European Journal of Biotechnology and Bioscience

European Journal of Biotechnology and Bioscience


European Journal of Biotechnology and Bioscience
European Journal of Biotechnology and Bioscience
Vol. 4, Issue 3 (2016)

In-silico analysis and homology modeling of snake venom metalloproteinase


Swati S. Badagu, Yogesh N.Joshi, Vinod P.S.

Snake venoms are an extremely rich source of pharmacologically active proteins with a considerable clinical and medical potential. Snake venoms are relevant sources of toxins that have evolved towards the engineering of highly active compounds. Venom transcriptomes containing multiple toxin types including three finger toxins, cobra venom factor, cysteine-rich secretory protein, hyaluronidase, kallikrein, kunitz, lectin, matrix metalloprotease, phospholipase A2, snake venom metalloproteinase, disintegrin and waprin. Snake venom metalloproteinase (SVMPs) are a set of interesting enzymes that are one of the major components of venom affecting hemostasis. A great challenge since their discovery has been to find molecular features responsible for their hemorrhagic potency and many attempts have been made without any consistent result. In the present study we describe a series of sequence and structural analysis between the snake species Ophiophagus hannah, Bungarus fasciatus, Daboia russelii and Echis carinatus applying by various in silico tools. These involved prediction of physical and chemical properties, motif and domain scanning and structural analysis. The physicochemical analysis was carried out by using ProtParam tool, which depicted SVMPs of Ophiophagus hannah and Bungarus fasciatus were unstable and Daboia russelii and Echis carinatus were stable. The domain analysis was performed by using Pfam domain database, the common domain found was reprolysin. The secondary structures were predicted by using SOPMA tool, the percentage of alpha helix and extended strand was more in Daboia russelii as compared to other two species. The 3D structures were predicted using SWISS-MODEL server and models validated using PROCHECK analysis tool.

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How to cite this article:
Swati S. Badagu, Yogesh N.Joshi, Vinod P.S.. In-silico analysis and homology modeling of snake venom metalloproteinase. European Journal of Biotechnology and Bioscience, Volume 4, Issue 3, 2016, Pages 12-15
European Journal of Biotechnology and Bioscience