5ZR4

Manganese-dependent transcriptional repressor


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.10 Å
  • R-Value Free: 0.300 
  • R-Value Work: 0.249 
  • R-Value Observed: 0.255 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Crystal structures of manganese-dependent transcriptional repressor MntR (Rv2788) from Mycobacterium tuberculosis in apo and manganese bound forms.

Cong, X.Y.Yuan, Z.L.Wang, Z.Wei, B.Xu, S.J.Wang, J.B.

(2018) Biochem Biophys Res Commun 501: 423-427

  • DOI: https://doi.org/10.1016/j.bbrc.2018.05.005
  • Primary Citation of Related Structures:  
    5ZR4, 5ZR6

  • PubMed Abstract: 

    The pathogenic Mycobacterium tuberculosis encodes two members of the DtxR family metalloregulators, IdeR and MntR. IdeR represses gene expression in response to ferrous iron, while MntR (Rv2788) functions as a manganese-dependent transcriptional repressor, which represses the expression of manganese transporter genes to maintain manganese homeostasis. Although the structural study towards IdeR is in-depth, there is no MntR structure available. Herein, we report both apo and manganese bound forms of MntR structures from M. tuberculosis. MntR has evolved into two metal ion binding sites like other DtxR proteins and for the first time, we captured the two sites fully occupied by its natural ions with one Mn 2+ ion at the first site and two Mn 2+ ions at the second binding site (binuclear manganese cluster). The conformation change of MntR resulting from manganese binding could prime the MntR for DNA binding, which is a conserved activation mechanism among DtxR family.


  • Organizational Affiliation

    State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, China.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Metal-dependent transcriptional regulator
A, B
226Mycobacterium tuberculosisMutation(s): 0 
Gene Names: sirRsirR_2
UniProt
Find proteins for I6Y1Q2 (Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv))
Explore I6Y1Q2 
Go to UniProtKB:  I6Y1Q2
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupI6Y1Q2
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.10 Å
  • R-Value Free: 0.300 
  • R-Value Work: 0.249 
  • R-Value Observed: 0.255 
  • Space Group: C 2 2 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 89.5α = 90
b = 109.04β = 90
c = 106.81γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
HKL-2000data reduction
HKL-2000data scaling
PHENIXphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2019-01-23
    Type: Initial release
  • Version 1.1: 2024-03-27
    Changes: Data collection, Database references