SMTL ID : 3e90.3 (2 other biounits)

West Nile vi rus NS2B-NS3protease in complexed with inhibitor Naph-KKR-H

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.45 Å

Oligo State

hetero-2-2-mer

Ligands

2 x NKK: N~2~-(naphthalen-2-ylcarbonyl)-L-lysyl-N-[(1S)-4-carbamimidamido-1-formylbutyl]-L-lysinamide(Covalent)

NKK.1: 27 residues within 4Å: Chain A: G.36, N.37, F.38, Q.39, D.43 Chain B: H.55, D.79, D.133, F.134, T.136, G.137, T.138, S.139, Y.154, G.155, N.156, G.157, I.159, Y.165 Chain D: W.93, N.94, G.95, Q.96, V.119, E.126, I.127, G.128 23 PLIP interactions: 12 interactions with chain B, 7 interactions with chain D, 4 interactions with chain A Hydrogen bonds: B:D.79, B:F.134, B:F.134, B:G.137, B:S.139, B:Y.154, B:G.155, B:N.156, D:N.94, D:N.94, A:F.38, A:D.43 Water bridges: B:D.133, B:D.133, D:Q.96, A:Q.39, A:Q.39 Salt bridges: B:D.133 pi-Cation interactions: B:Y.165 Hydrophobic interactions: D:W.93, D:Q.96, D:V.119, D:E.126 NKK.2: 16 residues within 4Å: Chain C: G.36, N.37, F.38, Q.39 Chain D: H.55, D.79, D.133, F.134, T.136, S.139, Y.154, G.155, N.156, G.157, I.159, Y.165 18 PLIP interactions: 16 interactions with chain D, 2 interactions with chain C Hydrophobic interactions: D:H.55, D:Y.154, D:I.159, D:Y.165 Hydrogen bonds: D:F.134, D:F.134, D:G.137, D:Y.154, D:G.155, D:N.156, D:Y.165, C:F.38, C:Q.39 Water bridges: D:D.133, D:D.133, D:S.139 Salt bridges: D:D.133 pi-Cation interactions: D:Y.165

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Robin, G. et al., Structure of West Nile virus NS3 protease: ligand stabilization of the catalytic conformation. J.Mol.Biol. (2009)

Release Date

2009-01-20

Peptides

NS2B cofactor: AC
NS3 protease: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
C

B
B

D
D

NS2B cofactor

NS3 protease

Related Entries With Identical Sequence