SMTL ID : 7ty0.1

Nipah Virus attachment (G) glycoprotein ectodomain in complex with nAH1.3 neutralizing antibody Fab fragment (local refinement of the stalk region)

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-4-2-2-mer

Ligands

6 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 3 residues within 4Å: Chain A: N.96 Chain G: S.98, P.100 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 3 residues within 4Å: Chain B: E.94, N.96 Chain H: P.100 No protein-ligand interaction detected (PLIP) NAG-NAG.3: 2 residues within 4Å: Chain G: N.243, Y.246 1 PLIP interactions: 1 interactions with chain G Hydrophobic interactions: G:Y.246 NAG-NAG.4: 5 residues within 4Å: Chain C: E.1 Chain G: N.415, W.416, R.417, N.418 No protein-ligand interaction detected (PLIP) NAG-NAG.7: 3 residues within 4Å: Chain H: T.298, K.352, N.354 No protein-ligand interaction detected (PLIP) NAG-NAG.8: 5 residues within 4Å: Chain B: S.98, C.99, P.100 Chain H: E.94, N.96 No protein-ligand interaction detected (PLIP)

1 x NAG- NAG- FUC: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-FUC.5: 5 residues within 4Å: Chain G: P.431, R.432, F.433, N.434, N.466 1 PLIP interactions: 1 interactions with chain G Hydrogen bonds: G:R.432

1 x NAG- NAG- BMA: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA.6: 3 residues within 4Å: Chain H: V.237, N.243, Y.246 1 PLIP interactions: 1 interactions with chain H Hydrophobic interactions: H:Y.246

6 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.9: 3 residues within 4Å: Chain G: N.315, S.317, N.318 No protein-ligand interaction detected (PLIP) NAG.10: 5 residues within 4Å: Chain A: S.98, C.99, P.100 Chain G: E.94, N.96 No protein-ligand interaction detected (PLIP) NAG.11: 4 residues within 4Å: Chain G: T.298, Y.300, K.352, N.354 3 PLIP interactions: 3 interactions with chain G Hydrogen bonds: G:T.298, G:T.298, G:K.352 NAG.12: 1 residues within 4Å: Chain H: N.315 1 PLIP interactions: 1 interactions with chain H Hydrogen bonds: H:N.315 NAG.13: 4 residues within 4Å: Chain H: N.415, W.416, R.417, N.418 3 PLIP interactions: 3 interactions with chain H Hydrogen bonds: H:N.415, H:N.415, H:W.416 NAG.14: 1 residues within 4Å: Chain H: N.466 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wang, Z. et al., Architecture and antigenicity of the Nipah virus attachment glycoprotein. Science (2022)

Release Date

2022-03-09

Peptides

Glycoprotein G: ABGH
Igh protein: CD
nAH Fab light chain: EF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

G
D

H
C

C
J

D
K

E
N

F
O

Glycoprotein G

Igh protein

nAH Fab light chain

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