SMTL ID : 1wqs.1

Crystal structure of Norovirus 3C-like protease

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

homo-tetramer

Ligands

8 x HG: MERCURY (II) ION(Non-covalent)

HG.1: 6 residues within 4Å: Chain A: C.77, Q.117, Y.143, C.154, C.169 Ligands: HG.2 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:C.169 HG.2: 5 residues within 4Å: Chain A: C.77, C.83, Y.145, C.154 Ligands: HG.1 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:C.83, A:C.154 HG.5: 5 residues within 4Å: Chain B: Y.143, C.154, G.155, C.169 Ligands: HG.6 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:C.154, B:C.169 HG.6: 6 residues within 4Å: Chain B: C.77, C.83, M.101, Y.143, C.154 Ligands: HG.5 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:C.77, B:C.83, B:C.154 HG.7: 5 residues within 4Å: Chain C: C.77, M.101, Y.143, C.154, C.169 2 PLIP interactions: 2 interactions with chain C Metal complexes: C:C.154, C:C.169 HG.8: 5 residues within 4Å: Chain C: C.77, C.83, Y.143, Y.145, C.154 2 PLIP interactions: 2 interactions with chain C Metal complexes: C:C.83, C:C.154 HG.9: 5 residues within 4Å: Chain D: M.101, Y.143, C.154, C.169 Ligands: HG.10 2 PLIP interactions: 2 interactions with chain D Metal complexes: D:C.154, D:C.169 HG.10: 5 residues within 4Å: Chain D: C.77, C.83, M.101, C.154 Ligands: HG.9 3 PLIP interactions: 3 interactions with chain D Metal complexes: D:C.77, D:C.83, D:C.154

1 x TLA: L(+)-TARTARIC ACID(Non-covalent)

TLA.3: 6 residues within 4Å: Chain A: R.89, D.90, L.135, P.136, G.137, D.138 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:D.90, A:D.90, A:D.90, A:D.90, A:P.136, A:G.137

1 x TAR: D(-)-TARTARIC ACID(Non-covalent)

TAR.4: 4 residues within 4Å: Chain A: S.14, H.30, G.137, C.139 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.14, A:S.14 Salt bridges: A:H.30

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nakamura, K. et al., A norovirus protease structure provides insights into active and substrate binding site integrity. J.Virol. (2005)

Release Date

2005-10-04

Peptides

3C-like protease: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

3C-like protease