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Gupta AM, Bhattacharya S, Bagchi A, et al. Implication from the predicted docked interaction of sigma H and exploration of its interaction with RNA polymerase in Mycobacterium tuberculosis. Bioinformation. 2015;11(6):296-301doi: 10.6026/97320630011296.
Gupta, A. M., Bhattacharya, S., Bagchi, A., & Mandal, S. (2015). Implication from the predicted docked interaction of sigma H and exploration of its interaction with RNA polymerase in Mycobacterium tuberculosis. Bioinformation, 11(6), 296-301. https://doi.org/10.6026/97320630011296
Gupta, Aayatti Mallick, et al. "Implication from the predicted docked interaction of sigma H and exploration of its interaction with RNA polymerase in Mycobacterium tuberculosis." Bioinformation vol. 11,6 (2015): 296-301. doi: https://doi.org/10.6026/97320630011296
Gupta AM, Bhattacharya S, Bagchi A, Mandal S. Implication from the predicted docked interaction of sigma H and exploration of its interaction with RNA polymerase in Mycobacterium tuberculosis. Bioinformation. 2015 Jun 30;11(6):296-301. doi: 10.6026/97320630011296. eCollection 2015. PMID: 26229290; PMCID: PMC4512004.
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Bioinformation. 2015 Jun 30;11(6):296-301. doi: 10.6026/97320630011296. eCollection 2015.

Implication from the predicted docked interaction of sigma H and exploration of its interaction with RNA polymerase in Mycobacterium tuberculosis.

Bioinformation

Aayatti Mallick Gupta, Simanti Bhattacharya, Angshuman Bagchi, Sukhendu Mandal

Affiliations

  1. Department of Microbiology, University of Calcutta, 35, Ballygunge Circular Road, Kolkata, 700019, India.
  2. Department of Biochemistry and Biophysics, University of Kalyani, Kalyani, 741235, Nadia, India.

PMID: 26229290 PMCID: PMC4512004 DOI: 10.6026/97320630011296

Abstract

M. tuberculosis is adapted to remain active in the extreme environmental condition due to the presence of atypical sigma factors commonly called extra cytoplasmic function (ECF) sigma factors. Among the 13 sigma factors of M. tuberculosis, 10 are regarded as the ECF sigma factor that exerts their attributes in various stress response. Therefore it is of interest to describe the structural prediction of one of the ECF sigma factors, sigma H (SigH), involved in oxidative and heat stress having interaction with the β׳ subunit of M. tuberculosis. RNA polymerase (Mtb-RNAP). The model of Mtb-SigH was build using the commercial package of Discovery Studio version 2.5 from Accelerys (San Diego, CA, USA) containing the inbuilt MODELER module and that of β׳ subunit of Mtb-RNAP using Phyre Server. Further, the protein models were docked using the fully automated web tool ClusPro (cluspro.bu.edu/login.php). Mtb-SigH is a triple helical structure having a putative DNA-binding site and the β׳ subunit of MtbRNAP consists of 18-beta sheets and 22 helices. The SigH-Mtb-RNAP β׳ interaction studies showed that Arg26, Gln19 andAsp18, residues of SigH protein are involved in binding with Arg137, Gln140, Arg152, Asn133 and Asp144 of β׳ subunit of Mtb-RNAP. The predicted model helps to explore the molecular mechanism in the control of gene regulation with a novel unique target for potential new generation inhibitor.

Keywords: Mycobacterium sigma factor; SigH-RNAP interaction; homology modelling; transcription; transcription regulator

References

  1. Nat Protoc. 2009;4(3):363-71 - PubMed
  2. Curr Opin Struct Biol. 2003 Feb;13(1):31-9 - PubMed
  3. Curr Opin Microbiol. 2001 Apr;4(2):126-31 - PubMed
  4. Proteins. 2013 Dec;81(12):2159-66 - PubMed
  5. Nature. 1998 Jun 11;393(6685):537-44 - PubMed
  6. Nature. 2002 Jun 13;417(6890):712-9 - PubMed
  7. J Bacteriol. 2001 Oct;183(20):6119-25 - PubMed
  8. PLoS One. 2012;7(1):e28958 - PubMed
  9. J Comput Chem. 2002 Apr 30;23(6):600-9 - PubMed
  10. Mol Biol Evol. 2011 Oct;28(10):2731-9 - PubMed
  11. Proc Natl Acad Sci U S A. 2008 Sep 2;105(35):13105-10 - PubMed
  12. Nucleic Acids Res. 2007 Jan;35(Database issue):D301-3 - PubMed
  13. FEBS J. 2010 Feb;277(3):605-26 - PubMed
  14. Bioinformatics. 2004 Jan 1;20(1):45-50 - PubMed
  15. Mol Cell. 2002 Mar;9(3):527-39 - PubMed
  16. Nucleic Acids Res. 2004 Jul 1;32(Web Server issue):W96-9 - PubMed
  17. Proteins. 2006 Nov 1;65(2):392-406 - PubMed
  18. Cold Spring Harb Symp Quant Biol. 1998;63:141-55 - PubMed
  19. FEMS Microbiol Rev. 2006 Nov;30(6):926-41 - PubMed
  20. J Chem Inf Model. 2011 Oct 24;51(10 ):2515-27 - PubMed
  21. Tuber Lung Dis. 1999;79(6):329-42 - PubMed

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