SMTL ID : 5vjl.1

Crystal structure of H7 hemagglutinin mutant (V186K, K193T, G228S) from the influenza virus A/Shanghai/2/2013 (H7N9) with LSTc

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

hetero-3-3-mer

Ligands

3 x SIA: N-acetyl-alpha-neuraminic acid(Non-covalent)

SIA.1: 14 residues within 4Å: Chain A: Y.92, G.128, A.129, T.130, S.131, S.138, W.146, L.148, H.178, E.185, L.189, L.221, S.223 Ligands: MOH.2 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:W.146, A:L.148 Hydrogen bonds: A:Y.92, A:A.129, A:S.131, A:S.138, A:E.185, A:S.223 SIA.6: 14 residues within 4Å: Chain C: Y.92, G.128, A.129, T.130, S.131, S.138, W.146, L.148, H.178, E.185, L.189, L.221, S.223 Ligands: MOH.7 8 PLIP interactions: 8 interactions with chain C Hydrophobic interactions: C:W.146, C:L.148 Hydrogen bonds: C:Y.92, C:A.129, C:S.131, C:S.138, C:E.185, C:S.223 SIA.11: 14 residues within 4Å: Chain E: Y.92, G.128, A.129, T.130, S.131, S.138, W.146, L.148, H.178, E.185, L.189, L.221, S.223 Ligands: MOH.12 8 PLIP interactions: 8 interactions with chain E Hydrophobic interactions: E:W.146, E:L.148 Hydrogen bonds: E:Y.92, E:A.129, E:S.131, E:S.138, E:E.185, E:S.223

3 x MOH: METHANOL(Non-functional Binders)

MOH.2: 1 residues within 4Å: Ligands: SIA.1 No protein-ligand interaction detected (PLIP) MOH.7: 1 residues within 4Å: Ligands: SIA.6 No protein-ligand interaction detected (PLIP) MOH.12: 1 residues within 4Å: Ligands: SIA.11 No protein-ligand interaction detected (PLIP)

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

NAG.3: 2 residues within 4Å: Chain A: K.168, N.235 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.235 NAG.4: 4 residues within 4Å: Chain A: N.32, T.34, T.313 Chain B: L.52 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.313 NAG.5: 5 residues within 4Å: Chain B: E.72, K.75, G.78, N.79, N.82 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:K.75 Hydrogen bonds: B:E.72 NAG.8: 2 residues within 4Å: Chain C: K.168, N.235 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:N.235 NAG.9: 4 residues within 4Å: Chain C: N.32, T.34, T.313 Chain D: L.52 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:T.313 NAG.10: 5 residues within 4Å: Chain D: E.72, K.75, G.78, N.79, N.82 2 PLIP interactions: 2 interactions with chain D Hydrophobic interactions: D:K.75 Hydrogen bonds: D:E.72 NAG.13: 2 residues within 4Å: Chain E: K.168, N.235 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:N.235 NAG.14: 4 residues within 4Å: Chain E: N.32, T.34, T.313 Chain F: L.52 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:T.313 NAG.15: 5 residues within 4Å: Chain F: E.72, K.75, G.78, N.79, N.82 2 PLIP interactions: 2 interactions with chain F Hydrophobic interactions: F:K.75 Hydrogen bonds: F:E.72

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

de Vries, R.P. et al., Three mutations switch H7N9 influenza to human-type receptor specificity. PLoS Pathog. (2017)

Release Date

2017-05-24

Peptides

Hemagglutinin HA1: ACE
Hemagglutinin HA2: BDF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
A

E
A

B
B

D
B

F
B

Hemagglutinin HA1

Hemagglutinin HA2

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