SMTL ID : 3mf5.1 (1 other biounit)

Hepatitis C virus polymerase NS5B (BK) with amide bioisostere thumb site inhibitor

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

2 x HJZ: 3-[2-(trans-4-methylcyclohexyl)phenyl]-5-phenylthiophene-2-carboxylic acid(Non-covalent)

HJZ.1: 12 residues within 4Å: Chain A: L.419, R.422, M.423, L.474, H.475, S.476, Y.477, I.482, A.486, L.497, R.501, W.528 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:L.419, A:L.419, A:R.422, A:M.423, A:Y.477, A:I.482, A:A.486, A:L.497, A:L.497, A:L.497, A:W.528, A:W.528 Hydrogen bonds: A:S.476, A:Y.477 Water bridges: A:H.475 pi-Cation interactions: A:R.501 HJZ.3: 11 residues within 4Å: Chain B: L.419, R.422, M.423, L.474, H.475, S.476, Y.477, I.482, L.497, R.501, W.528 14 PLIP interactions: 14 interactions with chain B Hydrophobic interactions: B:L.419, B:L.419, B:R.422, B:Y.477, B:I.482, B:L.497, B:L.497, B:W.528, B:W.528 Hydrogen bonds: B:S.476, B:Y.477 Water bridges: B:H.475, B:S.476 pi-Cation interactions: B:R.501

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 7 residues within 4Å: Chain A: N.142, E.143, V.144, R.394, E.398, T.403, V.405 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:V.144, A:E.398, A:E.398, A:T.403

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yang, H. et al., Cyclic amide bioisosterism: Strategic application to the design and synthesis of HCV NS5B polymerase inhibitors. Bioorg.Med.Chem.Lett. (2010)

Release Date

2010-07-28

Peptides

RNA-directed RNA polymerase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

RNA-directed RNA polymerase

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