosylated	1187:1198	arg1	Cleaved, uncleaved, and fully or partially glycosylated trimers	Cleaved, uncleaved, and fully or partially glycosylated trimers				Fterm		trimers			Cleaved, uncleaved, and fully or partially glycosylated trimers from different clade viruses were produced.
27148706	5	75	gly	proteins	1161:1168	arg1	polysaccharides	proteins			polysaccharides	Fterm		proteins			Fourier transform infrared spectroscopy and X-ray photoelectron spectroscopy analysis demonstrated that Fe(III) exerted a significant influence on the -CONH- groups of proteins and the C-O groups of polysaccharides in EPS.
29558056	3	61	gly	proteins	597:604	arg1	a water-soluble polysaccharides	proteins			a water-soluble polysaccharides	Fterm		proteins			The submerged mycelium of F.velutipes strain Fv-1 contained 14.8% of a water-soluble polysaccharides, 31.6% of proteins, 2.5% of total lipids, vitamins B (B1, B5, B6).
26791584	2	44	gly	PAL	239:241	arg1	glucose	PAL			glucose	OGER		PAL	Q9P2V4		The primary monosaccharide composition of the PAL was determined to be glucose, where HPAEC analysis showed no significant amount of any other sugars.
26791584	2	44	gly	PAL	239:241	arg1	The primary monosaccharide composition	PAL			The primary monosaccharide composition	OGER		PAL	Q9P2V4		The primary monosaccharide composition of the PAL was determined to be glucose, where HPAEC analysis showed no significant amount of any other sugars.
25863346	4	72	gly	O-glycosylated	1047:1060	arg1	the hCGβ-CTP domain			the hCGβ-CTP domain						domain	The data suggested that the secretion efficiency of these variants from the transfected cells was unaffected by the presence or absence of the CTP linker, N-glycans were attached to the analogs and the hCGβ-CTP domain in the FSHβCTPα variant was O-glycosylated.
25629585	5	28	gly	glycopeptides	983:995	arg2	N-linked glycopeptides			N-linked glycopeptides						glycopeptides	To ensure accurate Y1-ion assignment, we propose a novel algorithm called Trident that detects a triplet pattern corresponding to [Y0, Y1, Y2] or [Y0-NH3, Y0, Y1] from the fragmentation of the common trimannosyl core of N-linked glycopeptides.
26484870	2	40	gly	glycoprotein	424:435	arg1	glycoprotein B	glycoprotein B				Fterm		glycoprotein B			Entry of HCMV into cells requires the conserved glycoprotein B (gB), thought to function as a fusogen and reported to bind signaling receptors.
26731606	0	42	gly	Glycosylation	0:12	arg1	SOS5	SOS5				PUBTATOR		SOS5	823808		Glycosylation of a Fasciclin-Like Arabinogalactan-Protein (SOS5) Mediates Root Growth and Seed Mucilage Adherence via a Cell Wall Receptor-Like Kinase (FEI1/FEI2) Pathway in Arabidopsis.
26731606	0	42	gly	Glycosylation	0:12	arg1	a Fasciclin-Like Arabinogalactan-Protein	a Fasciclin-Like Arabinogalactan-Protein				PUBTATOR		Fasciclin-Like Arabinogalactan-Protein	829121		Glycosylation of a Fasciclin-Like Arabinogalactan-Protein (SOS5) Mediates Root Growth and Seed Mucilage Adherence via a Cell Wall Receptor-Like Kinase (FEI1/FEI2) Pathway in Arabidopsis.
28620376	6	18	gly	fucosylated	1148:1158	arg1	predominantly fucosylated, diantennary glycans				predominantly fucosylated, diantennary glycans						The structural analysis revealed the presence of predominantly fucosylated, diantennary glycans, with varying amounts of galactosylation and α2,6-sialylation.
29166575	2	8	gly	presence	566:573	arg1	its composition AND polysaccharides	CGE		position	polysaccharides	OGER		CGE	A0A0U1RPR8	position	AIM OF THE STUDY In the present study, we aimed at forming a chemical characterization and investigation of the antinociceptive and anti-inflammatory activities of the aqueous extract of cashew gum without the presence of polysaccharides in its composition (CGE).
