SMTL ID : 2wrm.1

Identification of Novel Allosteric Inhibitors of Hepatitis C Virus NS5B Polymerase Thumb Domain (Site II) by Structure-Based Design

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

homo-dimer

Ligands

6 x QQ3: (3R)-3-(4-METHYL-1,3-DIOXO-1,3-DIHYDRO-2H-PYRROLO[3,4-C]QUINOLIN-2-YL)HEXANOIC ACID(Non-covalent)

QQ3.1: 7 residues within 4Å: Chain A: R.422, M.423, Y.477, L.497, R.498, R.501, W.528 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:R.422, A:L.497, A:R.501, A:W.528, A:W.528, A:W.528 Hydrogen bonds: A:R.501 Water bridges: A:S.476, A:S.476, A:W.528 QQ3.2: 7 residues within 4Å: Chain A: S.19, T.41, R.43, S.44, L.47, R.154 Ligands: QQ3.3 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:R.154 Hydrogen bonds: A:T.41, A:R.154 Water bridges: A:S.44, A:S.44 Salt bridges: A:R.43 QQ3.3: 4 residues within 4Å: Chain A: L.47, G.152, R.154 Ligands: QQ3.2 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:G.152 Hydrogen bonds: A:R.154 QQ3.4: 7 residues within 4Å: Chain B: R.422, M.423, Y.477, L.497, R.498, R.501, W.528 10 PLIP interactions: 10 interactions with chain B Hydrophobic interactions: B:R.422, B:L.497, B:R.501, B:W.528, B:W.528, B:W.528 Hydrogen bonds: B:R.501 Water bridges: B:S.476, B:S.476, B:W.528 QQ3.5: 7 residues within 4Å: Chain B: S.19, T.41, R.43, S.44, L.47, R.154 Ligands: QQ3.6 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:R.154 Hydrogen bonds: B:T.41, B:R.154 Water bridges: B:S.44, B:S.44 Salt bridges: B:R.43 QQ3.6: 4 residues within 4Å: Chain B: L.47, G.152, R.154 Ligands: QQ3.5 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:G.152 Hydrogen bonds: B:R.154

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Di Francesco, M.E. et al., Identification of Novel Allosteric Inhibitors of Hepatitis C Virus Ns5B Polymerase Thumb Domain (Site II) by Structure-Based Design. To be Published

Release Date

2010-09-22

Peptides

RNA-DIRECTED RNA POLYMERASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

RNA-DIRECTED RNA POLYMERASE

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