SMTL ID : 4cqx.1

H5 (tyTy) Del133/Ile155Thr Mutant Haemagglutinin in Complex with Human Receptor Analogue 6'SLN

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 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(Post Translational Modification)

NAG-GAL-SIA.1: 13 residues within 4Å: Chain A: Y.93, G.131, V.132, S.133, S.134, W.150, H.180, N.183, E.187, L.191, K.219, G.222, Q.223 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:K.219, A:S.134, A:Y.93, A:V.132, A:S.134, A:E.187, A:Q.223, A:Q.223, A:Q.223 Hydrophobic interactions: A:W.150 Water bridges: A:V.132, A:G.225 NAG-GAL-SIA.2: 14 residues within 4Å: Chain C: Y.93, G.131, V.132, S.133, S.134, W.150, T.152, H.180, E.187, L.191, K.219, G.222, Q.223, G.225 11 PLIP interactions: 11 interactions with chain C Hydrogen bonds: C:K.219, C:V.132, C:S.134, C:H.180, C:Q.223, C:Q.223 Water bridges: C:Q.223, C:V.132, C:E.187, C:R.190, C:G.225 Hydrophobic interactions: C:W.150, C:T.152 NAG-GAL-SIA.3: 13 residues within 4Å: Chain E: Y.93, G.131, V.132, S.133, S.134, W.150, H.180, N.183, E.187, L.191, K.219, G.222, Q.223 9 PLIP interactions: 9 interactions with chain E Hydrogen bonds: E:G.222, E:S.134, E:V.132, E:S.134, E:H.180, E:N.183, E:Q.223, E:Q.223 Hydrophobic interactions: E:W.150 Water bridges: E:V.132, E:R.190

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

NAG.4: 1 residues within 4Å: Chain A: N.13 4 PLIP interactions: 4 interactions with chain A Water bridges: A:N.13, A:N.13, A:N.13, A:N.13 NAG.5: 1 residues within 4Å: Chain A: N.25 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.17 NAG.6: 5 residues within 4Å: Chain A: N.166, N.237, D.238, A.239 Chain E: S.218 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:A.239 Hydrogen bonds: A:N.166, A:N.237, A:N.237 NAG.9: 2 residues within 4Å: Chain C: Q.17, N.25 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:Q.17 NAG.10: 5 residues within 4Å: Chain A: S.218 Chain C: N.166, N.237, D.238, A.239 2 PLIP interactions: 2 interactions with chain C Hydrophobic interactions: C:A.239 Hydrogen bonds: C:N.237 NAG.13: 1 residues within 4Å: Chain E: N.13 2 PLIP interactions: 2 interactions with chain E Hydrogen bonds: E:N.13 Water bridges: E:N.13 NAG.14: 2 residues within 4Å: Chain E: Q.17, N.25 No protein-ligand interaction detected (PLIP) NAG.15: 5 residues within 4Å: Chain C: S.218 Chain E: N.166, N.237, D.238, A.239 3 PLIP interactions: 3 interactions with chain E Hydrophobic interactions: E:A.239 Hydrogen bonds: E:N.166, E:N.237 NAG.16: 1 residues within 4Å: Chain E: N.287 No protein-ligand interaction detected (PLIP)

5 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.7: 5 residues within 4Å: Chain A: S.123, W.124, S.125, D.126, H.127 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.125, A:D.126, A:H.127, A:R.163 Salt bridges: A:H.127 PO4.8: 5 residues within 4Å: Chain A: A.60, D.90, N.96, F.97, Y.100 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.90, A:F.97 PO4.11: 6 residues within 4Å: Chain C: S.123, W.124, S.125, D.126, H.127, R.163 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:S.125, C:D.126, C:H.127 Salt bridges: C:H.127, C:R.163 PO4.12: 6 residues within 4Å: Chain C: A.60, D.90, L.91, N.96, F.97, Y.100 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:F.97, C:Y.100 PO4.17: 5 residues within 4Å: Chain E: L.35, E.36, K.37, T.38, M.290 4 PLIP interactions: 4 interactions with chain E Hydrogen bonds: E:E.36, E:K.37, E:T.38 Salt bridges: E:K.37

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Xiong, X. et al., Enhanced Human Receptor Binding by H5 Haemagglutinins. Virology (2014)

Release Date

2014-05-28

Peptides

HAEMAGGLUTININ HA1: ACE
HAEMAGGLUTININ HA2: BDF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
C

E
E

B
B

D
D

F
F

HAEMAGGLUTININ HA1

HAEMAGGLUTININ HA2

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