26280087	0	2	gly	O-GlcNAc	9:16	arg1	HLA Class-I-Bound Peptides			HLA Class-I-Bound Peptides	HLA Class-I-Bound Peptides						Extended O-GlcNAc on HLA Class-I-Bound Peptides.
25750913	5	74	gly	glycoproteins	726:738	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			We used glycan microarrays and antibodies to identify the major classes of glycans and glycoproteins present in the cell walls of these sections, and identified the expected decrease in pectin and increase in xylan from the meristematic zone (MS), through the rapid and late elongation zones (REZ, LEZ) to the maturation zone and the rest of the root, including the emerging lateral roots.
25655826	3	17	gly	glycoproteins	358:370	arg1	hydroxyproline-rich glycoproteins	hydroxyproline-rich glycoproteins				Fterm		glycoproteins			In addition to polysaccharides, plant cell walls are composed of hydroxyproline-rich glycoproteins (HRGPs), which include several groups of O-glycoproteins, including extensins (EXTs).
25655826	3	49	gly	O-glycoproteins	413:427	arg1	O-glycoproteins	O-glycoproteins				Fterm		O-glycoproteins			In addition to polysaccharides, plant cell walls are composed of hydroxyproline-rich glycoproteins (HRGPs), which include several groups of O-glycoproteins, including extensins (EXTs).
29253994	5	47	gly	-α-IdoA2S	804:812	arg1	the sequence			the sequence						sequence	Structural analysis clarified that the uronic acid unit in glycosaminoglycan (GAG) is the fully epimerized and the sequence of AF-GAG is →4)-α-GlcNAc (1→4)-α-IdoA2S (1→.
26484870	7	44	gly	glycosylation	1218:1230	arg1	the gB ectodomain			the gB ectodomain						ectodomain	The structure illustrates how extensive glycosylation of the gB ectodomain influences antibody recognition.
24310794	6	64	gly	enoxaparin	1086:1095	arg1	14 different oligosaccharides	enoxaparin			14 different oligosaccharides	Fterm		enoxaparin			The effects on cellular proliferation of 14 different oligosaccharides of enoxaparin obtained through ion-exchange chromatography were also assessed.
25726973	0	13	gly	glycoprotein	90:101	arg1	porcine reproductive and respiratory syndrome virus envelope glycoprotein 5	porcine reproductive and respiratory syndrome virus envelope glycoprotein 5				PUBTATOR		envelope glycoprotein 5	155971		N-glycosylation profiling of porcine reproductive and respiratory syndrome virus envelope glycoprotein 5.
24737672	5	52	gly	glycoproteins	1087:1099	arg1	properly folded secretory glycoproteins	glycoproteins			regular N-glycan processing	Fterm		glycoproteins			By contrast, N-glycan analysis of different mns mutant combinations revealed that MNS4 and MNS5 are not involved in regular N-glycan processing of properly folded secretory glycoproteins.
25629585	4	24	gly	glycoproteins	653:665	arg1	unknown glycoproteins	unknown glycoproteins				Fterm		glycoproteins			The identification of the Y1 (peptideY0 + GlcNAc) ion is critical for the correct analysis of unknown glycoproteins, especially without prior knowledge of the proteins and glycans present in the sample.
26724686	2	24	gly	protein	310:316	arg1	carbohydrate	protein			carbohydrate	Fterm		protein			The sulfated polysaccharide contained 61.3% of carbohydrate, 0.8% of protein, 28.2% of ash and 1.33% of moisture respectively.
24415556	0	58	gly	glycoprotein	35:46	arg1	human UDP-glucose:glycoprotein glucosyltransferase				human UDP-glucose:glycoprotein glucosyltransferase						Both isoforms of human UDP-glucose:glycoprotein glucosyltransferase are enzymatically active.
27402833	1	6	gly	glycoprotein	79:90	arg1	The HIV-1 envelope glycoprotein gp120	The HIV-1 envelope glycoprotein gp120				Fterm		glycoprotein			The HIV-1 envelope glycoprotein gp120 is heavily glycosylated and bears numerous high mannose sugars.
