SMTL ID : 3frz.1

Crystal Structure of HCV NS5B RNA polymerase in complex with PF868554

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.86 Å

Oligo State

monomer

Ligands

1 x AG0: (6R)-6-cyclopentyl-6-[2-(2,6-diethylpyridin-4-yl)ethyl]-3-[(5,7-dimethyl[1,2,4]triazolo[1,5-a]pyrimidin-2-yl)methyl]-4-hydroxy-5,6-dihydro-2H-pyran-2-one(Non-covalent)

AG0.1: 12 residues within 4Å: Chain A: L.419, R.422, M.423, S.473, H.475, S.476, Y.477, I.482, V.485, L.497, R.501, W.528 20 PLIP interactions: 20 interactions with chain A Hydrophobic interactions: A:L.419, A:R.422, A:M.423, A:Y.477, A:I.482, A:V.485, A:L.497, A:W.528, A:W.528, A:W.528, A:W.528 Hydrogen bonds: A:S.476, A:R.501, A:R.501 Water bridges: A:Y.477, A:W.528, A:K.533, A:K.533, A:K.533 pi-Stacking: A:H.475

1 x AG6: N-[(benzyloxy)carbonyl]-L-alpha-glutamyl-N-[(1S)-4-oxo-4-phenyl-1-propylbut-2-en-1-yl]-L-phenylalaninamide(Covalent)

AG6.2: 5 residues within 4Å: Chain A: C.14, K.98, T.137, M.139, I.160 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:T.137, A:I.160, A:I.160 Hydrogen bonds: A:K.98

1 x BME: BETA-MERCAPTOETHANOL(Non-functional Binders)

BME.3: 4 residues within 4Å: Chain A: R.48, K.51, V.52, C.223 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.48

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Li, H. et al., Discovery of (R)-6-cyclopentyl-6-(2-(2,6-diethylpyridin-4-yl)ethyl)-3-((5,7-dimethyl-[1,2,4]triazolo[1,5-a]pyrimidin-2-yl)methyl)-4-hydroxy-5,6-dihydropyran-2-one (PF-00868554) as a potent and orally available hepatitis C virus polymerase inhibitor. J.Med.Chem. (2009)

Release Date

2009-03-10

Peptides

RNA-directed RNA polymerase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

RNA-directed RNA polymerase