SMTL ID : 7l7n.1

Crystal structure of HCV NS3/4A D168A protease in complex with NR02-59

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.59 Å

Oligo State

monomer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 6 residues within 4Å: Chain A: C.136, T.137, C.138, C.184, A.186, H.188 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.136, A:C.138, A:C.184, A:H.188

1 x XSV: 1-(trifluoromethyl)cyclobutyl [(2R,6S,12Z,13aS,14aR,16aS)-2-{[6-methoxy-3-(trifluoromethyl)quinoxalin-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)

XSV.2: 23 residues within 4Å: Chain A: Q.80, T.81, F.82, V.94, Y.95, H.96, G.97, V.117, D.120, R.162, I.171, L.174, K.175, G.176, S.177, S.178, F.193, R.194, A.195, A.196, V.197, S.198, A.207 17 PLIP interactions: 17 interactions with chain A Hydrophobic interactions: A:Q.80, A:F.82, A:H.96, A:I.171, A:L.174, A:F.193, A:F.193, A:A.196 Hydrogen bonds: A:H.96, A:G.176, A:S.177, A:S.178, A:R.194, A:A.196, A:A.196 pi-Cation interactions: A:H.96 Halogen bonds: A:R.194

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

EDO.3: 4 residues within 4Å: Chain A: R.162, V.197, K.204, A.205 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.162 EDO.4: 6 residues within 4Å: Chain A: S.76, T.77, A.78, T.79, Q.80, T.81 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.79

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

SO4.5: 3 residues within 4Å: Chain A: Y.45, Q.47, Q.48 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.47 Water bridges: A:A.46 SO4.6: 5 residues within 4Å: Chain A: K.28, T.77, T.79, Q.80, R.101 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:T.79 Water bridges: A:K.28, A:R.101 Salt bridges: A:K.28, A:R.101

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nageswara Rao, D. et al., Discovery of Quinoxaline-Based P1-P3 Macrocyclic NS3/4A Protease Inhibitors with Potent Activity against Drug-Resistant Hepatitis C Virus Variants. J.Med.Chem. (2021)

Release Date

2021-09-01

Peptides

NS3 protease: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

NS3 protease

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