27402833	1	25	gly	glycosylated	109:120	arg1	The HIV-1 envelope glycoprotein gp120	The HIV-1 envelope glycoprotein gp120				PUBTATOR		gp120	3700		The HIV-1 envelope glycoprotein gp120 is heavily glycosylated and bears numerous high mannose sugars.
27402833	1	56	gly	bears	126:130	arg1	The HIV-1 envelope glycoprotein gp120 AND numerous high mannose sugars	The HIV-1 envelope glycoprotein gp120			numerous high mannose sugars	PUBTATOR		gp120	3700		The HIV-1 envelope glycoprotein gp120 is heavily glycosylated and bears numerous high mannose sugars.
24310794	0	29	gly	pro-	18:21	arg1	pro- and anti-proliferative oligosaccharides			pro	pro- and anti-proliferative oligosaccharides					pro	Identification of pro- and anti-proliferative oligosaccharides of heparins.
29156586	10	27	gly	glycopeptides	1680:1692	arg2	four glycopeptides			four glycopeptides						glycopeptides	Finally, the presence of an S-cysteinylation and hydroxylation of proline on four glycopeptides, never described to date in snake venoms, is also revealed by proteomics and affined by nuclear magnetic resonance (NMR) experiments.
25629585	2	10	gly	glycopeptide	258:269	arg2	intact glycopeptide spectra			intact glycopeptide spectra						glycopeptide	Interpretation of intact glycopeptide spectra is crucial but challenging.
25589358	5	58	gly	glycoproteins	809:821	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			One of the polysaccharides had a low molecular weight, compatible with the association with glycoproteins abundantly occurring in yECM.
25915761	3	13	gly	glycosylated	416:427	arg1	the corresponding threonine			the corresponding threonine						threonine	For SIVmac239, the corresponding threonine was also glycosylated when gp120 was recombinantly expressed.
25629585	8	30	gly	glycopeptides	1555:1567	arg2	16 glycopeptides			16 glycopeptides						glycopeptides	For the model glycoprotein horseradish peroxidase (HRP) and a 5-glycoprotein mixture, a 2- to 31-fold increase in the relative intensities of the peptide fragments was achieved, which led to the identification of 7 tryptic glycopeptides from HRP and 16 glycopeptides from the mixture via Mascot.
25629585	8	54	gly	glycopeptides	1525:1537	arg2	7 tryptic glycopeptides			7 tryptic glycopeptides						glycopeptides	For the model glycoprotein horseradish peroxidase (HRP) and a 5-glycoprotein mixture, a 2- to 31-fold increase in the relative intensities of the peptide fragments was achieved, which led to the identification of 7 tryptic glycopeptides from HRP and 16 glycopeptides from the mixture via Mascot.
25629585	8	92	gly	glycoprotein	1316:1327	arg1	the model glycoprotein horseradish peroxidase	the model glycoprotein horseradish peroxidase				Fterm		glycoprotein			For the model glycoprotein horseradish peroxidase (HRP) and a 5-glycoprotein mixture, a 2- to 31-fold increase in the relative intensities of the peptide fragments was achieved, which led to the identification of 7 tryptic glycopeptides from HRP and 16 glycopeptides from the mixture via Mascot.
25629585	8	109	gly	5-glycoprotein	1364:1377	arg1	5-glycoprotein	5-glycoprotein				Fterm		5-glycoprotein			For the model glycoprotein horseradish peroxidase (HRP) and a 5-glycoprotein mixture, a 2- to 31-fold increase in the relative intensities of the peptide fragments was achieved, which led to the identification of 7 tryptic glycopeptides from HRP and 16 glycopeptides from the mixture via Mascot.
27845783	0	28	gly	glycopeptide	91:102	arg2	glycopeptide enrichment			glycopeptide enrichment						glycopeptide	Characterization of lectin binding affinities via direct LC-MS profiling: implications for glycopeptide enrichment and separation strategies.
25211026	2	76	gly	N-glycosylation	393:407	arg2	two conserved N-glycosylation sites			two conserved N-glycosylation sites						sites	Pr(PC) is a sialoglycoprotein that contains two conserved N-glycosylation sites.
