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Glycosciences.DB structure entry #231: M2 N-glycan linked to Asn
a-D-Manp-(1-6)-b-D-Manp-(1-4)-b-D-GlcpNAc-(1-4)-b-D-GlcpNAc-(1-4)-Asn
[][ASN]{[(4+1)][B-D-GLCPNAC]{[(4+1)][B-D-GLCPNAC]{[(4+1)][B-D-MANP]{[(6+1)][A-D-MANP]{}}}}}
<?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>
<basetype id="6" anomer="a" superclass="hex" ringStart="1" ringEnd="5" name="a-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>
<connection id="5" parent="5" child="6">
<linkage id="5" parentType="o" childType="d">
<parent pos="6" />
<child pos="1" />
</linkage>
</connection>
</linkages>
<aglyca>
<historicalData>
<entry id="0" name="ASN" toResidue="1">
<linkage parentType="n" childType="x">
<parent pos="4" />
<child pos="1" />
</linkage>
</entry>
</historicalData>
</aglyca>
</sugar>

1 - 2 of 2 entries with matching glycan part

a-D-Manp-(1-6)-b-D-Manp-(1-4)-b-D-GlcpNAc-(1-4)-b-D-GlcpNAc
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a-D-Manp-(1-3/6)-b-D-Manp-(1-4)-b-D-GlcpNAc-(1-4)-b-D-GlcpNAc
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Taxons |
Chemical Formula: | C32H54N4O22 | #C | #H | #O | #N | |
Molec. Weight: | 846 | 32 | 54 | 22 | 4 | |
# Atoms: | 112 | |||||
# Residues: | 5 | |||||
# Heavy Atoms: | 58 |
Superclasses:
|
Residues:
|
MHz | 500 | ||||||
Temperature | 300 | ||||||
Solvent | D2O | ||||||
Residue | Linkage | Proton | PPM | JFrom | JTo | Hz | Note |
Asn | HA | 3.971 | 0 | ||||
Asn | HB | 2.851 | 0 | ||||
Asn | HB' | 2.931 | 0 | ||||
b-D-GlcpNAc | 4 | H1 | 5.071 | 0 | |||
b-D-GlcpNAc | 4 | NAC | 2.014 | 0 | |||
b-D-GlcpNAc | 4,4 | H1 | 4.618 | 0 | |||
b-D-GlcpNAc | 4,4 | NAC | 2.076 | 0 | |||
b-D-Manp | 4,4,4 | H1 | 4.767 | 0 | |||
b-D-Manp | 4,4,4 | H2 | 4.080 | 0 | |||
a-D-Manp | 6,4,4,4 | H1 | 4.915 | 0 | |||
a-D-Manp | 6,4,4,4 | H2 | 3.968 | 0 |
1 - 5 of 226 PDB entries

PDB ID 8c6i:
TMEM2 ectodomain
Description:
Source: Homo sapiens
Experimental method: X-RAY DIFFRACTION
Resolution: 3.5Å
Release date: 2023-02-01
Entry features 6 distinct glycan structures [9 instances].

PDB ID 8fis:
Structure of Bispecific CAP256V2LS-J3 Fab in complex with BG505 DS-SOSIP.664
Description:
Source: Human immunodeficiency virus 1, Lama glama, HOMO SAPIENS
Experimental method: ELECTRON MICROSCOPY
Release date: 2023-02-01
Entry features 6 distinct glycan structures [66 instances].

PDB ID 7t2d:
Crystal structure of the B1 TCR in complex with HLA-DP4-Ply
Description:
Source: Homo sapiens, Streptococcus pneumoniae
Experimental method: X-RAY DIFFRACTION
Resolution: 3.4Å
Release date: 2022-12-28
Entry features 4 distinct glycan structures [12 instances].

PDB ID 7ol4:
Mouse contactin-1 neurofascin-155 immunoglobulin domains adhesion complex
Description:
Source: Mus musculus
Experimental method: X-RAY DIFFRACTION
Resolution: 4.8Å
Release date: 2022-12-14
Entry features 10 distinct glycan structures [16 instances].

