2I1R | pdb_00002i1r

Novel Thiazolones as HCV NS5B Polymerase Inhibitors: Further Designs, Synthesis, SAR and X-ray Complex Structure

• PDB DOI: https://doi.org/10.2210/pdb2I1R/pdb

• Classification: TRANSFERASE
• Organism(s): Orthohepacivirus hominis
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2006-08-14 Released: 2006-10-31 
• Deposition Author(s): Yao, N., Yan, S.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free: 
  0.277 (Depositor) 
• R-Value Work: 
  0.236 (Depositor) 
• R-Value Observed: 
  0.236 (Depositor) 

Literature

Novel thiazolones as HCV NS5B polymerase allosteric inhibitors: Further designs, SAR, and X-ray complex structure.

Yan, S., Larson, G., Wu, J.Z., Appleby, T., Ding, Y., Hamatake, R., Hong, Z., Yao, N.

(2007) Bioorg Med Chem Lett 17: 63-67

• PubMed: 17049849 
• DOI: https://doi.org/10.1016/j.bmcl.2006.09.095
• Primary Citation Related Structures: 
  2I1R


• PubMed Abstract: 
  

  Structure-activity relationships (SAR) of 1 against HCV NS5B polymerase were described. SAR explorations and further structure-based design led to the identifications of 2 and 3 as novel HCV NS5B inhibitors. X-ray structure of 3 in complex with NS5B polymerase was obtained at a resolution of 2.2A, and confirmed the design.

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Organizational Affiliation: 
• Valeant Pharmaceuticals Research and Development, 3300 Hyland Ave., Costa Mesa, CA 92626, USA. [e-mail]

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 2 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 128.82 kDa 
• Atom Count: 9,003 
• Modeled Residue Count: 1,120 
• Deposited Residue Count: 1,152 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
RNA-directed RNA polymerase (NS5B) (P68)	A, B	576	Orthohepacivirus hominis	Mutation(s): 0  EC: 2.7.7.48
UniProt
Find proteins for P26663 (Hepatitis C virus genotype 1b (isolate BK)) Explore P26663  Go to UniProtKB:  P26663

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
VXR	C [auth A], D [auth B]	(5Z)-5-[(5-ETHYL-2-FURYL)METHYLENE]-2-{[(S)-(4-FLUOROPHENYL)(1H-TETRAZOL-5-YL)METHYL]AMINO}-1,3-THIAZOL-4(5H)-ONE C18 H15 F N6 O2 S BKZOQCGDCHOGOQ-MZLJFPOFSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free:  0.277 (Depositor) 
• R-Value Work:  0.236 (Depositor) 
• R-Value Observed: 0.236 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 85.602	α = 90
b = 106.117	β = 90
c = 126.605	γ = 90

Software Package:

Software Name	Purpose
CrystalClear	data collection
CNS	refinement
DENZO	data reduction
SCALEPACK	data scaling
CNS	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2006-10-31 
Deposition Author(s): Yao, N., Yan, S.

Revision History  

• Version 1.0: 2006-10-31
  Type: Initial release
  
• Version 1.1: 2008-05-01
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2024-02-21
  Changes: Data collection, Database references, Derived calculations