25211026	2	136	gly	sialoglycoprotein	347:363	arg1	a sialoglycoprotein	a sialoglycoprotein				Fterm		sialoglycoprotein	19122		Pr(PC) is a sialoglycoprotein that contains two conserved N-glycosylation sites.
25211026	2	136	gly	sialoglycoprotein	347:363	arg1	Pr	Pr				PUBTATOR		Pr(PC	19122		Pr(PC) is a sialoglycoprotein that contains two conserved N-glycosylation sites.
25505137	2	40	gly	heterogeneity	213:225	arg1	surface carbohydrate compositions				surface carbohydrate compositions						It is well known that different types of Bacillus display heterogeneity of surface carbohydrate compositions, but detection of their presence, quantitation and estimation of variation at the single cell level have not been previously solved.
25498203	5	37	gly	α-D-Glcp	818:825	arg1	strain G3983	strain			α-D-Glcp	Fterm		strain			The following structures of the O-polysaccharides were established: [Formula: see text] where R indicates H in strain G3983 or α-D-Glcp in strain G3977, d-Fuc3NAlaAc indicates 3-(N-acetyl-L-alanyl)amino-3,6-dideoxy-D-galactose.
25211026	9	62	gly	PrP	1403:1405	arg1	de-sialylation	PrP			de-sialylation	PUBTATOR		PrP	19122		Moreover, de-sialylation of PrP(C) reduced or eliminated a species barrier of for prion amplification in PMCAb.
25211026	9	85	gly	de-sialylation	1385:1398	arg1	C	C				Cterm		C	19122		Moreover, de-sialylation of PrP(C) reduced or eliminated a species barrier of for prion amplification in PMCAb.
25211026	9	85	gly	de-sialylation	1385:1398	arg1	PrP	PrP				PUBTATOR		PrP	19122		Moreover, de-sialylation of PrP(C) reduced or eliminated a species barrier of for prion amplification in PMCAb.
28950882	1	7	gly	poly-γ-glutamic	193:207	arg1	BACKGROUND Polysaccharides			glutamic acid	BACKGROUND Polysaccharides					glutamic acid	BACKGROUND Polysaccharides and poly-γ-glutamic acid (γ-PGA) are biomacromolecules that have been reported as bioflocculants, and they exhibit high flocculating activity in many industrial applications.
25421533	6	27	gly	contained	864:872	arg1	EPA AND polysaccharides	EPA			polysaccharides	OGER		EPA	P01033		EPA contained polyphenols, flavonoids and polysaccharides, with polysaccharide content at least 26 times greater than that of polyphenols and flavonoids.
28620376	3	69	gly	Fc-glycosylation	453:468	arg1	IgG effector functions	IgG effector functions				PUBTATOR		IgG	668542		The mouse is often used as experimental animal model to study the effects of Fc-glycosylation on IgG effector functions, and results are not uncommonly translated back to the human situation.
27449907	2	55	gly	glycosylated	626:637	arg1	properly folded and glycosylated fragments			properly folded and glycosylated fragments						fragments	Because both of these epitopes are poorly immunogenic in the context of full length envelope proteins, immunization with properly folded and glycosylated fragments (scaffolds) represents a potential way to enhance the immune response to these specific epitopes.
28821034	1	11	gly	enzymes	321:327	arg1	Nostoc flagelliforme extracellular polysaccharide	enzymes			Nostoc flagelliforme extracellular polysaccharide	Fterm		enzymes			The relationship between monosaccharide composition of Nostoc flagelliforme extracellular polysaccharide (EPS) and activities of EPS synthesis enzymes under various carbon sources, nitrogen sources and light culture condition was investigated.
28807689	3	28	gly	AVP	582:584	arg1	d-galactose	AVP			d-galactose	PUBTATOR		AVP	551		The main monosaccharide compositions of AVP were d-galactose, d-xylose, d-mannose, d-glucose and d-glucuronic acid.
28807689	3	28	gly	AVP	582:584	arg1	The main monosaccharide compositions	AVP			The main monosaccharide compositions	PUBTATOR		AVP	551		The main monosaccharide compositions of AVP were d-galactose, d-xylose, d-mannose, d-glucose and d-glucuronic acid.
