SMTL ID : 5twm.1

CRYSTAL STRUCTURE OF THE HEPATITIS C VIRUS GENOTYPE 2A STRAIN JFH1 L30S NS5B RNA-DEPENDENT RNA POLYMERASE IN COMPLEX WITH 5-[3-(tert-butylcarbamoyl)phenyl]-6-(ethylamino)-2-(4-fluorophenyl)-N-methylfuro[2,3-b]pyridine-3-carboxamide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.97 Å

Oligo State

monomer

Ligands

1 x 7NG: 5-[3-(tert-butylcarbamoyl)phenyl]-6-(ethylamino)-2-(4-fluorophenyl)-N-methylfuro[2,3-b]pyridine-3-carboxamide(Non-covalent)

7NG.1: 28 residues within 4Å: Chain A: F.194, Y.196, S.197, 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, I.414, Q.415, Y.416, M.448, Y.449, Y.453, L.467, W.551, F.552 17 PLIP interactions: 17 interactions with chain A Hydrophobic interactions: A:F.194, A:L.205, A:V.322, A:L.385, A:L.385, A:I.414, A:Y.449, A:Y.449, A:F.552 Hydrogen bonds: A:R.201, A:S.366, A:S.366, A:S.369, A:Q.415 Water bridges: A:R.201, A:Y.449, A:Y.453

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

SO4.2: 3 residues within 4Å: Chain A: N.25, S.28, S.31 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.25, A:S.28, A:S.31 SO4.3: 6 residues within 4Å: Chain A: E.447, Y.449, G.450, G.557, G.558, G.559 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.447, A:G.450, A:G.558 Water bridges: A:Y.449 SO4.4: 5 residues within 4Å: Chain A: E.362, S.372, V.373, S.479, H.481 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:V.373, A:S.479, A:S.479, A:H.481 Water bridges: A:N.370, A:N.370 SO4.5: 5 residues within 4Å: Chain A: R.49, R.159, T.222, R.223, C.224 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:C.224 Water bridges: A:F.225, A:F.225 Salt bridges: A:R.49, A:R.159

1 x PE5: 3,6,9,12,15,18,21,24-OCTAOXAHEXACOSAN-1-OL(Non-covalent)

PE5.6: 10 residues within 4Å: Chain A: K.101, Y.102, P.136, T.138, D.165, F.268, N.269, S.270, K.271, G.272 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.101 Water bridges: A:S.270

2 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)

PG4.7: 7 residues within 4Å: Chain A: E.144, F.146, C.147, S.368, R.387, T.391, R.395 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:E.144, A:C.147, A:C.147, A:S.368, A:R.387, A:R.387, A:R.395, A:R.395 PG4.8: 4 residues within 4Å: Chain A: A.210, E.211, K.212, K.213 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Eastman, K.J. et al., The discovery of a pan-genotypic, primer grip inhibitor of HCV NS5B polymerase. Medchemcomm (2017)

Release Date

2017-03-15

Peptides

NS5B RNA-dependent RNA POLYMERASE: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

NS5B RNA-dependent RNA POLYMERASE

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