3UDL

3-heterocyclyl quinolone bound to HCV NS5B

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.17 Å
  • R-Value Free: 0.243 
  • R-Value Work: 0.191 
  • R-Value Observed: 0.197 

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Ligand Structure Quality Assessment 


This is version 1.0 of the entry. See complete history. 


Literature

Quinolones as HCV NS5B polymerase inhibitors.

Kumar, D.V., Rai, R., Brameld, K.A., Somoza, J.R., Rajagopalan, R., Janc, J.W., Xia, Y.M., Ton, T.L., Shaghafi, M.B., Hu, H., Lehoux, I., To, N., Young, W.B., Green, M.J.

(2011) Bioorg Med Chem Lett 21: 82-87

  • DOI: https://doi.org/10.1016/j.bmcl.2010.11.068
  • Primary Citation of Related Structures:  
    3PHE, 3UDL

  • PubMed Abstract: 

    Hepatitis C virus (HCV) infection is treated with a combination of peginterferon alfa-2a/b and ribavirin. To address the limitations of this therapy, numerous small molecule agents are in development, which act by directly affecting key steps in the viral life-cycle. Herein we describe our discovery of quinolone derivatives, novel small-molecules that inhibit NS5b polymerase, a key enzyme of the viral life-cycle. A crystal structure of a quinoline analog bound to NS5B reveals that this class of compounds binds to allosteric site-II (non-nucleoside inhibitor-site 2, NNI-2) of this protein.

    • Organizational Affiliation: 

    Myriad Pharmaceuticals, 305 Chipeta Way, Salt Lake City, UT 84108, USA.


Macromolecules
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
HCV NS5B polymerase
A, B, C, D
576Hepatitis C virus subtype 1bMutation(s): 0 
UniProt
Find proteins for P26663 (Hepatitis C virus genotype 1b (isolate BK))
Explore P26663 
Go to UniProtKB:  P26663
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP26663
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.17 Å
  • R-Value Free: 0.243 
  • R-Value Work: 0.191 
  • R-Value Observed: 0.197 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 101.746α = 90
b = 101.863β = 90
c = 250.867γ = 90
Software Package:
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
EPMRphasing
PHENIXrefinement
PDB_EXTRACTdata extraction
BOSdata collection

Structure Validation

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Ligand Structure Quality Assessment 


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Entry History 

Deposition Data

  • Released Date: 2011-12-21 
    • Deposition Author(s): Somoza, J.R.

Revision History  (Full details and data files)

  • Version 1.0: 2011-12-21
    Type: Initial release