24737672	6	18	gly	glycoproteins	1159:1171	arg1	ER-retained glycoproteins	ER-retained glycoproteins				Fterm		glycoproteins			Overexpression of MNS4 or MNS5 together with ER-retained glycoproteins indicates further that both enzymes can convert Glc0-1Man8-9GlcNAc2 into N-glycans with a terminal α1,6-linked Man residue in the C-branch.
28655919	6	54	gly	used	692:695	arg2	The composites			The composites						composites	The composites were used as efficient absorbents to remove radioiodine anions from water and capture a high amount of I2 vapor in the forms of AgI and iodine molecules.
27302279	0	50	gly	Glycosylation	0:12	arg1	plasma IgG	plasma IgG				PUBTATOR		IgG	16059		Glycosylation of plasma IgG in colorectal cancer prognosis.
25211026	14	33	gly	sialidase	2005:2013	arg1	lysosomal sialidase Neu1	lysosomal sialidase			lysosomal sialidase Neu1	OGER		lysosomal sialidase	Q99519		Knocking out lysosomal sialidase Neu1 did not change the sialylation status of brain-derived PrP(C), suggesting that Neu1 is not responsible for desialylation of PrP(C).
25211026	14	43	gly	PrP	2144:2146	arg1	desialylation	PrP			desialylation	PUBTATOR		PrP	19122		Knocking out lysosomal sialidase Neu1 did not change the sialylation status of brain-derived PrP(C), suggesting that Neu1 is not responsible for desialylation of PrP(C).
25211026	14	55	gly	sialylation	2039:2049	arg1	C	C				Cterm		C	19122		Knocking out lysosomal sialidase Neu1 did not change the sialylation status of brain-derived PrP(C), suggesting that Neu1 is not responsible for desialylation of PrP(C).
25211026	14	55	gly	sialylation	2039:2049	arg1	brain-derived PrP	brain-derived PrP				PUBTATOR		PrP	19122		Knocking out lysosomal sialidase Neu1 did not change the sialylation status of brain-derived PrP(C), suggesting that Neu1 is not responsible for desialylation of PrP(C).
25211026	14	82	gly	PrP	2075:2077	arg1	the sialylation status	PrP			the sialylation status	PUBTATOR		PrP	19122		Knocking out lysosomal sialidase Neu1 did not change the sialylation status of brain-derived PrP(C), suggesting that Neu1 is not responsible for desialylation of PrP(C).
25211026	14	91	gly	desialylation	2127:2139	arg1	PrP	PrP				PUBTATOR		PrP	19122		Knocking out lysosomal sialidase Neu1 did not change the sialylation status of brain-derived PrP(C), suggesting that Neu1 is not responsible for desialylation of PrP(C).
25211026	14	91	gly	desialylation	2127:2139	arg1	C	C				Cterm		C	19122		Knocking out lysosomal sialidase Neu1 did not change the sialylation status of brain-derived PrP(C), suggesting that Neu1 is not responsible for desialylation of PrP(C).
25211026	14	116	gly	lysosomal	1995:2003	arg1	lysosomal sialidase Neu1	lysosomal sialidase			lysosomal sialidase Neu1	OGER		lysosomal sialidase	Q99519		Knocking out lysosomal sialidase Neu1 did not change the sialylation status of brain-derived PrP(C), suggesting that Neu1 is not responsible for desialylation of PrP(C).
28620376	0	35	gly	N-Glycosylation	4:18	arg1	Mouse Immunoglobulin G	Mouse Immunoglobulin G				PUBTATOR		Mouse Immunoglobulin G	668542		The N-Glycosylation of Mouse Immunoglobulin G (IgG)-Fragment Crystallizable Differs Between IgG Subclasses and Strains.
28620376	0	35	gly	N-Glycosylation	4:18	arg1	IgG	IgG				PUBTATOR		IgG	668542		The N-Glycosylation of Mouse Immunoglobulin G (IgG)-Fragment Crystallizable Differs Between IgG Subclasses and Strains.
