SMTL ID : 6e4x.1

Human antibody S5V2-29 in complex with influenza hemagglutinin A/Texas/50/2012 (H3N2)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.25 Å

Oligo State

hetero-1-1-1-mer

Ligands

1 x NAG- NAG- BMA- MAN- FUC: alpha-D-mannopyranose-(1-3)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-MAN-FUC.1: 2 residues within 4Å: Chain A: N.27, Y.58 No protein-ligand interaction detected (PLIP)

1 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: 3 residues within 4Å: Chain A: N.86, N.97, R.219 No protein-ligand interaction detected (PLIP)

1 x NAG- NAG- BMA- FUC: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-3)]2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-FUC.3: 1 residues within 4Å: Chain A: N.2 No protein-ligand interaction detected (PLIP)

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

NAG.4: 3 residues within 4Å: Chain A: N.129, T.167, N.210 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:T.167 Hydrogen bonds: A:N.210

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 4 residues within 4Å: Chain A: G.98, T.99, W.117, T.119 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.99 Water bridges: A:T.119 GOL.6: 5 residues within 4Å: Chain A: R.73, I.231, M.232, R.233, I.264 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.73, A:R.73, A:I.231, A:R.233, A:R.233 GOL.7: 2 residues within 4Å: Chain A: R.225, S.226 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.226 Water bridges: A:I.224 GOL.8: 11 residues within 4Å: Chain B: Q.156, S.158, S.172, S.173, T.174 Chain C: F.183, P.184, V.186, S.194, L.195, S.196 6 PLIP interactions: 4 interactions with chain B, 2 interactions with chain C Hydrogen bonds: B:S.158, B:S.172, B:T.174, B:T.174, C:F.183, C:S.196

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Watanabe, A. et al., Antibodies to a Conserved Influenza Head Interface Epitope Protect by an IgG Subtype-Dependent Mechanism. Cell (2019)

Release Date

2019-05-22

Peptides

Hemagglutinin: A
S5V2-29 light chain: B
S5V2-29 heavy chain: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
Y

C
Z

Hemagglutinin

S5V2-29 light chain

S5V2-29 heavy chain

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