SMTL ID : 5trk.2 (1 other biounit)

CRYSTAL STRUCTURE OF THE HEPATITIS C VIRUS NS5B RNA- DEPENDENT RNA POLYMERASE IN COMPLEX WITH N-{3-[(benzenecarbonyl)amino]-4-[(4-chlorophenyl)methoxy]benzene-1-carbonyl}glycine

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.06 Å

Oligo State

monomer

Ligands

1 x 23E: (2E)-3-(4-{[(1-{[(13-cyclohexyl-6-oxo-6,7-dihydro-5H-indolo[1,2-d][1,4]benzodiazepin-10-yl)carbonyl]amino}cyclopentyl)carbonyl]amino}phenyl)prop-2-enoic acid(Non-covalent)

23E.1: 19 residues within 4Å: Chain A: V.38, L.393, A.394, A.396, A.397, T.400, I.425, L.426, H.429, F.430, L.493, G.494, V.495, P.496, P.497, R.499, V.500, W.501, R.504 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:V.38, 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 Salt bridges: A:R.499

1 x 7HH: N-{3-[(benzenecarbonyl)amino]-4-[(4-chlorophenyl)methoxy]benzene-1-carbonyl}glycine(Non-covalent)

7HH.2: 19 residues within 4Å: Chain A: F.194, P.198, R.201, T.288, S.289, N.292, C.317, G.318, C.367, S.369, L.385, G.411, N.412, M.415, Y.416, Q.447, I.448, Y.449, S.557 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:F.194, A:P.198, A:M.415, A:Y.416, A:Y.449 Hydrogen bonds: A:N.292, A:Y.449, A:S.557 Water bridges: A:S.289, A:S.289, A:C.317, A:G.450 Halogen bonds: A:M.415

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

SO4.3: 3 residues within 4Å: Chain A: S.85, V.86, R.121 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:V.86 Salt bridges: A:R.121 SO4.4: 3 residues within 4Å: Chain A: L.458, G.517, R.518 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.518 Water bridges: A:A.519, A:A.519 Salt bridges: A:R.518 SO4.5: 2 residues within 4Å: Chain A: K.380, R.381 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.381 Salt bridges: A:R.381 SO4.6: 2 residues within 4Å: Chain A: H.476, S.477 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.477, A:S.477 Water bridges: A:Y.478 Salt bridges: A:H.476 SO4.7: 5 residues within 4Å: Chain A: R.49, K.52, T.222, R.223, C.224 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:R.49, A:C.224 Water bridges: A:K.52, A:R.159, A:F.225, A:F.225 Salt bridges: A:K.52

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Parcella, K. et al., Discovery and initial optimization of alkoxyanthranilic acid derivatives as inhibitors of HCV NS5B polymerase. Bioorg. Med. Chem. Lett. (2017)

Release Date

2016-11-30

Peptides

Genome polyprotein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Genome polyprotein

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