SMTL ID : 5e35.1

Crystal structure of H5 hemagglutinin mutant (N224K, Q226L, N158D and L133a deletion) from the influenza virus A/chicken/Vietnam/NCVD-093/2008 (H5N1) with LSTc

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

hetero-3-3-mer

Ligands

3 x NAG- GAL- SIA: N-acetyl-alpha-neuraminic acid-(2-6)-beta-D-galactopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-GAL-SIA.1: 14 residues within 4Å: Chain A: Y.95, G.133, V.134, S.135, S.136, W.152, T.154, H.182, N.185, E.189, M.192, I.193, L.225, G.227 8 PLIP interactions: 8 interactions with chain A Water bridges: A:K.221, A:K.221, A:G.224, A:S.226, A:G.227 Hydrophobic interactions: A:W.152, A:T.154 Hydrogen bonds: A:Y.95, A:V.134, A:S.136, A:N.185, A:E.189 NAG-GAL-SIA.4: 14 residues within 4Å: Chain C: Y.95, G.133, V.134, S.135, S.136, W.152, T.154, H.182, N.185, E.189, M.192, I.193, L.225, G.227 8 PLIP interactions: 8 interactions with chain C Water bridges: C:K.221, C:K.221, C:G.224, C:S.226, C:G.227 Hydrophobic interactions: C:W.152, C:T.154 Hydrogen bonds: C:Y.95, C:V.134, C:S.136, C:N.185, C:E.189 NAG-GAL-SIA.7: 14 residues within 4Å: Chain E: Y.95, G.133, V.134, S.135, S.136, W.152, T.154, H.182, N.185, E.189, M.192, I.193, L.225, G.227 8 PLIP interactions: 8 interactions with chain E Water bridges: E:K.221, E:K.221, E:G.224, E:S.226, E:G.227 Hydrophobic interactions: E:W.152, E:T.154 Hydrogen bonds: E:Y.95, E:V.134, E:S.136, E:N.185, E:E.189

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

NAG.2: 2 residues within 4Å: Chain A: Q.19, N.27 No protein-ligand interaction detected (PLIP) NAG.3: 3 residues within 4Å: Chain A: N.166, T.168, T.241 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:T.168, A:T.241 Hydrogen bonds: A:N.166, A:N.166 NAG.5: 2 residues within 4Å: Chain C: Q.19, N.27 No protein-ligand interaction detected (PLIP) NAG.6: 3 residues within 4Å: Chain C: N.166, T.168, T.241 4 PLIP interactions: 4 interactions with chain C Hydrophobic interactions: C:T.168, C:T.241 Hydrogen bonds: C:N.166, C:N.166 NAG.8: 2 residues within 4Å: Chain E: Q.19, N.27 No protein-ligand interaction detected (PLIP) NAG.9: 3 residues within 4Å: Chain E: N.166, T.168, T.241 4 PLIP interactions: 4 interactions with chain E Hydrophobic interactions: E:T.168, E:T.241 Hydrogen bonds: E:N.166, E:N.166

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhu, X. et al., Structural Basis for a Switch in Receptor Binding Specificity of Two H5N1 Hemagglutinin Mutants. Cell Rep (2015)

Release Date

2015-12-02

Peptides

Hemagglutinin: ACE
Hemagglutinin: BDF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
A

E
A

B
B

D
B

F
B

Hemagglutinin

Hemagglutinin

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