6JMI

Crystal structure of M.tuberculosis Rv0081


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.90 Å
  • R-Value Free: 0.301 
  • R-Value Work: 0.261 
  • R-Value Observed: 0.265 

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Ligand Structure Quality Assessment 


This is version 1.3 of the entry. See complete history

Re-refinement Note

This entry reflects an alternative modeling of the original data in: 5XPQ


Literature

Structural basis of hypoxic gene regulation by the Rv0081 transcription factor of Mycobacterium tuberculosis.

Kumar, A.Phulera, S.Rizvi, A.Sonawane, P.J.Panwar, H.S.Banerjee, S.Sahu, A.Mande, S.C.

(2019) FEBS Lett 593: 982-995

  • DOI: https://doi.org/10.1002/1873-3468.13375
  • Primary Citation of Related Structures:  
    6JMI

  • PubMed Abstract: 

    The transcription factor Rv0081 of Mycobacterium tuberculosis controls hypoxic gene expression and acts as a regulatory hub in the latent phase of tuberculosis (TB) infection. We report here the crystal structure of Rv0081 at 2.9 Å resolution revealing that it belongs to the well-known ArsR/SmtB family proteins. However, unlike other members in this family, Rv0081 has neither a metal-binding domain nor does it possess Cys residues, suggesting an alternate mechanism of gene regulation. Our structural and biochemical analyses suggest the molecular basis for the recognition of self-regulatory DNA sequences and a plausible mechanism of regulation of Rv0081 in the latent phase of TB infection. DATABASE: Structural data are available in the Protein Data Bank under the accession number - 6JMI.


  • Organizational Affiliation

    National Centre for Cell Science, SP Pune University Campus, Pune, India.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Uncharacterized HTH-type transcriptional regulator Rv0081
A, B, C, D
114Mycobacterium tuberculosis H37RvMutation(s): 0 
Gene Names: Rv0081
UniProt
Find proteins for P9WMI7 (Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv))
Explore P9WMI7 
Go to UniProtKB:  P9WMI7
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP9WMI7
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.90 Å
  • R-Value Free: 0.301 
  • R-Value Work: 0.261 
  • R-Value Observed: 0.265 
  • Space Group: P 41 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 63.317α = 90
b = 63.317β = 90
c = 262.604γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
Aimlessdata scaling
PHASERphasing

Structure Validation

View Full Validation Report



Ligand Structure Quality Assessment 


Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Department of Biotechnology (India)IndiaBT/PR3260/BRB/10/967/2011
Department of Biotechnology (India)IndiaBT/PR15450/COE/34/46/2016

Revision History  (Full details and data files)

  • Version 1.0: 2019-04-10
    Type: Initial release
  • Version 1.1: 2019-04-17
    Changes: Author supporting evidence, Data collection, Database references
  • Version 1.2: 2019-05-22
    Changes: Data collection, Database references
  • Version 1.3: 2024-03-27
    Changes: Data collection, Database references