SMTL ID : 3kqu.1 (1 other biounit)

Three Conformational Snapshots of the Hepatitis C Virus NS3 Helicase Reveal a Ratchet Translocation Mechanism

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

homo-trimer

Ligands

3 x BEF: BERYLLIUM TRIFLUORIDE ION(Non-covalent)

BEF.1: 11 residues within 4Å: Chain A: P.17, T.18, G.19, K.22, E.103, A.135, G.229, R.276, R.279 Ligands: ADP.2, MN.3 No protein-ligand interaction detected (PLIP) BEF.4: 10 residues within 4Å: Chain B: T.18, G.19, K.22, E.103, A.135, G.229, R.276, R.279 Ligands: ADP.5, MN.6 No protein-ligand interaction detected (PLIP) BEF.7: 10 residues within 4Å: Chain C: T.18, G.19, K.22, E.103, A.135, G.229, R.276, R.279 Ligands: ADP.8, MN.9 No protein-ligand interaction detected (PLIP)

3 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.2: 16 residues within 4Å: Chain A: P.17, T.18, G.19, S.20, G.21, K.22, S.23, T.24, G.49, F.50, Y.53, T.231, R.279, G.280 Ligands: BEF.1, MN.3 18 PLIP interactions: 18 interactions with chain A Hydrogen bonds: A:G.19, A:G.19, A:S.20, A:G.21, A:K.22, A:S.23, A:T.24, A:T.24, A:G.49, A:R.279 Water bridges: A:T.231, A:R.279, A:R.279, A:R.279 Salt bridges: A:K.22, A:R.279, A:R.279 pi-Stacking: A:Y.53 ADP.5: 16 residues within 4Å: Chain B: P.17, T.18, G.19, S.20, G.21, K.22, S.23, T.24, G.49, F.50, Y.53, T.231, R.279, G.280 Ligands: BEF.4, MN.6 22 PLIP interactions: 22 interactions with chain B Hydrogen bonds: B:G.19, B:G.19, B:S.20, B:G.21, B:K.22, B:S.23, B:T.24, B:T.24, B:G.49, B:R.279 Water bridges: B:K.25, B:T.231, B:R.279, B:R.279, B:R.279, B:R.279, B:R.279, B:R.279 Salt bridges: B:K.22, B:R.279, B:R.279 pi-Stacking: B:Y.53 ADP.8: 16 residues within 4Å: Chain C: P.17, T.18, G.19, S.20, G.21, K.22, S.23, T.24, G.49, F.50, Y.53, T.231, R.279, G.280 Ligands: BEF.7, MN.9 19 PLIP interactions: 19 interactions with chain C Hydrogen bonds: C:G.19, C:G.19, C:S.20, C:G.21, C:K.22, C:S.23, C:T.24, C:T.24, C:G.49, C:R.279 Water bridges: C:T.231, C:R.279, C:R.279, C:R.279, C:R.279 Salt bridges: C:K.22, C:R.279, C:R.279 pi-Stacking: C:Y.53

3 x MN: MANGANESE (II) ION(Non-covalent)

MN.3: 5 residues within 4Å: Chain A: S.23, D.102, E.103 Ligands: BEF.1, ADP.2 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:S.23, A:E.103, H2O.1, H2O.2 MN.6: 5 residues within 4Å: Chain B: S.23, D.102, E.103 Ligands: BEF.4, ADP.5 4 PLIP interactions: 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:S.23, B:E.103, H2O.3, H2O.3 MN.9: 5 residues within 4Å: Chain C: S.23, D.102, E.103 Ligands: BEF.7, ADP.8 4 PLIP interactions: 2 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:S.23, C:E.103, H2O.6, H2O.6

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gu, M. et al., Inaugural Article: Three conformational snapshots of the hepatitis C virus NS3 helicase reveal a ratchet translocation mechanism. Proc.Natl.Acad.Sci.USA (2010)

Release Date

2010-01-26

Peptides

Serine protease/NTPase/helicase NS3: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Serine protease/NTPase/helicase NS3

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