1RTL

CRYSTAL STRUCTURE OF HCV NS3 PROTEASE DOMAIN: NS4A PEPTIDE COMPLEX WITH COVALENTLY BOUND PYRROLIDINE-5,5-TRANSLACTAM INHIBITOR


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.75 Å
  • R-Value Free: 0.234 
  • R-Value Work: 0.180 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Pyrrolidine-5,5-trans-lactams. 4. Incorporation of a P3/P4 urea leads to potent intracellular inhibitors of hepatitis C virus NS3/4A protease

Slater, M.J.Amphlett, E.M.Andrews, D.M.Bamborough, P.Carey, S.J.Johnson, M.R.Jones, P.S.Mills, G.Parry, N.R.Somers, D.O.Stewart, A.J.Skarzynski, T.

(2003) Org.Lett. 5: 4627-4630

  • DOI: 10.1021/ol035826v

  • PubMed Abstract: 
  • [reaction: see text] In this, the first of two Letters, we describe how a P3/P4 urea linking unit was used to greatly enhance the biochemical and replicon potency of inhibitors based upon the pyrrolidine-5,5-trans-lactam template. Compound 7b demonst ...

    [reaction: see text] In this, the first of two Letters, we describe how a P3/P4 urea linking unit was used to greatly enhance the biochemical and replicon potency of inhibitors based upon the pyrrolidine-5,5-trans-lactam template. Compound 7b demonstrated a 100 nM IC(50) in the replicon cell-based surrogate HCV assay.


    Related Citations: 
    • Pyrrolidine-5,5-Trans-Lactams. 2. The Use of X-Ray Crystal Structure Data in the Optimisation of P3 and P4 Substituents
      Andrews, D.M.,Chaignot, H.,Coomber, B.A.,Good, A.C.,Hind, S.L.,Johnson, M.R.,Jones, P.S.,Mills, G.,Robinson, J.E.,Skarzynski, T.,Slater, M.J.,Somers, D.O.
      (2002) Org.Lett. 4: 4479


    Organizational Affiliation

    GlaxoSmithKline Medicines Research Center, Gunnels Wood Road, Stevenage, SG1 2NY, UK. martin.j.slater@gsk.com




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
NS3 protease/helicase
A, B
200Hepatitis C virus genotype 1aMutation(s): 1 
Find proteins for P26664 (Hepatitis C virus genotype 1a)
Go to UniProtKB:  P26664
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
NS4A COFACTOR
C, D
23Hepacivirus CMutation(s): 0 
Gene Names: NS4a/b
Find proteins for O39914 (Hepacivirus C)
Go to UniProtKB:  O39914
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

Download SDF File 
Download CCD File 
A, B
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
CPX
Query on CPX

Download SDF File 
Download CCD File 
A
N-[(2R,3S)-1-((2S)-2-{[(CYCLOPENTYLAMINO)CARBONYL]AMINO}-3-METHYLBUTANOYL)-2-(1-FORMYL-1-CYCLOBUTYL)PYRROLIDINYL]CYCLOPROPANECARBOXAMIDE
C24 H38 N4 O4
GCDRFILPPBOJLM-UFYCRDLUSA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
CPXIC50: 2600 nM PDBBIND
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.75 Å
  • R-Value Free: 0.234 
  • R-Value Work: 0.180 
  • Space Group: H 3 2
Unit Cell:
Length (Å)Angle (°)
a = 224.082α = 90.00
b = 224.082β = 90.00
c = 75.694γ = 120.00
Software Package:
Software NamePurpose
SCALEPACKdata scaling
DENZOdata reduction
REFMACrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2004-12-14
    Type: Initial release
  • Version 1.1: 2008-04-29
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance