PyrR of Mycobacterium Tuberculosis as a potential drug target

Experimental Data Snapshot

  • Resolution: 1.90 Å
  • R-Value Free: 0.244 
  • R-Value Work: 0.205 
  • R-Value Observed: 0.206 

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Structure of Pyrr (Rv1379) from Mycobacterium Tuberculosis: A Persistence Gene and Protein Drug Target

Kantardjieff, K.A.Vasquez, C.Castro, P.Warfel, N.N.Rho, B.-S.Lekin, T.Kim, C.-Y.Segelke, B.W.Terwilliger, T.Rupp, B.

(2005) Acta Crystallogr D Biol Crystallogr 61: 355

  • DOI: https://doi.org/10.1107/S090744490403389X
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 

    The Mycobacterium tuberculosis pyrR gene (Rv1379) encodes a protein that regulates the expression of pyrimidine-nucleotide biosynthesis (pyr) genes in a UMP-dependent manner. Because pyrimidine biosynthesis is an essential step in the progression of TB, the gene product pyrR is an attractive antitubercular drug target. The 1.9 A native structure of Mtb pyrR determined by the TB Structural Genomics Consortium facilities in trigonal space group P3(1)21 is reported, with unit-cell parameters a = 66.64, c = 154.72 A at 120 K and two molecules in the asymmetric unit. The three-dimensional structure and residual uracil phosphoribosyltransferase activity point to a common PRTase ancestor for pyrR. However, while PRPP- and UMP-binding sites have been retained in Mtb pyrR, a distinct dimer interaction among subunits creates a deep positively charged cleft capable of binding pyr mRNA. In silico screening of pyrimidine-nucleoside analogs has revealed a number of potential lead compounds that, if bound to Mtb pyrR, could facilitate transcriptional attenuation, particularly cyclopentenyl nucleosides.

  • Organizational Affiliation

    Department of Chemistry and Biochemistry and W. M. Keck Foundation Center for Molecular Structure, California State University Fullerton, Fullerton, CA 92834, USA.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
A, B
201Mycobacterium tuberculosisMutation(s): 1 
Find proteins for P9WHK3 (Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv))
Explore P9WHK3 
Go to UniProtKB:  P9WHK3
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP9WHK3
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Resolution: 1.90 Å
  • R-Value Free: 0.244 
  • R-Value Work: 0.205 
  • R-Value Observed: 0.206 
  • Space Group: P 31 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 66.638α = 90
b = 66.638β = 90
c = 154.716γ = 120
Software Package:
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling

Structure Validation

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Entry History 

Revision History  (Full details and data files)

  • Version 1.0: 2004-09-29
    Type: Initial release
  • Version 1.1: 2015-05-06
    Changes: Derived calculations, Non-polymer description, Other, Structure summary, Version format compliance
  • Version 1.2: 2019-05-08
    Changes: Data collection, Experimental preparation, Other
  • Version 1.3: 2019-08-21
    Changes: Data collection, Database references
  • Version 1.4: 2023-12-13
    Changes: Data collection, Database references, Other, Refinement description