SMTL ID : 8tp2.1

H2 hemagglutinin (A/Singapore/1/1957) in complex with RBS-targeting 1-1-1F05

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-3-mer

Ligands

3 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.1: 3 residues within 4Å: Chain C: N.179, W.250, T.252 1 PLIP interactions: 1 interactions with chain C Hydrophobic interactions: C:W.250 NAG-NAG-FUC.2: 4 residues within 4Å: Chain D: N.179, T.181, W.250, T.252 1 PLIP interactions: 1 interactions with chain D Hydrophobic interactions: D:W.250 NAG-NAG-FUC.3: 4 residues within 4Å: Chain E: N.179, T.181, W.250, T.252 1 PLIP interactions: 1 interactions with chain E Hydrophobic interactions: E:W.250

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

NAG.4: 2 residues within 4Å: Chain C: R.37, N.38 2 PLIP interactions: 2 interactions with chain C Hydrophobic interactions: C:R.37 Hydrogen bonds: C:N.38 NAG.5: 2 residues within 4Å: Chain C: E.289, N.300 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:N.300 NAG.6: 5 residues within 4Å: Chain C: E.487, N.490, S.491, N.494, T.496 2 PLIP interactions: 2 interactions with chain C Hydrophobic interactions: C:T.496 Hydrogen bonds: C:E.487 NAG.7: 1 residues within 4Å: Chain C: N.26 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:N.26 NAG.8: 1 residues within 4Å: Chain D: N.26 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:N.26 NAG.9: 2 residues within 4Å: Chain D: R.37, N.38 2 PLIP interactions: 2 interactions with chain D Hydrophobic interactions: D:R.37 Hydrogen bonds: D:N.38 NAG.10: 2 residues within 4Å: Chain D: E.289, N.300 No protein-ligand interaction detected (PLIP) NAG.11: 1 residues within 4Å: Chain E: N.26 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:N.26 NAG.12: 1 residues within 4Å: Chain E: N.38 No protein-ligand interaction detected (PLIP) NAG.13: 2 residues within 4Å: Chain E: E.289, N.300 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yang, Y.R. et al., Immune memory shapes human polyclonal antibody responses to H2N2 vaccination. Biorxiv (2023)

Release Date

2023-10-11

Peptides

Heavy chain of Fab 1-1-1F05: A
Light chain of Fab 1-1-1F05: B
Hemagglutinin: CDE

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
H

B
L

C
C

D
A

E
B

Heavy chain of Fab 1-1-1F05

Light chain of Fab 1-1-1F05

Hemagglutinin

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