24793172	1	80	gly	used	329:332	arg2	the resulting composites			the resulting composites						composites	Collagen, chitosan-polycaprolactone (CH-PCL) copolymer with PCL content of around 40wt% and chondroitin sulfate (CS) were mixed together at various ratios to prepare collagen/CH-PCL/CS composites and the resulting composites were used to build stratified porous scaffolds that are potentially applicable for articular cartilage repair.
27508003	7	108	gly	N-glycosylation	1121:1135	arg2	182 N-glycosylation sites			182 N-glycosylation sites						sites	A total of 182 N-glycosylation sites were identified, of which 121 were detected in 67 CAZymes.
28708979	10	87	gly	glycan	1819:1824	arg1	composition			composition	composition		Site			position	MD simulations revealed: i) although membrane-bound glycans do not form stable long-living aggregates, their transient packing is more compact in natural Gb3 as compared with the synthetic analog, ii) similar conformation of Pk glycan in composition of the glycolipids, iii) no effect on the mentioned above results when cholesterol was inserted into membrane, and iv) better accessibility of the synthetic version for interaction with proteins.
29556562	6	31	gly	N-glycosylation	936:950	arg2	seven N-glycosylation sites			seven N-glycosylation sites						sites	Moreover, seven N-glycosylation sites were found in the structure, and 49 glycans bound to the two ZoPrx molecules found in the asymmetric unit are clearly visible in the electron density map.
27402833	4	22	gly	units	663:667	arg1	the D1 and D3 arms			the D1 and D3 arms	the D1 and D3 arms		Site			arms	The Cyt-CVNH structure and glycan recognition profile are similar to those of other CVNH proteins, with each domain specifically binding to Manα(1-2)Manα units on the D1 and D3 arms of high mannose glycans.
26359989	3	10	gly	glycosylated	571:582	arg1	fully glycosylated Env trimer	fully glycosylated Env trimer				PUBTATOR		Env trimer	100616444		To investigate 8ANC195's gp41 epitope at higher resolution, we solved a 3.58 Å crystal structure of 8ANC195 complexed with fully glycosylated Env trimer, revealing 8ANC195 insertion into a glycan shield gap to contact gp120 and gp41 glycans and protein residues.
26454110	1	20	gly	GPS	277:279	arg1	a water-soluble polysaccharide	GPS			a water-soluble polysaccharide	OGER		GPS			To contribute toward effective exploitation and utilization of spent mushroom compost (SMC) of Ganoderma lucidum (SMC-G), a water-soluble polysaccharide of GPS was extracted, and then two fractions (GPS-1 and GPS-2) were purified from SMC-G.
25677379	1	0	gly	glycoproteins	263:275	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			The cell wall of fungi is generally composed of an inner skeletal layer consisting of various polysaccharides surrounded by a layer of glycoproteins.
27259648	1	17	gly	IPS-1	188:192	arg1	the intracellular polysaccharide (IPS)	IPS-1			the intracellular polysaccharide (IPS)	OGER		IPS-1	Q9NPH2		In present study, the intracellular polysaccharide (IPS) and its two fractions of IPS-1 and IPS-2 were obtained and purified by DEAE-52 cellulose chromatography from Pleurotus eryngii SI-04 mycelia, and their hepatoprotective effects were also investigated.
24415556	6	12	gly	proteins	1210:1217	arg1	glycan specificity	proteins			glycan specificity	Fterm		proteins			The analysis, for the first time, revealed the glucosyltransferase activity of UGGT2, whose specificity was shown to be quite similar to UGGT1, in terms of both glycan specificity and preferential recognition of proteins having non-native conformations.
25655826	4	25	gly	O-glycosylation	605:619	arg2	their subsequent O-glycosylation sites			their subsequent O-glycosylation sites						sites	Proline hydroxylation, an early post-translational modification (PTM) of HRGPs catalyzed by prolyl 4-hydroxylases (P4Hs), defines their subsequent O-glycosylation sites.
26109728	14	0	gly	glycoprotein	2211:2222	arg1	the virus envelope glycoprotein	the virus envelope glycoprotein				PUBTATOR		envelope glycoprotein	100616444		The V3 loop is one of the few immunogenic targets on the virus envelope glycoprotein that can induce neutralizing antibodies, but in many viruses, parts of V3 are inaccessible for antibody recognition.