SMTL ID : 4ks1.1

Influenza neuraminidase in complex with antiviral compound (3S,4R,5R)-4-(acetylamino)-3-amino-5-(pentan-3-yloxy)cyclohex-1-ene-1-carboxylic acid

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-tetramer

Ligands

4 x CA: CALCIUM ION(Non-covalent)

CA.1: 5 residues within 4Å: Chain A: D.212, G.216, D.242, Y.264, G.265 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.212, A:G.216, A:D.242, H2O.2, H2O.6 CA.4: 5 residues within 4Å: Chain B: D.212, G.216, D.242, Y.264, G.265 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.212, B:G.216, B:D.242, H2O.13, H2O.17 CA.7: 5 residues within 4Å: Chain C: D.212, G.216, D.242, Y.264, G.265 5 PLIP interactions: 3 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:D.212, C:G.216, C:D.242, H2O.24, H2O.27 CA.10: 5 residues within 4Å: Chain D: D.212, G.216, D.242, Y.264, G.265 5 PLIP interactions: 3 interactions with chain D, 2 Ligand-Water interactions Metal complexes: D:D.212, D:G.216, D:D.242, H2O.34, H2O.38

4 x 2H8: (3S,4R,5R)-4-(acetylamino)-3-amino-5-(pentan-3-yloxy)cyclohex-1-ene-1-carboxylic acid(Non-covalent)

2H8.2: 14 residues within 4Å: Chain A: R.36, E.37, D.69, R.70, W.97, R.143, A.165, E.195, E.196, R.211, N.213, Y.264, R.288, Y.322 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:W.97, A:A.165 Hydrogen bonds: A:E.37, A:R.70, A:Y.264 Water bridges: A:D.69, A:R.74, A:R.74, A:W.97, A:E.146, A:E.146 Salt bridges: A:R.36, A:R.211, A:R.288 2H8.5: 14 residues within 4Å: Chain B: R.36, E.37, D.69, R.70, W.97, R.143, A.165, E.195, E.196, R.211, N.213, Y.264, R.288, Y.322 14 PLIP interactions: 14 interactions with chain B Hydrophobic interactions: B:W.97, B:A.165 Hydrogen bonds: B:E.37, B:R.70, B:Y.264 Water bridges: B:D.69, B:R.74, B:R.74, B:W.97, B:E.146, B:E.146 Salt bridges: B:R.36, B:R.211, B:R.288 2H8.8: 14 residues within 4Å: Chain C: R.36, E.37, D.69, R.70, W.97, R.143, A.165, E.195, E.196, R.211, N.213, Y.264, R.288, Y.322 14 PLIP interactions: 14 interactions with chain C Hydrophobic interactions: C:W.97, C:A.165 Hydrogen bonds: C:E.37, C:R.70, C:Y.264 Water bridges: C:D.69, C:R.74, C:R.74, C:W.97, C:E.146, C:E.146 Salt bridges: C:R.36, C:R.211, C:R.288 2H8.11: 14 residues within 4Å: Chain D: R.36, E.37, D.69, R.70, W.97, R.143, A.165, E.195, E.196, R.211, N.213, Y.264, R.288, Y.322 14 PLIP interactions: 14 interactions with chain D Hydrophobic interactions: D:W.97, D:A.165 Hydrogen bonds: D:E.37, D:R.70, D:Y.264 Water bridges: D:D.69, D:R.74, D:R.74, D:W.97, D:E.146, D:E.146 Salt bridges: D:R.36, D:R.211, D:R.288

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

NAG.3: 1 residues within 4Å: Chain A: N.64 No protein-ligand interaction detected (PLIP) NAG.6: 1 residues within 4Å: Chain B: N.64 No protein-ligand interaction detected (PLIP) NAG.9: 1 residues within 4Å: Chain C: N.64 No protein-ligand interaction detected (PLIP) NAG.12: 1 residues within 4Å: Chain D: N.64 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kerry, P.S. et al., Structural basis for a class of nanomolar influenza A neuraminidase inhibitors. Sci Rep (2013)

Release Date

2013-10-30

Peptides

Neuraminidase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

Neuraminidase

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