7PC1

DNA binding domain of partition protein StbA of plasmid R388


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.90 Å
  • R-Value Free: 0.222 
  • R-Value Work: 0.200 
  • R-Value Observed: 0.203 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

Characterization of the DNA Binding Domain of StbA, A Key Protein of A New Type of DNA Segregation System.

Quebre, V.Del Campo, I.Cuevas, A.Siguier, P.Rech, J.Le, P.T.N.Ton-Hoang, B.Cornet, F.Bouet, J.Y.Moncalian, G.de la Cruz, F.Guynet, C.

(2022) J Mol Biol 434: 167752-167752

  • DOI: https://doi.org/10.1016/j.jmb.2022.167752
  • Primary Citation of Related Structures:  
    7PC1

  • PubMed Abstract: 

    Low-copy-number plasmids require sophisticated genetic devices to achieve efficient segregation of plasmid copies during cell division. Plasmid R388 uses a unique segregation mechanism, based on StbA, a small multifunctional protein. StbA is the key protein in a segregation system not involving a plasmid-encoded NTPase partner, it regulates the expression of several plasmid operons, and it is the main regulator of plasmid conjugation. The mechanisms by which StbA, together with the centromere-like sequence stbS, achieves segregation, is largely uncharacterized. To better understand the molecular basis of R388 segregation, we determined the crystal structure of the conserved N-terminal domain of StbA to 1.9 Å resolution. It folds into an HTH DNA-binding domain, structurally related to that of the PadR subfamily II of transcriptional regulators. StbA is organized in two domains. Its N-terminal domain carries the specific stbS DNA binding activity. A truncated version of StbA, deleted of its C-terminal domain, displays only partial activities in vivo, indicating that the non-conserved C-terminal domain is required for efficient segregation and subcellular plasmid positioning. The structure of StbA DNA-binding domain also provides some insight into how StbA monomers cooperate to repress transcription by binding to the stbDR and to form the segregation complex with stbS.


  • Organizational Affiliation

    Laboratoire de Microbiologie et de Génétique Moléculaires, Centre de Biologie Intégrative (CBI), Centre National de la Recherche Scientifique, Université de Toulouse, UPS, F-31000 Toulouse, France.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
StbA72Escherichia coli K-12Mutation(s): 0 
UniProt
Find proteins for Q6I6C4 (Escherichia coli)
Explore Q6I6C4 
Go to UniProtKB:  Q6I6C4
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ6I6C4
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Modified Residues  1 Unique
IDChains TypeFormula2D DiagramParent
MSE
Query on MSE
A
L-PEPTIDE LINKINGC5 H11 N O2 SeMET
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.90 Å
  • R-Value Free: 0.222 
  • R-Value Work: 0.200 
  • R-Value Observed: 0.203 
  • Space Group: P 31
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 45.623α = 90
b = 45.623β = 90
c = 34.393γ = 120
Software Package:
Software NamePurpose
XDSdata reduction
SCALAdata scaling
PHENIXphasing
PHENIXrefinement

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Spanish Ministry of Science, Innovation, and UniversitiesSpainPGC2018-093885-B-I00

Revision History  (Full details and data files)

  • Version 1.0: 2022-08-10
    Type: Initial release