SMTL ID : 3k37.2 (1 other biounit)

Crystal Structure of B/Perth Neuraminidase in complex with Peramivir

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-tetramer

Ligands

4 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: 4 residues within 4Å: Chain A: Y.13, P.14, L.16, N.215 1 PLIP interactions: 1 interactions with chain A Water bridges: A:Y.13 NAG-NAG.4: 4 residues within 4Å: Chain B: Y.13, P.14, L.16, N.215 1 PLIP interactions: 1 interactions with chain B Water bridges: B:Y.13 NAG-NAG.7: 4 residues within 4Å: Chain C: Y.13, P.14, L.16, N.215 1 PLIP interactions: 1 interactions with chain C Water bridges: C:Y.13 NAG-NAG.10: 4 residues within 4Å: Chain D: Y.13, P.14, L.16, N.215 1 PLIP interactions: 1 interactions with chain D Water bridges: D:Y.13

4 x CA: CALCIUM ION(Non-covalent)

CA.2: 6 residues within 4Å: Chain A: D.224, T.228, D.255, G.275, G.277, G.278 6 PLIP interactions: 5 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.224, A:T.228, A:D.255, A:G.275, A:G.277, H2O.1 CA.5: 6 residues within 4Å: Chain B: D.224, T.228, D.255, G.275, G.277, G.278 6 PLIP interactions: 5 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.224, B:T.228, B:D.255, B:G.275, B:G.277, H2O.15 CA.8: 6 residues within 4Å: Chain C: D.224, T.228, D.255, G.275, G.277, G.278 6 PLIP interactions: 5 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:D.224, C:T.228, C:D.255, C:G.275, C:G.277, H2O.29 CA.11: 6 residues within 4Å: Chain D: D.224, T.228, D.255, G.275, G.277, G.278 6 PLIP interactions: 5 interactions with chain D, 1 Ligand-Water interactions Metal complexes: D:D.224, D:T.228, D:D.255, D:G.275, D:G.277, H2O.44

4 x BCZ: 3-(1-ACETYLAMINO-2-ETHYL-BUTYL)-4-GUANIDINO-2-HYDROXY-CYCLOPENTANECARBOXYLIC ACID(Non-covalent)

BCZ.3: 15 residues within 4Å: Chain A: R.47, E.48, L.63, D.80, R.81, R.85, W.108, R.154, E.157, A.176, E.206, E.207, R.223, R.305, Y.340 18 PLIP interactions: 18 interactions with chain A Hydrophobic interactions: A:W.108, A:A.176 Hydrogen bonds: A:D.80, A:R.81, A:R.85, A:W.108, A:Y.340 Water bridges: A:D.80, A:R.81, A:R.85, A:E.157, A:E.207 Salt bridges: A:R.47, A:E.48, A:D.80, A:E.157, A:R.223, A:R.305 BCZ.6: 15 residues within 4Å: Chain B: R.47, E.48, L.63, D.80, R.81, R.85, W.108, R.154, E.157, A.176, E.206, E.207, R.223, R.305, Y.340 18 PLIP interactions: 18 interactions with chain B Hydrophobic interactions: B:W.108, B:A.176 Hydrogen bonds: B:D.80, B:R.81, B:R.85, B:W.108, B:Y.340 Water bridges: B:D.80, B:R.81, B:R.85, B:E.157, B:E.207 Salt bridges: B:R.47, B:E.48, B:D.80, B:E.157, B:R.223, B:R.305 BCZ.9: 15 residues within 4Å: Chain C: R.47, E.48, L.63, D.80, R.81, R.85, W.108, R.154, E.157, A.176, E.206, E.207, R.223, R.305, Y.340 18 PLIP interactions: 18 interactions with chain C Hydrophobic interactions: C:W.108, C:A.176 Hydrogen bonds: C:D.80, C:R.81, C:R.85, C:W.108, C:Y.340 Water bridges: C:D.80, C:R.81, C:R.85, C:E.157, C:E.207 Salt bridges: C:R.47, C:E.48, C:D.80, C:E.157, C:R.223, C:R.305 BCZ.12: 15 residues within 4Å: Chain D: R.47, E.48, L.63, D.80, R.81, R.85, W.108, R.154, E.157, A.176, E.206, E.207, R.223, R.305, Y.340 18 PLIP interactions: 18 interactions with chain D Hydrophobic interactions: D:W.108, D:A.176 Hydrogen bonds: D:D.80, D:R.81, D:R.85, D:W.108, D:Y.340 Water bridges: D:D.80, D:R.81, D:R.85, D:E.157, D:E.207 Salt bridges: D:R.47, D:E.48, D:D.80, D:E.157, D:R.223, D:R.305

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Oakley, A.J. et al., Structural and Functional Basis of Resistance to Neuraminidase Inhibitors of Influenza B Viruses. J.Med.Chem. (2010)

Release Date

2010-09-01

Peptides

Neuraminidase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
B

C
B

D
B

Neuraminidase

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