4NLD

Crystal structure of the hepatitis C virus NS5B RNA-dependent RNA polymerase complex with BMS-791325 also known as (1aR,12bS)-8-cyclohexyl-n-(dimethylsulfamoyl)-11-methoxy-1a-{[(1R,5S)-3-methyl-3,8-diazabicyclo[3.2.1]oct-8-yl]carbonyl}-1,1a,2,12b-tetrahydrocyclopropa[d]indolo[2,1-a][2]benzazepine-5-carboxamide and 2-(4-fluorophenyl)-n-methyl-6-[(methylsulfonyl)amino]-5-(propan-2-yloxy)-1-benzofuran-3-carboxamide


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.75 Å
  • R-Value Free: 0.253 
  • R-Value Work: 0.213 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Discovery and Preclinical Characterization of the Cyclopropylindolobenzazepine BMS-791325, A Potent Allosteric Inhibitor of the Hepatitis C Virus NS5B Polymerase.

Gentles, R.G.Ding, M.Bender, J.A.Bergstrom, C.P.Grant-Young, K.Hewawasam, P.Hudyma, T.Martin, S.Nickel, A.Regueiro-Ren, A.Tu, Y.Yang, Z.Yeung, K.S.Zheng, X.Chao, S.Sun, J.H.Beno, B.R.Camac, D.M.Chang, C.H.Gao, M.Morin, P.E.Sheriff, S.Tredup, J.Wan, J.Witmer, M.R.Xie, D.Hanumegowda, U.Knipe, J.Mosure, K.Santone, K.S.Parker, D.D.Zhuo, X.Lemm, J.Liu, M.Pelosi, L.Rigat, K.Voss, S.Wang, Y.Wang, Y.K.Colonno, R.J.Gao, M.Roberts, S.B.Gao, Q.Ng, A.Meanwell, N.A.Kadow, J.F.

(2014) J.Med.Chem. 57: 1855-1879

  • DOI: 10.1021/jm4016894

  • PubMed Abstract: 
  • Described herein are structure-activity relationship studies that resulted in the optimization of the activity of members of a class of cyclopropyl-fused indolobenzazepine HCV NS5B polymerase inhibitors. Subsequent iterations of analogue design and s ...

    Described herein are structure-activity relationship studies that resulted in the optimization of the activity of members of a class of cyclopropyl-fused indolobenzazepine HCV NS5B polymerase inhibitors. Subsequent iterations of analogue design and syntheses successfully addressed off-target activities, most notably human pregnane X receptor (hPXR) transactivation, and led to significant improvements in the physicochemical properties of lead compounds. Those analogues exhibiting improved solubility and membrane permeability were shown to have notably enhanced pharmacokinetic profiles. Additionally, a series of alkyl bridged piperazine carboxamides was identified as being of particular interest, and from which the compound BMS-791325 (2) was found to have distinguishing antiviral, safety, and pharmacokinetic properties that resulted in its selection for clinical evaluation.


    Organizational Affiliation

    Discovery Chemistry, ‡Molecular Discovery Technologies, Molecular Structure & Design, §Molecular Discovery Technologies, Protein Science, ∥Pharmaceutical Candidate Optimization, ⊥Discovery Virology, Disease Sciences and Biologics, #Leads Discovery and Optimization, ▽Materials Science, Drug Product Science and Technology, Bristol-Myers Squibb Research and Development , 5 Research Parkway, Wallingford, Connecticut 06492, United States.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
RNA-directed RNA polymerase
A
574Hepatitis C virus genotype 1bEC: 3.6.1.15, 3.4.22.-, 3.6.4.13, 2.7.7.48, 3.4.21.98
Find proteins for Q9WMX2 (Hepatitis C virus genotype 1b)
Go to UniProtKB:  Q9WMX2
Small Molecules
Ligands 4 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
2N7
Query on 2N7

Download SDF File 
Download CCD File 
A
(1aR,12bS)-8-cyclohexyl-N-(dimethylsulfamoyl)-11-methoxy-1a-{[(1R,5S)-3-methyl-3,8-diazabicyclo[3.2.1]oct-8-yl]carbonyl}-1,1a,2,12b-tetrahydrocyclopropa[d]indolo[2,1-a][2]benzazepine-5-carboxamide
C36 H45 N5 O5 S
ZTTKEBYSXUCBSE-QDFUAKMASA-N
 Ligand Interaction
2N5
Query on 2N5

Download SDF File 
Download CCD File 
A
2-(4-fluorophenyl)-N-methyl-6-[(methylsulfonyl)amino]-5-(propan-2-yloxy)-1-benzofuran-3-carboxamide
C20 H21 F N2 O5 S
VBRUONUESYTIDA-UHFFFAOYSA-N
 Ligand Interaction
SO4
Query on SO4

Download SDF File 
Download CCD File 
A
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
BOG
Query on BOG

Download SDF File 
Download CCD File 
A
B-OCTYLGLUCOSIDE
C14 H28 O6
HEGSGKPQLMEBJL-RKQHYHRCSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.75 Å
  • R-Value Free: 0.253 
  • R-Value Work: 0.213 
  • Space Group: I 2 2 2
Unit Cell:
Length (Å)Angle (°)
a = 73.000α = 90.00
b = 120.600β = 90.00
c = 201.500γ = 90.00
Software Package:
Software NamePurpose
BUSTER-TNTrefinement
HKL-2000data reduction
BUSTERrefinement
PDB_EXTRACTdata extraction
AMoREphasing
HKL-2000data scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 2013-11-14 
  • Released Date: 2014-03-19 
  • Deposition Author(s): Sheriff, S.

Revision History 

  • Version 1.0: 2014-03-19
    Type: Initial release
  • Version 1.1: 2014-03-26
    Type: Database references