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Categories containing this gene/protein


utilization of amino acids, transcription factors and their control

This gene is a member of the following regulons


GabR regulon

The GabR regulon


Gene


  • Coordinates on the chromosome (coding sequence): 440,025 -> 441,464
  • The protein


    Catalyzed reaction/ biological activity

  • transcription activation of the gabT-gabD operon in the presence of GABA and PLP, transcription repression of gabR PubMed
  • Protein family

  • [[MocR/ GabR family]] PubMed
  • Paralogous protein(s)

  • none, but there are 7 members of the [[MocR/ GabR family]] in B. subtilis
  • Kinetic information

    Domains

  • N-terminal DNA-binding helix-turn-helix motif (corresponding to domains of the GntR family) PubMed
  • C-terminal domain is homologous to PLP-binding large domain of aminotransferases PubMed
  • Modification

    Cofactors

  • gamma-aminobutyric acid, PLP PubMed
  • Effectors of protein activity

  • activation of gabT-gabD expression is triggered by gamma-amino butyrate and pyridoxalphosphate PubMed
  • Structure

  • 4MGR (the apo-protein) PubMed
  • 4N0B (the complex with PLP) PubMed
  • Localization

    Interactions

  • forms head-to-tail domain-swapped dimers PubMed
  • Additional information

    Expression and Regulation


    Operon

  • gabR (according to DBTBS)
  • Sigma factor

  • SigA PubMed
  • Regulation

    Regulatory mechanism

  • GabR: negative autoregulation PubMed
  • Additional information

    Biological materials


    Mutant

  • MGNA-C014 (ycnF::erm), available at the NBRP B. subtilis, Japan
  • Expression vector

    lacZ fusion

    GFP fusion

    two-hybrid system

    FLAG-tag construct

    Antibody

    Labs working on this gene/protein


  • Linc Sonenshein, Tufts University, Boston, MA, USA Homepage
  • References


    Amidani D, Tramonti A, Canosa AV, Campanini B, Maggi S, Milano T, di Salvo ML, Pascarella S, Contestabile R, Bettati S, Rivetti C

    Study of DNA binding and bending by Bacillus subtilis GabR, a PLP-dependent transcription factor

    Biochim Biophys Acta. 2017 Jan;1861(1 Pt A):3474-3489. doi: 10.1016/j.bbagen.2016.09.013. Epub 2016 Sep 14. PubMed PMID: 27640111.
    Al-Zyoud WA, Hynson RM, Ganuelas LA, Coster AC, Duff AP, Baker MA, Stewart AG, Giannoulatou E, Ho JW, Gaus K, Liu D, Lee LK, Böcking T

    Binding of transcription factor GabR to DNA requires recognition of DNA shape at a location distinct from its cognate binding site

    Nucleic Acids Res. 2016 Feb 18;44(3):1411-20. doi: 10.1093/nar/gkv1466. Epub 2015 Dec 17. PubMed PMID: 26681693; PubMed Central PMCID: PMC4756830.
    Okuda K, Ito T, Goto M, Takenaka T, Hemmi H, Yoshimura T

    Domain characterization of Bacillus subtilis GabR, a pyridoxal 5'-phosphate-dependent transcriptional regulator

    J Biochem. 2015 Sep;158(3):225-34. doi: 10.1093/jb/mvv040. Epub 2015 Apr 23. PubMed PMID: 25911692.
    Okuda K, Kato S, Ito T, Shiraki S, Kawase Y, Goto M, Kawashima S, Hemmi H, Fukada H, Yoshimura T

    Role of the aminotransferase domain in Bacillus subtilis GabR, a pyridoxal 5'-phosphate-dependent transcriptional regulator

    Mol Microbiol. 2015 Jan;95(2):245-57. doi: 10.1111/mmi.12861. Epub 2014 Dec 8. PubMed PMID: 25388514.
    Edayathumangalam R, Wu R, Garcia R, Wang Y, Wang W, Kreinbring CA, Bach A, Liao J, Stone TA, Terwilliger TC, Hoang QQ, Belitsky BR, Petsko GA, Ringe D, Liu D

    Crystal structure of Bacillus subtilis GabR, an autorepressor and transcriptional activator of gabT

    Proc Natl Acad Sci U S A. 2013 Oct 29;110(44):17820-5. doi: 10.1073/pnas.1315887110. Epub 2013 Oct 14. PubMed PMID: 24127574; PubMed Central PMCID: PMC3816445.
    Bramucci E, Milano T, Pascarella S

    Genomic distribution and heterogeneity of MocR-like transcriptional factors containing a domain belonging to the superfamily of the pyridoxal-5'-phosphate dependent enzymes of fold type I

    Biochem Biophys Res Commun. 2011 Nov 11;415(1):88-93. doi: 10.1016/j.bbrc.2011.10.017. Epub 2011 Oct 12. PubMed PMID: 22020104.
    Belitsky BR

    Bacillus subtilis GabR, a protein with DNA-binding and aminotransferase domains, is a PLP-dependent transcriptional regulator

    J Mol Biol. 2004 Jul 16;340(4):655-64. PubMed PMID: 15223311.
    Belitsky BR, Sonenshein AL

    GabR, a member of a novel protein family, regulates the utilization of gamma-aminobutyrate in Bacillus subtilis

    Mol Microbiol. 2002 Jul;45(2):569-83. PubMed PMID: 12123465.
    Rigali S, Derouaux A, Giannotta F, Dusart J

    Subdivision of the helix-turn-helix GntR family of bacterial regulators in the FadR, HutC, MocR, and YtrA subfamilies

    J Biol Chem. 2002 Apr 12;277(15):12507-15. Epub 2001 Dec 27. PubMed PMID: 11756427.
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