SMTL ID : 4b7m.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 2.50 Å

Oligo State

homo-tetramer

Ligands

6 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 3 residues within 4Å: Chain A: N.146, T.148, I.436 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 1 residues within 4Å: Chain B: N.88 No protein-ligand interaction detected (PLIP) NAG-NAG.3: 3 residues within 4Å: Chain B: N.146, T.148, I.436 No protein-ligand interaction detected (PLIP) NAG-NAG.13: 3 residues within 4Å: Chain C: N.146, T.148, I.436 No protein-ligand interaction detected (PLIP) NAG-NAG.14: 1 residues within 4Å: Chain D: N.88 No protein-ligand interaction detected (PLIP) NAG-NAG.15: 3 residues within 4Å: Chain D: N.146, T.148, I.436 No protein-ligand interaction detected (PLIP)

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

NAG.4: 1 residues within 4Å: Chain A: N.88 No protein-ligand interaction detected (PLIP) NAG.5: 3 residues within 4Å: Chain A: K.84, N.235, Q.308 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.84, A:N.235 NAG.9: 3 residues within 4Å: Chain B: K.84, N.235, Q.308 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:K.84 NAG.16: 1 residues within 4Å: Chain C: N.88 No protein-ligand interaction detected (PLIP) NAG.17: 3 residues within 4Å: Chain C: K.84, N.235, Q.308 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:K.84, C:N.235 NAG.21: 3 residues within 4Å: Chain D: K.84, N.235, Q.308 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:K.84

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

PO4.6: 5 residues within 4Å: Chain A: K.150, R.152, P.198, D.199 Chain B: W.455 5 PLIP interactions: 4 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:D.199, A:D.199, B:W.455 Water bridges: A:N.200 Salt bridges: A:K.150 PO4.7: 4 residues within 4Å: Chain A: R.118, R.293, R.368, Y.402 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.118 Salt bridges: A:R.293, A:R.368 PO4.10: 4 residues within 4Å: Chain B: K.150, P.198, D.199 Chain C: W.455 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:D.199 Salt bridges: B:K.150 PO4.11: 4 residues within 4Å: Chain B: R.118, R.293, R.368, Y.402 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:R.118, B:R.118, B:Y.402 Salt bridges: B:R.293, B:R.368 PO4.18: 5 residues within 4Å: Chain C: K.150, R.152, P.198, D.199 Chain D: W.455 5 PLIP interactions: 4 interactions with chain C, 1 interactions with chain D Hydrogen bonds: C:D.199, C:D.199, D:W.455 Water bridges: C:N.200 Salt bridges: C:K.150 PO4.19: 4 residues within 4Å: Chain C: R.118, R.293, R.368, Y.402 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:R.118, C:Y.402 Salt bridges: C:R.293, C:R.368 PO4.22: 4 residues within 4Å: Chain A: W.455 Chain D: K.150, P.198, D.199 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:D.199 Salt bridges: D:K.150 PO4.23: 4 residues within 4Å: Chain D: R.118, R.293, R.368, Y.402 6 PLIP interactions: 6 interactions with chain D Hydrogen bonds: D:R.118, D:R.118, D:Y.402, D:Y.402 Salt bridges: D:R.293, D:R.368

4 x CA: CALCIUM ION(Non-covalent)

CA.8: 6 residues within 4Å: Chain A: D.294, G.298, D.324, G.342, N.344, G.345 6 PLIP interactions: 5 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.294, A:G.298, A:D.324, A:G.342, A:N.344, H2O.4 CA.12: 5 residues within 4Å: Chain B: D.294, G.298, D.324, G.342, N.344 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:D.294, B:G.298, B:D.324, B:G.342, B:N.344 CA.20: 6 residues within 4Å: Chain C: D.294, G.298, D.324, G.342, N.344, G.345 6 PLIP interactions: 5 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:D.294, C:G.298, C:D.324, C:G.342, C:N.344, H2O.13 CA.24: 5 residues within 4Å: Chain D: D.294, G.298, D.324, G.342, N.344 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
A

D
B

NEURAMINIDASE

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