SMTL ID : 4b7q.1

H1N1 2009 Pandemic Influenza Virus: Resistance of the I223R Neuraminidase Mutant Explained by Kinetic and Structural Analysis

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.73 Å

Oligo State

homo-tetramer

Ligands

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

NAG.1: 2 residues within 4Å: Chain A: K.143, N.146 No protein-ligand interaction detected (PLIP) NAG.5: 1 residues within 4Å: Chain B: N.88 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.88 NAG.6: 3 residues within 4Å: Chain B: K.143, N.146, I.467 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.146 NAG.9: 2 residues within 4Å: Chain C: A.86, N.88 No protein-ligand interaction detected (PLIP) NAG.10: 1 residues within 4Å: Chain C: N.146 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:N.146 NAG.11: 2 residues within 4Å: Chain C: K.84, N.235 No protein-ligand interaction detected (PLIP) NAG.14: 1 residues within 4Å: Chain D: N.88 No protein-ligand interaction detected (PLIP) NAG.15: 2 residues within 4Å: Chain D: K.143, N.146 No protein-ligand interaction detected (PLIP)

4 x ZMR: ZANAMIVIR(Non-covalent)

ZMR.2: 16 residues within 4Å: Chain A: R.118, E.119, D.151, R.152, R.156, W.179, I.223, R.225, E.228, S.247, E.277, E.278, R.293, N.295, R.368, Y.402 17 PLIP interactions: 17 interactions with chain A Hydrophobic interactions: A:I.223, A:R.225 Hydrogen bonds: A:D.151, A:R.152, A:W.179, A:W.179, A:E.278, A:E.278, A:R.293, A:R.293, A:Y.402 Salt bridges: A:R.118, A:E.119, A:D.151, A:E.228, A:R.293, A:R.368 ZMR.7: 16 residues within 4Å: Chain B: R.118, E.119, L.134, D.151, R.152, R.156, W.179, R.225, E.228, S.247, E.277, E.278, R.293, N.295, R.368, Y.402 17 PLIP interactions: 17 interactions with chain B Hydrophobic interactions: B:W.179 Hydrogen bonds: B:R.152, B:R.156, B:W.179, B:W.179, B:R.225, B:S.247, B:S.247, B:R.293 Water bridges: B:E.228, B:E.278 Salt bridges: B:R.118, B:E.119, B:D.151, B:E.228, B:R.293, B:R.368 ZMR.12: 16 residues within 4Å: Chain C: R.118, E.119, D.151, R.152, R.156, W.179, I.223, R.225, E.228, S.247, E.277, E.278, R.293, N.295, R.368, Y.402 18 PLIP interactions: 18 interactions with chain C Hydrophobic interactions: C:I.223, C:R.225 Hydrogen bonds: C:D.151, C:R.152, C:W.179, C:E.278, C:E.278, C:E.278, C:R.293, C:R.293, C:Y.402 Water bridges: C:E.228 Salt bridges: C:R.118, C:E.119, C:D.151, C:E.228, C:R.293, C:R.368 ZMR.16: 16 residues within 4Å: Chain D: R.118, E.119, D.151, R.152, R.156, W.179, I.223, R.225, E.228, S.247, E.277, E.278, R.293, N.295, R.368, Y.402 21 PLIP interactions: 21 interactions with chain D Hydrophobic interactions: D:W.179, D:I.223, D:R.225 Hydrogen bonds: D:D.151, D:R.152, D:W.179, D:W.179, D:E.278, D:R.293, D:Y.402 Water bridges: D:R.118, D:R.152, D:R.156, D:E.278, D:E.278 Salt bridges: D:R.118, D:E.119, D:D.151, D:E.228, D:R.293, D:R.368

5 x CA: CALCIUM ION(Non-covalent)

CA.3: 8 residues within 4Å: Chain A: D.294, G.298, S.299, D.324, N.341, G.342, A.343, N.344 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.294, A:G.298, A:D.324, A:G.342, A:N.344 CA.4: 4 residues within 4Å: Chain A: D.376, N.378, D.384, N.386 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:D.376, A:N.386 CA.8: 5 residues within 4Å: Chain B: D.294, G.298, D.324, G.342, N.344 6 PLIP interactions: 5 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.294, B:G.298, B:D.324, B:G.342, B:N.344, H2O.6 CA.13: 7 residues within 4Å: Chain C: D.294, G.298, D.324, G.342, A.343, N.344, G.345 5 PLIP interactions: 5 interactions with chain C Metal complexes: C:D.294, C:G.298, C:D.324, C:G.342, C:N.344 CA.17: 7 residues within 4Å: Chain D: D.294, G.298, D.324, G.342, A.343, N.344, G.345 5 PLIP interactions: 5 interactions with chain D Metal complexes: D:D.294, D:G.298, D:D.324, D:G.342, D:N.344

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Van Der Vries, E. et al., H1N1 2009 Pandemic Influenza Virus: Resistance of the I223R Neuraminidase Mutant Explained by Kinetic and Structural Analysis. Plos Pathog. (2012)

Release Date

2012-10-03

Peptides

NEURAMINIDASE: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

NEURAMINIDASE