Journal of Integrative Natural Science (통합자연과학논문집)

The Basic Science Institute Chosun University (조선대학교 기초과학연구원)
권호 표지
DOI QR코드

DOI QR Code

Theoretical Structure Prediction of Bradykinin Receptor B2 Using Comparative Modeling

  • Received : 2016.10.17
  • Accepted : 2016.12.25
  • Published : 2016.12.31
Download PDF
⟨ Previous Next ⟩

Abstract

Bradykinin receptor B2, a GPCR protein, binds with the inflammatory mediator hormone bradkynin. It plays an important role in cross-talk between the renin-angiotensin system (RAS) and the kinin-kallikrein system (KKS). Also, it is involved in many processes including vasodilation, edema, smooth muscle spasm and pain fiber stimulation. Hence, studuying the structural features of the receptor becomes important. But the unavailability of the three dimensional structure of the protein makes the analysis difficult. Hence we have performed the homology modelling of Bradykinin receptor B2 with 5 different templates. 25 different homology models were constructed. Two best models were selected based on the model validation. The developed models could be helpful in analysing the structural features of Bradykinin receptor B2 and in pathophysiology of various disorders related to them.

Keywords

References

  1. J. M. Hall, "Bradykinin receptors" General Pharmacology: The Vascular System, Vol. 28, pp. 1-6, 1997. https://doi.org/10.1016/S0306-3623(96)00174-7
  2. S. Yamaguchi-Sase, I. Hayashi, H. Okamoto, Y. Nara, S. Matsuzaki, S. Hoka, and M. Majima, "Amelioration of hyperalgesia by kinin receptor antagonists or kininogen deficiency in chronic constriction nerve injury in rats", Inflamm. Res., Vol. 52, pp. 164-169, 2003 https://doi.org/10.1007/s000110300067
  3. D. Regoli, S. N. Allogho, A. Rizzi, and F. J. Gobeil, "Bradykinin receptors and their antagonists", Eur. J. Pharmacol., Vol. 348, pp. 1-10, 1998. https://doi.org/10.1016/S0014-2999(98)00165-4
  4. W. Gu, Z. Li, Z. Wang, Y. Liu, J. Liu, and S. Wen, "Association of the bradykinin receptors genes variants with hypertension: a case-control study and meta-analysis", Clin. Exp. Hypertens., Vol. 38, pp. 100-106, 2016. https://doi.org/10.3109/10641963.2015.1060989
  5. J.-X. Ma, D.-Z. Wang, D. C. Ward, L. Chen, T. Desai, J. Chao, and L. Chao, "Structure and chromosomal localization of the gene (BDKRB2) encoding human bradykinin B2 receptor", Genomics, Vol. 23, pp. 362-369, 1994. https://doi.org/10.1006/geno.1994.1512
  6. M. N. Perkins, D. Kelly, and A. J. Davis, "Bradykinin B1 and B2 receptor mechanisms and cytokine-induced hyperalgesia in the rat", Can. J. Physiol. Pharm., Vol. 73, pp. 832-836, 1995. https://doi.org/10.1139/y95-113
  7. Z. Chen, P. A. Deddish, R. D. Minshall, R. P. Becker, E. G. Erdos, and F. Tan, "Human ACE and bradykinin B2 receptors form a complex at the plasma membrane" FASEB J., Vol. 20, pp. 2261-2270, 2006. https://doi.org/10.1096/fj.06-6113com
  8. C. Tschope, H. P. Schultheiss, and T. Walther, "Multiple interactions between the renin-angiotensin and the kallikrein-kinin systems: role of ACE inhibition and AT1 receptor blockade", J. Cardiovasc. Pharm., Vol. 39, pp. 478-487, 2002. https://doi.org/10.1097/00005344-200204000-00003
  9. G. C. Baker, J. J. Smith, and D. A. Cowan, "Review and re-analysis of domain-specific 16S primers", J. Microbiol. Meth., Vol. 55, pp. 541-555, 2003. https://doi.org/10.1016/j.mimet.2003.08.009
  10. S. F. Altschul, W. Gish, W. Miller, E. W. Myers, and D. J. Lipman, "Basic local alignment search tool", J. Mol. Biol., Vol. 215, pp. 403-410, 1990. https://doi.org/10.1016/S0022-2836(05)80360-2
  11. H. M. Berman, J. Westbrook, Z. Feng, G. Gilliland, T. N. Bhat, H. Weissig, I. N. Shindyalov, and P. E. Bourne, "The Protein data bank", Nucleic Acids Res., Vol. 28, pp. 235-242, 2000. https://doi.org/10.1093/nar/28.1.235
  12. S. K. Nagarajan and T. Madhavan, "Protein phosphatase 1D (PPM1D) structure prediction using Homology Modeling", J. Chosun Natural Sci., Vol. 9, pp. 35-40, 2016. https://doi.org/10.13160/ricns.2016.9.1.35
  13. B. Sathya and T. Madhavan, "Homology modeling of cysteinyl leukotriene1 receptor", J. Chosun Natural Sci., Vol. 8, pp. 13-18, 2015. https://doi.org/10.13160/ricns.2015.8.1.13
  14. S. K. Nagarajan and T. Madhavan, "3D Structure prediction of thromboxane A2 receptor by homology modeling", J. Chosun Natural Sci., Vol. 8, pp. 75-79, 2015. https://doi.org/10.13160/ricns.2015.8.1.75
  15. B. K. Kuntal, P. Aparoy, and P. Reddanna, "Easy-Modeller: A graphical interface to MODELLER", BMC Research Notes, Vol. 3, pp. 226, 2010. https://doi.org/10.1186/1756-0500-3-226
  16. N. Eswar, M. A. Marti-Renom, B. Webb, M. S. Madhusudhan, D. Eramian, M. Shen, U. Pieper, and A. Sali, "A Comparative protein structure modelling with Modeller", Current Protocols in Bioinformatics, Vol. 5, pp. 1-5, 2006.
  17. S. C. Lovell, I. W. Davis, W. B. Arendall III, P. I. W. de Bakker, J. M. Word, M. G. Prisant, J. S. Richardson and D. C. Richardson, "Structure validation by $C{\alpha}$ geometry: ${\Phi}$, ${\Psi}$ and $C{\beta}$ deviation," Proteins, Vol. 50, pp. 437-450, 2002.
  18. J. U. Bowie, R. Luthy, and D. Eisenberg, "A method to identify protein sequences that fold into a known three-dimensional structure", Science, Vol. 253, pp. 164-170, 1991. https://doi.org/10.1126/science.1853201
  19. C. Colovos and T. O. Yeates, "Verification of protein structures: patterns of nonbonded atomic interactions", Protein Sci., Vol. 2, pp. 1511-1519, 1993. https://doi.org/10.1002/pro.5560020916
  20. J. D. Thompson, D. G. Higgins, and T. J. Gibson, "CLUSTAL W: improving the sensitivity of progressive sequence weighting, position-specific gap penalties, and weight matrix choice," Nucleic Acids Res., Vol. 22, pp. 4673-4680, 1994. https://doi.org/10.1093/nar/22.22.4673

Cited by

  1. Protein-protein Interaction Analysis of Bradykinin Receptor B2 with Bradykinin and Kallidin vol.10, pp.2, 2017, https://doi.org/10.13160/ricns.2017.10.2.74