SMTL ID : 8ume.1

Influenza A virus Hemagglutinin H5/Vietnam/1204/2004 in complex with D04 Fab

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-3-3-3-mer

Ligands

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

NAG.1: 4 residues within 4Å: Chain A: N.165, N.236, A.238 Chain I: S.217 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain I Hydrogen bonds: A:A.238, I:S.217 NAG.2: 3 residues within 4Å: Chain A: Q.15, K.22, N.23 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:K.22 Hydrogen bonds: A:N.23 NAG.3: 1 residues within 4Å: Chain A: N.154 No protein-ligand interaction detected (PLIP) NAG.4: 4 residues within 4Å: Chain A: S.217 Chain H: N.165, N.236, A.238 2 PLIP interactions: 1 interactions with chain H, 1 interactions with chain A Hydrogen bonds: H:A.238, A:S.217 NAG.5: 3 residues within 4Å: Chain H: Q.15, K.22, N.23 2 PLIP interactions: 2 interactions with chain H Hydrophobic interactions: H:K.22 Hydrogen bonds: H:N.23 NAG.6: 1 residues within 4Å: Chain H: N.154 1 PLIP interactions: 1 interactions with chain H Hydrogen bonds: H:N.154 NAG.7: 4 residues within 4Å: Chain H: S.217 Chain I: N.165, N.236, A.238 2 PLIP interactions: 2 interactions with chain I Hydrophobic interactions: I:A.238 Hydrogen bonds: I:N.236 NAG.8: 2 residues within 4Å: Chain I: K.22, N.23 2 PLIP interactions: 2 interactions with chain I Hydrophobic interactions: I:K.22 Hydrogen bonds: I:N.23 NAG.9: 1 residues within 4Å: Chain I: N.154 1 PLIP interactions: 1 interactions with chain I Hydrogen bonds: I:N.154

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Feldman, J. et al., Human naive B cells recognize prepandemic influenza virus hemagglutinins. Sci Immunol (2025)

Release Date

2024-12-25

Peptides

Hemagglutinin: AHI
Fab Heavy chain: BDF
Fab Light chain: CEG

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

H
C

I
A

B
H

D
D

F
E

C
L

E
F

G
G

Hemagglutinin

Fab Heavy chain

Fab Light chain