SMTL ID : 3o8d.1

Visualizing ATP-dependent RNA Translocation by the NS3 Helicase from HCV

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.05 Å

Oligo State

homo-dimer

Ligands

2 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 5 residues within 4Å: Chain A: S.246, D.325, E.326 Ligands: ADP.2, BEF.3 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:S.246, A:E.326, H2O.1, H2O.1 MG.5: 5 residues within 4Å: Chain B: S.246, D.325, E.326 Ligands: ADP.6, BEF.7 4 PLIP interactions: 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:S.246, B:E.326, H2O.17, H2O.17

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

ADP.2: 15 residues within 4Å: Chain A: P.240, T.241, G.242, S.243, G.244, K.245, S.246, T.247, G.272, Y.276, T.454, R.502, G.503 Ligands: MG.1, BEF.3 23 PLIP interactions: 23 interactions with chain A Hydrogen bonds: A:P.240, A:G.242, A:G.242, A:S.243, A:G.244, A:K.245, A:S.246, A:T.247, A:G.272, A:Y.276, A:R.502 Water bridges: A:T.247, A:T.454, A:T.454, A:R.502, A:R.502, A:R.502, A:G.503 Salt bridges: A:K.245, A:R.502, A:R.502 pi-Stacking: A:Y.276, A:Y.276 ADP.6: 15 residues within 4Å: Chain B: P.240, T.241, G.242, S.243, G.244, K.245, S.246, T.247, G.272, Y.276, T.454, R.502, G.503 Ligands: MG.5, BEF.7 26 PLIP interactions: 26 interactions with chain B Hydrogen bonds: B:G.242, B:G.242, B:S.243, B:G.244, B:K.245, B:S.246, B:T.247, B:T.247, B:T.454, B:R.502 Water bridges: B:G.272, B:G.272, B:Y.276, B:T.454, B:T.454, B:T.454, B:R.502, B:R.502, B:R.502, B:R.502, B:G.503 Salt bridges: B:K.245, B:R.502, B:R.502 pi-Stacking: B:Y.276, B:Y.276

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

BEF.3: 9 residues within 4Å: Chain A: T.241, G.242, K.245, E.326, A.358, R.499, R.502 Ligands: MG.1, ADP.2 No protein-ligand interaction detected (PLIP) BEF.7: 9 residues within 4Å: Chain B: T.241, G.242, K.245, E.326, A.358, R.499, R.502 Ligands: MG.5, ADP.6 No protein-ligand interaction detected (PLIP)

2 x SO4: SULFATE ION(Non-functional Binders)

SO4.4: 4 residues within 4Å: Chain A: V.267, T.289, G.290, T.304 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.290, A:T.304 SO4.8: 4 residues within 4Å: Chain B: V.267, T.289, G.290, T.304 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:G.290, B:T.304 Water bridges: B:V.291, B:V.291

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Appleby, T.C. et al., Visualizing ATP-Dependent RNA Translocation by the NS3 Helicase from HCV. J.Mol.Biol. (2011)

Release Date

2011-01-05

Peptides

HCV NS3 protease/helicase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

HCV NS3 protease/helicase

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