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Glycosciences.DB structure entry #3821:
b-D-Manp-(1-4)-b-D-GlcpNAc-(1-4)-b-D-GlcpNAc
[][B-D-GLCPNAC]{[(4+1)][B-D-GLCPNAC]{[(4+1)][B-D-MANP]{}}}
RES
1b:b-dglc-HEX-1:5
2s:n-acetyl
3b:b-dglc-HEX-1:5
4s:n-acetyl
5b:b-dman-HEX-1:5
LIN
1:1d(2+1)2n
2:1o(4+1)3d
3:3d(2+1)4n
4:3o(4+1)5d
<?xml version="1.0" encoding="UTF-8"?>
<sugar version="1.0">
<residues>
<basetype id="1" anomer="b" superclass="hex" ringStart="1" ringEnd="5" name="b-dglc-HEX-1:5">
<stemtype id="1" type="dglc" />
</basetype>
<substituent id="2" name="n-acetyl" />
<basetype id="3" anomer="b" superclass="hex" ringStart="1" ringEnd="5" name="b-dglc-HEX-1:5">
<stemtype id="1" type="dglc" />
</basetype>
<substituent id="4" name="n-acetyl" />
<basetype id="5" anomer="b" superclass="hex" ringStart="1" ringEnd="5" name="b-dman-HEX-1:5">
<stemtype id="1" type="dman" />
</basetype>
</residues>
<linkages>
<connection id="1" parent="1" child="2">
<linkage id="1" parentType="d" childType="n">
<parent pos="2" />
<child pos="1" />
</linkage>
</connection>
<connection id="2" parent="1" child="3">
<linkage id="2" parentType="o" childType="d">
<parent pos="4" />
<child pos="1" />
</linkage>
</connection>
<connection id="3" parent="3" child="4">
<linkage id="3" parentType="d" childType="n">
<parent pos="2" />
<child pos="1" />
</linkage>
</connection>
<connection id="4" parent="3" child="5">
<linkage id="4" parentType="o" childType="d">
<parent pos="4" />
<child pos="1" />
</linkage>
</connection>
</linkages>
</sugar>
3D Structure Model1 - 5 of 8 entries with matching glycan part
Structure entry #551: N-Glycan fragment GlcNAc2Man1
b-D-Manp-(1-4)-b-D-GlcpNAc-(1-4)-b-D-GlcpNAc-(1-4)-Asn
 |
 |
 : 1478 |
 : 12 |
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Taxons: 3 |
Structure entry #3409:
b-D-Manp-(1-4)-b-D-GlcpNAc-(1-4)-b-D-GlcpNAc-(1-4)-Asn-(2-1)-Acetate
 |
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: 1 |
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Taxons |
Structure entry #5704:
b-D-Manp-(1-4)-b-D-GlcpNAc-(1-4)-b-D-GlcpNAc-(1-7)-<7-amino-4-methyl-2h-1-benzopyran-2-one>
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: 1 |
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Taxons |
Structure entry #13373:
b-D-Manp-(1-4)-b-D-GlcpNAc-(1-4)-b-D-GlcpNAc-(1-4)+
|
Asn-(1-2)-Tyr-(1-2)-Thr
|
octanoate-(1-2)+
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: 2 |
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Taxons: 1 |
Structure entry #13729:
b-D-Manp-(1-4)-b-D-GlcpNAc-(1-4)-b-D-GlcpNAc-(1-O)-dolichol-PP
|
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: 3 |
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Taxons: 1 |
| Chemical Formula: | C22H38N2O16 | #C | #H | #O | #N | |
| Molec. Weight: | 586 | 22 | 38 | 16 | 2 | |
| # Atoms: | 78 | |||||
| # Residues: | 3 | |||||
| # Heavy Atoms: | 40 | |||||
Superclasses:
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Residues:
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PDB references: 21 - 2 of 2 PDB entries
PDB ID 6zp5:
SARS-CoV-2 spike in prefusion state (flexibility analysis, 1-up closed conformation)
Description: Spike glycoprotein
Source: Severe acute respiratory syndrome coronavirus 2
Experimental method: ELECTRON MICROSCOPY
Release date: 2020-07-29
Entry features 6 distinct glycan structures [46 instances].