PDB ID 7uot:
Native Lassa glycoprotein in complex with neutralizing antibodies 8.9F and 37.2D
Description:
Source: Lassa virus, Homo sapiens
Experimental method: ELECTRON MICROSCOPY
Release date: 2022-11-02
Entry features 8 distinct glycan structures [33 instances].
1 - 5 of 22 literature references

Reference #21945
Ugonotti J; Kawahara R; Loke I; Zhu Y; Chatterjee S; Tjondro HC; Sumer-Bayraktar Z; Neelamegham S; Thaysen-Andersen M
N-acetyl-β-D-hexosaminidases mediate the generation of paucimannosidic proteins via a putative noncanonical truncation pathway in human neutrophils.
Published 2022 in Glycobiology, 32: 218-229
Reference contains 8 structures

Reference #21726
Tjondro HC; Ugonotti J; Kawahara R; Chatterjee S; Loke I; Chen S; Soltermann F; Hinneburg H; Parker BL; Venkatakrishnan V; Dieckmann R; Grant OC; Bylund J; Rodger A; Woods RJ; Karlsson-Bengtsson A; Struwe WB; Thaysen-Andersen M
Hyper-truncated Asn355- and Asn391-glycans modulate the activity of neutrophil granule myeloperoxidase.
Published 2021 in J Biol Chem, 296: 100144
Reference contains 20 structures

Reference #21760
Matthies I; Abrahams JL; Jensen P; Oliveira T; Kolarich D; Larsen MR
N-Glycosylation in isolated rat nerve terminals.
Published 2021 in Mol Omics, 17: 517-532
Reference contains 26 structures

Reference #20862
Loke I; Østergaard O; Heegaard NHH; Packer NH; Thaysen-Andersen M
Paucimannose-Rich N-glycosylation of Spatiotemporally Regulated Human Neutrophil Elastase Modulates Its Immune Functions.
Published 2017 in Mol. Cell Proteomics, 16: 1507-1527
Reference contains 8 structures

Reference #20861
Thaysen-Andersen M; Venkatakrishnan V; Loke I; Laurini C; Diestel S; Parker BL; Packer NH
Human neutrophils secrete bioactive paucimannosidic proteins from azurophilic granules into pathogen-infected sputum.
Published 2015 in J. Biol. Chem., 290: 8789-802
Reference contains 13 structures
1 - 5 of 122 literature references from PDB entries

Reference #21905
Huang HY; Liao HY; Chen X; Wang SW; Cheng CW; Shahed-Al-Mahmud M; Liu YM; Mohapatra A; Chen TH; Lo JM; Wu YM; Ma HH; Chang YH; Tsai HY; Chou YC; Hsueh YP; Tsai CY; Huang PY; Chang SY; Chao TL; Kao HC; Tsai YM; Chen YH; Wu CY; Jan JT; Cheng TR; Lin KI; Ma
Vaccination with SARS-CoV-2 spike protein lacking glycan shields elicits enhanced protective responses in animal models.
Published 2022 in Sci Transl Med, : eabm0899

Reference #22006
Caveney NA; Glassman CR; Jude KM; Tsutsumi N; Garcia KC
Structure of the IL-27 quaternary receptor signaling complex.
Published 2022 in Elife, 11:

Reference #22422
Wang A; Zhou F; Liu C; Gao D; Qi R; Yin Y; Liu S; Gao Y; Fu L; Xia Y; Xu Y; Wang C; Liu Z
Structure of infective Getah virus at 2.8 Å resolution determined by cryo-electron microscopy.
Published 2022 in Cell Discov, 8: 12

Reference #22485
van Schooten J; Farokhi E; Schorcht A; van den Kerkhof TLGM; Gao H; van der Woude P; Burger JA; Meesters TGR; Bijl T; Ghalaiyini R; Turner HL; Dorning J; van Schaik BDC; van Kampen AHC; Labranche CC; Stanfield RL; Sok D; Montefiori DC; Burton DR; Seaman
Identification of IOMA-class neutralizing antibodies targeting the CD4-binding site on the HIV-1 envelope glycoprotein.
Published 2022 in Nat Commun, 13: 4515

Reference #22537
Li H; Buck T; Zandonatti M; Yin J; Moon-Walker A; Fang J; Koval A; Heinrich ML; Rowland MM; Diaz Avalos R; Schendel SL; Parekh D; Zyla D; Enriquez A; Harkins S; Sullivan B; Smith V; Chukwudozie O; Watanabe R; Robinson JE; Garry RF; Branco LM; Hastie KM;
A cocktail of protective antibodies subverts the dense glycan shield of Lassa virus.
Published 2022 in Sci Transl Med, 14: eabq0991
Consortium for Functional Glycomics (CFG):
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