SMTL ID : 5hum.1

The crystal structure of neuraminidase from A/Sichuan/26221/2014 influenza virus

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

homo-tetramer

Ligands

4 x CA: CALCIUM ION(Non-covalent)

CA.1: 4 residues within 4Å: Chain A: D.215, G.219, D.246, P.269 6 PLIP interactions: 4 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.215, A:G.219, A:D.246, A:P.269, H2O.11, H2O.13 CA.4: 4 residues within 4Å: Chain B: D.215, G.219, D.246, P.269 6 PLIP interactions: 4 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.215, B:G.219, B:D.246, B:P.269, H2O.24, H2O.25 CA.7: 4 residues within 4Å: Chain C: D.215, G.219, D.246, P.269 6 PLIP interactions: 4 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:D.215, C:G.219, C:D.246, C:P.269, H2O.38, H2O.45 CA.10: 4 residues within 4Å: Chain D: D.215, G.219, D.246, P.269 6 PLIP interactions: 4 interactions with chain D, 2 Ligand-Water interactions Metal complexes: D:D.215, D:G.219, D:D.246, D:P.269, H2O.52, H2O.62

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

NAG.2: 3 residues within 4Å: Chain A: H.4, L.5, N.7 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:H.4 Hydrogen bonds: A:L.5, A:N.7 Water bridges: A:L.5 NAG.3: 3 residues within 4Å: Chain A: N.67, L.360 Chain C: Y.389 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:L.360 Hydrogen bonds: A:N.67 NAG.5: 3 residues within 4Å: Chain B: H.4, L.5, N.7 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:H.4 Hydrogen bonds: B:L.5, B:N.7 Water bridges: B:L.5 NAG.6: 3 residues within 4Å: Chain B: N.67, L.360 Chain D: Y.389 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain D Hydrophobic interactions: B:L.360 Hydrogen bonds: B:N.67, D:Y.389 NAG.8: 3 residues within 4Å: Chain C: H.4, L.5, N.7 8 PLIP interactions: 8 interactions with chain C Hydrophobic interactions: C:H.4 Hydrogen bonds: C:L.5 Water bridges: C:L.5, C:N.7, C:N.7, C:N.7, C:N.7, C:N.7 NAG.9: 3 residues within 4Å: Chain B: Y.389 Chain C: N.67, L.360 2 PLIP interactions: 2 interactions with chain C Hydrophobic interactions: C:L.360 Hydrogen bonds: C:N.67 NAG.11: 3 residues within 4Å: Chain D: H.4, L.5, N.7 8 PLIP interactions: 8 interactions with chain D Hydrophobic interactions: D:H.4 Hydrogen bonds: D:L.5 Water bridges: D:L.5, D:N.7, D:N.7, D:N.7, D:N.7, D:N.7 NAG.12: 3 residues within 4Å: Chain A: Y.389 Chain D: N.67, L.360 3 PLIP interactions: 2 interactions with chain D, 1 interactions with chain A Hydrophobic interactions: D:L.360 Hydrogen bonds: D:N.67, A:Y.389

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yang, H. et al., Molecular Characterizations of Surface Proteins Hemagglutinin and Neuraminidase from Recent H5Nx Avian Influenza Viruses. J.Virol. (2016)

Release Date

2016-04-13

Peptides

neuraminidase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

neuraminidase