PDB ID 6zp7:
SARS-CoV-2 spike in prefusion state (flexibility analysis, 1-up open conformation)
Description: Spike glycoprotein
Source: Severe acute respiratory syndrome coronavirus 2
Experimental method: ELECTRON MICROSCOPY
Release date: 2020-07-29
Entry features 6 distinct glycan structures [46 instances].
Conformational maps: 6
Map ID: 8783
Disaccharide Fragment: b-D-Manp-(1-4)-b-D-GlcpNAc
Linkage Path: 44
Method: MD MM3(1996) Tinker 4 HTMD, 1000K, 30ns
Map ID: 8784
Disaccharide Fragment: b-D-GlcpNAc-(1-4)-b-D-GlcpNAc
Linkage Path: 4
Method: MD MM3(1996) Tinker 4 HTMD, 1000K, 30ns
Map ID: 8808
Disaccharide Fragment: b-D-Manp-(1-4)-b-D-GlcpNAc
Linkage Path: 44
Method: MD MM3(1996) Tinker 4 HTMD, 1000K, 30ns
Map ID: 8809
Disaccharide Fragment: b-D-GlcpNAc-(1-4)-b-D-GlcpNAc
Linkage Path: 4
Method: MD MM3(1996) Tinker 4 HTMD, 1000K, 30ns
Map ID: 9353
Disaccharide Fragment: b-D-Manp-(1-4)-b-D-GlcpNAc
Linkage Path: 44
Method: MD MM3(1996) Tinker 4 HTMD, 1000K, 30ns
Map ID: 9354
Disaccharide Fragment: b-D-GlcpNAc-(1-4)-b-D-GlcpNAc
Linkage Path: 4
Method: MD MM3(1996) Tinker 4 HTMD, 1000K, 30ns
Literature references: 71 - 5 of 7 literature references
Reference #21648
Robakiewicz S; Bridot C; Serna S; Gimeno A; Echeverria B; Delgado S; de Ruyck J; Semwal S; Charro D; Dansercoer A; Verstraete K; Azkargorta M; van Noort K; Wilbers RHP; Savvides SN; Abrescia NGA; Arda A; Reichardt NC; Jiménez-Barbero J; Bouckaert J
Minimal epitope for Mannitou IgM on paucimannose-carrying glycoproteins.
Published 2021 in Glycobiology, 31: 1005-1017
Reference contains 29 structures
Reference #20687
Harbison AM; Brosnan LP; Fenlon K; Fadda E
Sequence-to-structure dependence of isolated IgG Fc complex biantennary N-glycans: a molecular dynamics study.
Published 2019 in Glycobiology, 29: 94-103
Reference contains 20 structures
Reference #20966
Grant OC; Tessier MB; Meche L; Mahal LK; Foley BL; Woods RJ
Combining 3D structure with glycan array data provides insight into the origin of glycan specificity.
Published 2016 in Glycobiology, 26: 772-783
Reference contains 22 structures
Reference #6770
Joao HC; Dwek RA
Effects of glycosylation on protein structure and dynamics in ribonuclease B and some of its individual glycoforms
Published 1993 in Eur J Biochem, 218: 239-244
Reference contains 2 structures
Reference #7462
Cacan R; Villers C; Belard M; Kaiden A; Krag SS; Verbert A
Different fates of the oligosaccharide moieties of lipid intermediates
Published 1992 in Glycobiology, 2: 127-136
Reference contains 1 structure
1 - 1 of 1 literature references from PDB entries
Reference #22263
Melero R; Sorzano COS; Foster B; Vilas JL; Martínez M; Marabini R; Ramírez-Aportela E; Sanchez-Garcia R; Herreros D; Del Caño L; Losana P; Fonseca-Reyna YC; Conesa P; Wrapp D; Chacon P; McLellan JS; Tagare HD; Carazo JM
Continuous flexibility analysis of SARS-CoV-2 Spike prefusion structures.
Published 2020 in bioRxiv, :
| NCBI Taxonomy ID | Scientific Name |
| 10029 | Cricetulus griseus |
Consortium for Functional Glycomics (CFG):
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