2IJN

Isothiazoles as active-site inhibitors of HCV NS5B polymerase


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.261 
  • R-Value Work: 0.222 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Isothiazoles as active-site inhibitors of HCV NS5B polymerase

Yan, S.Appleby, T.Gunic, E.Shim, J.H.Tasu, T.Kim, H.Rong, F.Chen, H.Hamatake, R.Wu, J.Z.Hong, Z.Yao, N.

(2007) Bioorg.Med.Chem.Lett. 17: 28-33

  • DOI: 10.1016/j.bmcl.2006.10.002

  • PubMed Abstract: 
  • Isothiazole analogs were discovered as a novel class of active-site inhibitors of HCV NS5B polymerase. The best compound has an IC(50) of 200 nM and EC(50) of 100 nM, which is a significant improvement over the starting inhibitor (1). The X-ray compl ...

    Isothiazole analogs were discovered as a novel class of active-site inhibitors of HCV NS5B polymerase. The best compound has an IC(50) of 200 nM and EC(50) of 100 nM, which is a significant improvement over the starting inhibitor (1). The X-ray complex structure of 1 with HCV NS5B was obtained at a resolution of 2.2A, revealing that the inhibitor is covalently linked with Cys 366 of the 'primer-grip'. Furthermore, it makes considerable contacts with the C-terminus, beta-loop, and more importantly, to the active-site of the enzyme. The uniqueness of this binding mode offers a new insight for the rational design of novel inhibitors for HCV NS5B polymerase.


    Organizational Affiliation

    Valeant Pharmaceutical Research and Development, 3300 Hyland Ave., Costa Mesa, CA 92626, USA. syan@valeant.com




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
RNA polymerase NS5B
A, B
576Hepatitis C virus subtype 1bN/A
Find proteins for Q99AU2 (Hepatitis C virus subtype 1b)
Go to UniProtKB:  Q99AU2
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
221
Query on 221

Download SDF File 
Download CCD File 
A, B
(2R,3R)-3-{[3,5-BIS(TRIFLUOROMETHYL)PHENYL]AMINO}-2-CYANO-3-THIOXOPROPANAMIDE
C12 H9 F6 N3 O S
ZTUMRSFHUOBXAC-LHIURRSHSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.261 
  • R-Value Work: 0.222 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 85.507α = 90.00
b = 105.272β = 90.00
c = 126.458γ = 90.00
Software Package:
Software NamePurpose
CrystalCleardata collection
CNSphasing
SCALEPACKdata scaling
DENZOdata reduction
CNSrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 2006-09-29 
  • Released Date: 2006-11-28 
  • Deposition Author(s): Yan, S., Yao, N.

Revision History 

  • Version 1.0: 2006-11-28
    Type: Initial release
  • Version 1.1: 2008-05-01
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance