SMTL ID : 7uop.1

Prefusion-stabilized Nipah virus fusion protein complexed with Fab 4H3

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

hetero-3-3-3-mer

Ligands

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

NAG.1: 3 residues within 4Å: Chain A: N.67, N.155 Chain B: Q.194 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:Q.194 NAG.2: 2 residues within 4Å: Chain A: E.95, N.99 No protein-ligand interaction detected (PLIP) NAG.3: 3 residues within 4Å: Chain A: N.414, G.430, K.431 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.431 NAG.4: 3 residues within 4Å: Chain A: N.464, Q.468 Chain B: Q.459 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:N.464, A:Q.468, B:Q.459 Hydrophobic interactions: B:Q.459 NAG.5: 3 residues within 4Å: Chain B: N.67, N.155 Chain C: Q.194 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:Q.194 NAG.6: 2 residues within 4Å: Chain B: E.95, N.99 No protein-ligand interaction detected (PLIP) NAG.7: 3 residues within 4Å: Chain B: N.414, G.430, K.431 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:K.431 NAG.8: 4 residues within 4Å: Chain B: N.464, Q.468 Chain C: Q.459, M.463 3 PLIP interactions: 2 interactions with chain C, 1 interactions with chain B Hydrophobic interactions: C:Q.459 Hydrogen bonds: C:Q.459, B:N.464 NAG.9: 3 residues within 4Å: Chain A: Q.194 Chain C: N.67, N.155 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.194 NAG.10: 2 residues within 4Å: Chain C: E.95, N.99 No protein-ligand interaction detected (PLIP) NAG.11: 3 residues within 4Å: Chain C: N.414, G.430, K.431 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:K.431 NAG.12: 3 residues within 4Å: Chain A: Q.459 Chain C: N.464, Q.468 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain C Hydrophobic interactions: A:Q.459 Hydrogen bonds: A:Q.459, C:N.464, C:Q.468

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Byrne, P.O. et al., Structural basis for antibody recognition of vulnerable epitopes on Nipah virus F protein. Nat Commun (2023)

Release Date

2023-03-29

Peptides

Fusion glycoprotein F0: ABC
Fab 4H3 heavy chain: DFH
Fab 4H3 light chain: EGI

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
D

C
G

D
H

F
B

H
C

E
L

G
E

I
F

Fusion glycoprotein F0

Fab 4H3 heavy chain

Fab 4H3 light chain

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