E. coli McbR/YncC

Experimental Data Snapshot

  • Resolution: 2.10 Å
  • R-Value Free: 0.209 
  • R-Value Work: 0.165 
  • R-Value Observed: 0.167 

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This is version 1.2 of the entry. See complete history


McbR/YncC: Implications for the Mechanism of Ligand and DNA Binding by a Bacterial GntR Transcriptional Regulator Involved in Biofilm Formation.

Lord, D.M.Uzgoren Baran, A.Soo, V.W.Wood, T.K.Peti, W.Page, R.

(2014) Biochemistry 53: 7223-7231

  • DOI: https://doi.org/10.1021/bi500871a
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 

    MqsR-controlled colanic acid and biofilm regulator (McbR, also known as YncC) is the protein product of a highly induced gene in early Escherichia coli biofilm development and has been regarded as an attractive target for blocking biofilm formation. This protein acts as a repressor for genes involved in exopolysaccharide production and an activator for genes involved in stress response. To better understand the role of McbR in governing the switch from exponential growth to the biofilm state, we determined the crystal structure of McbR to 2.1 Å. The structure reveals McbR to be a member of the FadR C-terminal domain (FCD) family of the GntR superfamily of transcriptional regulators (this family was named after the first identified member, GntR, a transcriptional repressor of the gluconate operon of Bacillus subtilis). Previous to this study, only six of the predicted 2800 members of this family had been structurally characterized. Here, we identify the residues that constitute the McbR effector and DNA binding sites. In addition, comparison of McbR with other members of the FCD domain family shows that this family of proteins adopts highly distinct oligomerization interfaces, which has implications for DNA binding and regulation.

  • Organizational Affiliation

    Department of Molecular Biology, Cell Biology and Biochemistry, ‡Graduate Program in Molecular Pharmacology and Physiology, and §Department of Molecular Pharmacology, Physiology and Biotechnology & Chemistry, Brown University , Providence, Rhode Island 02903, United States.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
HTH-type transcriptional regulator mcbR
A, B
215Escherichia coli UMEA 3718-1Mutation(s): 0 
Gene Names: G994_01403
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations
  • Reference Sequence
Small Molecules
Modified Residues  1 Unique
IDChains TypeFormula2D DiagramParent
Query on MSE
A, B
Experimental Data & Validation

Experimental Data

  • Resolution: 2.10 Å
  • R-Value Free: 0.209 
  • R-Value Work: 0.165 
  • R-Value Observed: 0.167 
  • Space Group: P 63
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 107.581α = 90
b = 107.581β = 90
c = 72.715γ = 120
Software Package:
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2015-01-14
    Type: Initial release
  • Version 1.1: 2015-09-09
    Changes: Data collection
  • Version 1.2: 2023-12-27
    Changes: Data collection, Database references, Derived calculations