SMTL ID : 6piw.1

Crystal structure of HCV NS3/4A D168A protease in complex with P4-6 (NR03-67)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

monomer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 6 residues within 4Å: Chain A: C.135, T.136, C.137, C.183, A.185, H.187 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.135, A:C.137, A:C.183, A:H.187

1 x OLV: cyclohexyl [(2R,6S,12Z,13aS,14aR,16aS)-2-[(7-methoxy-3-methylquinoxalin-2-yl)oxy]-14a-{[(1-methylcyclopropyl)sulfonyl]carbamoyl}-5, 16-dioxo-1,2,3,5,6,7,8,9,10,11,13a,14,14a,15,16,16a-hexadecahydrocyclopropa[e]pyrrolo[1,2-a][1,4]diazacyclopentadecin-6- yl]carbamate(Non-covalent)

OLV.2: 23 residues within 4Å: Chain A: Q.79, T.80, F.81, V.93, Y.94, H.95, G.96, V.116, D.119, I.170, L.173, K.174, G.175, S.176, S.177, F.192, R.193, A.194, A.195, V.196, A.206 Ligands: EDO.5, EDO.6 18 PLIP interactions: 18 interactions with chain A Hydrophobic interactions: A:Q.79, A:F.81, A:H.95, A:V.116, A:D.119, A:I.170, A:L.173, A:F.192, A:R.193, A:A.195 Hydrogen bonds: A:H.95, A:G.175, A:S.176, A:S.177, A:S.177, A:R.193, A:A.195, A:A.195

4 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.3: 6 residues within 4Å: Chain A: S.85, G.88, A.125, S.129, R.130, S.131 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.129 Water bridges: A:S.129, A:S.131, A:S.131 EDO.4: 4 residues within 4Å: Chain A: K.27, T.78, Q.79, R.100 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.27, A:R.100 Water bridges: A:Q.79 EDO.5: 4 residues within 4Å: Chain A: Y.94, G.98, T.99 Ligands: OLV.2 2 PLIP interactions: 2 interactions with chain A Water bridges: A:K.27, A:G.98 EDO.6: 6 residues within 4Å: Chain A: S.160, R.161, R.193, A.206, F.207 Ligands: OLV.2 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.193 Water bridges: A:R.193

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Matthew, A.N. et al., Avoiding Drug Resistance by Substrate Envelope-Guided Design: Toward Potent and Robust HCV NS3/4A Protease Inhibitors. Mbio (2020)

Release Date

2020-03-04

Peptides

NS3/A4 protease: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

NS3/A4 protease

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