SMTL ID : 4dru.2 (1 other biounit)

HCV NS5B in complex with macrocyclic INDOLE INHIBITOR

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

monomer

Ligands

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

SO4.1: 4 residues within 4Å: Chain A: R.505, V.530, R.531, T.532 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.531, A:T.532, A:T.532 Salt bridges: A:R.505 SO4.2: 5 residues within 4Å: Chain A: P.22, I.23, N.24, A.400, R.401 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.24 Salt bridges: A:R.401 SO4.3: 6 residues within 4Å: Chain A: T.287, S.288, N.291, G.317, D.318, S.556 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.291, A:D.318, A:S.556, A:S.556 Water bridges: A:S.288 SO4.4: 3 residues within 4Å: Chain A: K.209, R.380, Y.382 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.382 Salt bridges: A:K.209, A:R.380 SO4.5: 6 residues within 4Å: Chain A: R.48, K.51, R.158, T.221, R.222, C.223 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:C.223 Water bridges: A:R.158, A:R.158, A:F.224 Salt bridges: A:R.48, A:K.51, A:R.158 SO4.6: 1 residues within 4Å: Chain A: R.43 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.43 SO4.7: 6 residues within 4Å: Chain A: R.422, M.423, L.474, Y.477, W.528 Ligands: SO4.8 3 PLIP interactions: 3 interactions with chain A Water bridges: A:R.422, A:Y.477 Salt bridges: A:R.422 SO4.8: 3 residues within 4Å: Chain A: H.475, S.476 Ligands: SO4.7 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.476 Water bridges: A:Y.477 Salt bridges: A:H.475 SO4.9: 3 residues within 4Å: Chain A: W.208, L.360, Y.382 1 PLIP interactions: 1 interactions with chain A Water bridges: A:D.359 SO4.10: 2 residues within 4Å: Chain A: E.440, R.517 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.440, A:R.517 Salt bridges: A:R.517 SO4.11: 7 residues within 4Å: Chain A: P.197, R.200, C.366, S.368, L.384, M.414, Y.448 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.368, A:Y.448

5 x GOL: GLYCEROL(Non-functional Binders)

GOL.12: 8 residues within 4Å: Chain A: E.361, N.369, S.371, T.385, S.478, G.480, E.481, R.484 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:E.361, A:N.369, A:S.371, A:S.371, A:S.478 Water bridges: A:R.484 GOL.13: 4 residues within 4Å: Chain A: L.127, P.247, E.248, Q.251 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:P.247 Water bridges: A:E.248 GOL.14: 4 residues within 4Å: Chain A: T.130, E.131, R.254, E.258 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.130, A:E.131 Water bridges: A:R.254 GOL.15: 2 residues within 4Å: Chain A: R.234, S.238 3 PLIP interactions: 3 interactions with chain A Water bridges: A:S.238, A:S.238, A:S.238 GOL.16: 4 residues within 4Å: Chain A: F.145, R.386, T.390, R.394 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.386, A:R.386, A:R.394, A:R.394

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cummings, M.D. et al., Structure-based macrocyclization yields hepatitis C virus NS5B inhibitors with improved binding affinities and pharmacokinetic properties. Angew.Chem.Int.Ed.Engl. (2012)

Release Date

2012-04-18

Peptides

RNA-directed RNA polymerase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

RNA-directed RNA polymerase

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