3OYP

HCV NS3/4A in complex with ligand 3


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.76 Å
  • R-Value Free: 0.274 
  • R-Value Work: 0.215 

wwPDB Validation 3D Report Full Report


This is version 1.5 of the entry. See complete history

Literature

Selective irreversible inhibition of a protease by targeting a noncatalytic cysteine.

Hagel, M.Niu, D.St.Martin, T.Sheets, M.P.Qiao, L.Bernard, H.Karp, R.M.Zhu, Z.Labenski, M.T.Chaturvedi, P.Nacht, M.Westlin, W.F.Petter, R.C.Singh, J.

(2011) Nat.Chem.Biol. 7: 22-24

  • DOI: 10.1038/nchembio.492

  • PubMed Abstract: 
  • Designing selective inhibitors of proteases has proven problematic, in part because pharmacophores that confer potency exploit the conserved catalytic apparatus. We developed a fundamentally different approach by designing irreversible inhibitors tha ...

    Designing selective inhibitors of proteases has proven problematic, in part because pharmacophores that confer potency exploit the conserved catalytic apparatus. We developed a fundamentally different approach by designing irreversible inhibitors that target noncatalytic cysteines that are structurally unique to a target in a protein family. We have successfully applied this approach to the important therapeutic target HCV protease, which has broad implications for the design of other selective protease inhibitors.


    Organizational Affiliation

    Avila Therapeutics, Inc., Waltham, Massachusetts, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Serine protease NS3
A, B
187Hepatitis C virus genotype 1b (isolate Japanese)Mutation(s): 0 
Find proteins for P26662 (Hepatitis C virus genotype 1b (isolate Japanese))
Go to UniProtKB:  P26662
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Non-structural protein 4A
C, D
16Hepatitis C virus genotype 1b (isolate Japanese)Mutation(s): 0 
Find proteins for P26662 (Hepatitis C virus genotype 1b (isolate Japanese))
Go to UniProtKB:  P26662
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Peptidomimetic inhibitor
E, F
5N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Small Molecules
Ligands 1 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
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
3OYIC50: 2 nM PDBBIND
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.76 Å
  • R-Value Free: 0.274 
  • R-Value Work: 0.215 
  • Space Group: P 61
Unit Cell:
Length (Å)Angle (°)
a = 94.401α = 90.00
b = 94.401β = 90.00
c = 83.129γ = 120.00
Software Package:
Software NamePurpose
XDSdata reduction
XDSdata scaling
XSCALEdata scaling
MOLREPphasing
REFMACrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2010-12-01
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Version format compliance
  • Version 1.2: 2012-12-12
    Type: Other
  • Version 1.3: 2012-12-19
    Type: Non-polymer description, Structure summary
  • Version 1.4: 2018-01-24
    Type: Database references
  • Version 1.5: 2018-01-31
    Type: Database references, Structure summary