SMTL ID : 7upa.1

Prefusion-stabilized Nipah virus fusion protein complexed with Fab 1H8

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: 4 residues within 4Å: Chain C: N.67, N.155, N.180 Chain D: Q.194 3 PLIP interactions: 2 interactions with chain C, 1 interactions with chain D Hydrophobic interactions: C:N.155 Hydrogen bonds: C:N.155, D:Q.194 NAG.2: 2 residues within 4Å: Chain C: E.95, N.99 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:E.95 NAG.3: 4 residues within 4Å: Chain C: N.414, L.429, G.430, K.431 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:K.431 NAG.4: 4 residues within 4Å: Chain C: N.464, Q.468 Chain D: Q.459, M.463 4 PLIP interactions: 2 interactions with chain D, 2 interactions with chain C Hydrophobic interactions: D:Q.459 Hydrogen bonds: D:Q.459, C:N.464, C:Q.468 NAG.5: 3 residues within 4Å: Chain D: N.67, N.155 Chain E: Q.194 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:Q.194 NAG.6: 2 residues within 4Å: Chain D: E.95, N.99 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:E.95 NAG.7: 3 residues within 4Å: Chain D: N.414, G.430, K.431 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:N.414, D:K.431 NAG.8: 4 residues within 4Å: Chain D: N.464, Q.468 Chain E: Q.459, M.463 1 PLIP interactions: 1 interactions with chain E Hydrophobic interactions: E:Q.459 NAG.9: 3 residues within 4Å: Chain C: Q.194 Chain E: N.67, N.155 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:Q.194 NAG.10: 2 residues within 4Å: Chain E: E.95, N.99 2 PLIP interactions: 2 interactions with chain E Hydrogen bonds: E:E.95, E:N.99 NAG.11: 3 residues within 4Å: Chain E: N.414, G.430, K.431 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:N.414 NAG.12: 4 residues within 4Å: Chain C: Q.459, M.463 Chain E: N.464, Q.468 4 PLIP interactions: 2 interactions with chain E, 2 interactions with chain C Hydrogen bonds: E:N.464, E:Q.468, C:Q.459 Hydrophobic interactions: C:Q.459

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

Fab 1H8 heavy chain: AFH
Fab 1H8 light chain: BGI
Fusion glycoprotein F0: CDE

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
H

F
B

H
C

B
L

G
E

I
F

C
A

D
D

E
G

Fab 1H8 heavy chain

Fab 1H8 light chain

Fusion glycoprotein F0

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