SMTL ID : 4nld.1

Crystal structure of the hepatitis C virus NS5B RNA-dependent RNA polymerase complex with BMS-791325 also known as (1aR,12bS)-8-cyclohexyl-n-(dimethylsulfamoyl)-11-methoxy-1a-{[(1R,5S)-3-methyl-3,8-diazabicyclo[3.2.1]oct-8-yl]carbonyl}-1,1a,2,12b-tetrahydrocyclopropa[d]indolo[2,1-a][2]benzazepine-5-carboxamide and 2-(4-fluorophenyl)-n-methyl-6-[(methylsulfonyl)amino]-5-(propan-2-yloxy)-1-benzofuran-3-carboxamide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.75 Å

Oligo State

monomer

Ligands

1 x 2N7: (1aR,12bS)-8-cyclohexyl-N-(dimethylsulfamoyl)-11-methoxy-1a-{[(1R,5S)-3-methyl-3,8-diazabicyclo[3.2.1]oct-8-yl]carbonyl}-1,1a,2,12b-tetrahydrocyclopropa[d]indolo[2,1-a][2]benzazepine-5-carboxamide(Non-covalent)

2N7.1: 17 residues within 4Å: Chain A: L.393, A.394, A.396, A.397, T.400, A.401, I.425, L.426, H.429, F.430, L.493, G.494, V.495, P.496, W.501, R.504 Ligands: BOG.7 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:L.393, A:A.396, A:A.397, A:I.425, A:F.430, A:L.493, A:V.495, A:P.496, A:W.501 Hydrogen bonds: A:R.504, A:R.504

1 x 2N5: 2-(4-fluorophenyl)-N-methyl-6-[(methylsulfonyl)amino]-5-(propan-2-yloxy)-1-benzofuran-3-carboxamide(Non-covalent)

2N5.2: 21 residues within 4Å: Chain A: G.193, F.194, P.198, R.201, L.205, L.315, V.316, C.317, D.320, L.321, V.322, L.361, I.364, S.366, C.367, S.369, N.370, L.385, M.415, Y.416, Y.449 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:F.194, A:L.205, A:V.322, A:Y.449 Hydrogen bonds: A:R.201, A:S.366, A:S.366, A:Y.449, A:Y.449

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

SO4.3: 2 residues within 4Å: Chain A: H.375, R.381 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:H.375, A:R.381 SO4.4: 3 residues within 4Å: Chain A: V.500, H.503, R.504 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.504 SO4.5: 1 residues within 4Å: Chain A: R.395 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.395 SO4.6: 4 residues within 4Å: Chain A: R.506, V.531, R.532, T.533 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.532, A:T.533, A:T.533 Salt bridges: A:R.506

2 x BOG: octyl beta-D-glucopyranoside(Non-covalent)

BOG.7: 8 residues within 4Å: Chain A: C.147, V.148, Q.149, E.151, W.398, A.401, R.402 Ligands: 2N7.1 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:W.398, A:W.398, A:A.401 Hydrogen bonds: A:C.147, A:Q.149, A:Q.149, A:R.402 Salt bridges: A:R.402 BOG.8: 7 residues within 4Å: Chain A: V.206, K.210, E.362, V.371, V.373, R.381, Y.383 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:V.206, A:K.210, A:E.362, A:V.371, A:V.373 Salt bridges: A:R.381

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gentles, R.G. et al., Discovery and Preclinical Characterization of the Cyclopropylindolobenzazepine BMS-791325, A Potent Allosteric Inhibitor of the Hepatitis C Virus NS5B Polymerase. J.Med.Chem. (2014)

Release Date

2014-03-19

Peptides

RNA-directed RNA polymerase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

RNA-directed RNA polymerase

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