SMTL ID : 4cpz.1 (1 other biounit)

Structure of the Neuraminidase from the B/Lyon/CHU/15.216/2011 virus in complex with Zanamivir

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-tetramer

Ligands

3 x NAG- NAG- BMA: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA.1: 3 residues within 4Å: Chain A: Y.82, P.83, N.284 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:Y.82 NAG-NAG-BMA.2: 3 residues within 4Å: Chain B: Y.82, P.83, N.284 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.8: 5 residues within 4Å: Chain C: Y.82, P.83, R.84, L.85, N.284 No protein-ligand interaction detected (PLIP)

4 x CA: CALCIUM ION(Non-covalent)

CA.3: 6 residues within 4Å: Chain A: D.293, T.297, A.298, D.324, G.344, G.346 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.293, A:T.297, A:D.324, A:G.344, A:G.346 CA.6: 5 residues within 4Å: Chain B: D.293, T.297, D.324, G.344, G.346 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:D.293, B:T.297, B:D.324, B:G.344, B:G.346 CA.9: 5 residues within 4Å: Chain C: D.293, T.297, D.324, G.344, G.346 6 PLIP interactions: 5 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:D.293, C:T.297, C:D.324, C:G.344, C:G.346, H2O.8 CA.13: 5 residues within 4Å: Chain D: D.293, T.297, D.324, G.344, G.346 5 PLIP interactions: 5 interactions with chain D Metal complexes: D:D.293, D:T.297, D:D.324, D:G.344, D:G.346

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

NAG.4: 1 residues within 4Å: Chain A: N.144 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.144 NAG.10: 1 residues within 4Å: Chain C: N.144 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:N.144 NAG.14: 1 residues within 4Å: Chain D: N.144 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:N.144

4 x ZMR: ZANAMIVIR(Non-covalent)

ZMR.5: 15 residues within 4Å: Chain A: R.116, E.117, D.149, R.150, R.154, W.177, L.221, R.223, E.226, A.245, E.275, E.276, R.292, R.374, Y.409 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:W.177, A:L.221, A:R.223 Hydrogen bonds: A:R.150, A:W.177, A:W.177, A:E.276, A:R.292, A:R.292 Salt bridges: A:R.116, A:E.117, A:D.149, A:E.226, A:R.292, A:R.374 ZMR.7: 15 residues within 4Å: Chain B: R.116, E.117, D.149, R.150, R.154, W.177, R.223, E.226, A.245, E.275, E.276, R.292, N.294, R.374, Y.409 17 PLIP interactions: 17 interactions with chain B Hydrophobic interactions: B:W.177, B:R.223 Hydrogen bonds: B:D.149, B:R.150, B:W.177, B:W.177, B:E.276, B:R.292, B:R.292 Water bridges: B:D.149, B:R.154 Salt bridges: B:R.116, B:E.117, B:D.149, B:E.226, B:R.292, B:R.374 ZMR.11: 15 residues within 4Å: Chain C: R.116, E.117, D.149, R.150, R.154, W.177, R.223, E.226, A.245, E.275, E.276, R.292, N.294, R.374, Y.409 19 PLIP interactions: 19 interactions with chain C Hydrophobic interactions: C:W.177, C:R.223 Hydrogen bonds: C:D.149, C:R.150, C:W.177, C:W.177, C:E.276, C:R.292, C:R.292 Water bridges: C:R.116, C:R.154, C:E.276, C:E.276 Salt bridges: C:R.116, C:E.117, C:D.149, C:E.226, C:R.292, C:R.374 ZMR.15: 15 residues within 4Å: Chain D: R.116, E.117, D.149, R.150, R.154, W.177, R.223, E.226, A.245, E.275, E.276, R.292, N.294, R.374, Y.409 17 PLIP interactions: 17 interactions with chain D Hydrophobic interactions: D:W.177, D:R.223 Hydrogen bonds: D:D.149, D:R.150, D:W.177, D:W.177, D:R.223, D:E.276, D:E.276, D:R.292, D:R.292 Salt bridges: D:R.116, D:E.117, D:D.149, D:E.226, D:R.292, D:R.374

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

NAG-NAG.12: 5 residues within 4Å: Chain D: E.79, Y.82, P.83, R.84, N.284 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Escuret, V. et al., A Novel I221 L Substitution in Neuraminidase Confers High Level Resistance to Oseltamivir in Influenza B Viruses. J.Infect.Dis. (2014)

Release Date

2014-05-14

Peptides

NEURAMINIDASE: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
E

B
F

C
G

D
H

NEURAMINIDASE

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