SMTL ID : 6ml8.1

Crystal structure of hemagglutinin from H1N1 Influenza A virus A/Denver/57 bound to the C05 antibody

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.92 Å

Oligo State

hetero-3-3-3-3-mer

Ligands

3 x NAG- NAG- BMA- MAN: alpha-D-mannopyranose-(1-3)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-MAN.1: 6 residues within 4Å: Chain A: N.68, E.70, E.90, N.91, C.94, R.224 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.224 NAG-NAG-BMA-MAN.4: 6 residues within 4Å: Chain E: N.68, E.70, E.90, N.91, C.94, R.224 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:R.224 NAG-NAG-BMA-MAN.7: 6 residues within 4Å: Chain I: N.68, E.70, E.90, N.91, C.94, R.224 1 PLIP interactions: 1 interactions with chain I Hydrogen bonds: I:R.224

3 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.2: 2 residues within 4Å: Chain A: N.77, S.79 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.5: 2 residues within 4Å: Chain E: N.77, S.79 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.8: 2 residues within 4Å: Chain I: N.77, S.79 No protein-ligand interaction detected (PLIP)

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

NAG-NAG.3: 4 residues within 4Å: Chain A: N.163, Y.201 Chain I: R.192, D.198 1 PLIP interactions: 1 interactions with chain I Hydrogen bonds: I:R.192 NAG-NAG.6: 4 residues within 4Å: Chain A: R.192, D.198 Chain E: N.163, Y.201 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.192 NAG-NAG.9: 4 residues within 4Å: Chain E: R.192, D.198 Chain I: N.163, Y.201 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:R.192

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ghafoori, S.M. et al., Structural characterisation of hemagglutinin from seven Influenza A H1N1 strains reveal diversity in the C05 antibody recognition site. Sci Rep (2023)

Release Date

2018-10-17

Peptides

Hemagglutinin: AEI
Hemagglutinin: BFJ
C05 antibody Fab heavy chain: CGK
C05 antibody Fab light chain: DHL

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

E
A

I
A

B
B

F
B

J
B

C
H

G
H

K
H

D
L

H
L

L
L

Hemagglutinin

Hemagglutinin

C05 antibody Fab heavy chain

C05 antibody Fab light chain

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