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Research Article

Human Rab8b Protein as a Cancer Target - An In Silico Study

Aboubakr HA1, Lavanya SP1, Thirupathi M1, Rohini R1, Sarita RP2, Uma V1*

1Department of Chemistry, University College of Science, Osmania University, Hyderabad, Telangana, India

2Department of Chemistry, Nizam College, Osmania University, Hyderabad, Telangana, Indiaa

*Corresponding Author:
Uma Vuruputuri
Department of Chemistry
University College of Science
Osmania University
Hyderabad-500 007
Telangana, India
Tel: +919866104824
E-mail: [email protected] (or) [email protected]

Received date: June 23, 2016; Accepted date: July 05, 2016; Published date: July 11, 2016

Citation: Aboubakr HA, Lavanya SP, Thirupathi M, Rohini R, Sarita RP, et al. (2016) Human Rab8b Protein as a Cancer Target - An In Silico Study. J Comput Sci Syst Biol 9: 132-149. doi:10.4172/jcsb.1000231

Copyright: © 2016 Abdelmonsef AH, et al. This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.

Abstract

Testicular cancer develops in one or both of the testicles in young men. Rab8b is a member of the Rab small G protein family, participates in intracellular trafficking events at the site of the adherence junction dynamics in the testis. Overexpression of Rab8b and loss of functioning adherence junction accelerates the tumorigenesis in testis. In the present work, the computer aided high throughput virtual screening studies are applied to identify potent leads for human Rab8b protein. The homology model of Rab8b of 207 amino acid residues chain length was evaluated based on the crystal structure of an appropriate template, and reveals the presence of 6 α-helices and 6 β-strands. The energy of the generated model was minimized and the model was validated using ProSA PROCHECK and ERRAT server tools. The active site was identified using the computational binding site prediction tools like CASTp, efindsite seversand Sitemap of Schrödinger, which show that the residues (GLU33 to GLN60) are important for binding. The molecular interactions of Rab8b with its natural substrate Rabin 8, were examined by in silico protein-protein docking studies using patchDock tool, and the results were corroborated with the active site identified from the computational tools. Virtual screening studies were carried out with ligand databases using Glide docking program of Schrödinger suite. The ligands obtained from XP docking with high Glide score and Glide energy, were subjected to QikProp module to predict their ADME properties. These ligands, based on the pharmacokinetic properties, which are new entities, were considered as novel potent inhibitors in cancer therapy.

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