MAIN


1996-2012 All Rights Reserved. Online Journal of Bioinformatics . You may not store these pages in any form except for your own personal use. All other usage or distribute on is illegal under international copyright treaties. Permission to use any of these pages in any other way besides the before mentioned must be gained in writing from the publisher. This article is exclusively copyrighted in its entirety to OJB publications. This article may be copied once but may not be, reproduced or re-transmitted without the express permission of the editors. This journal satisfies the refereeing requirements (DEST) for the Higher Education Research Data Collection (Australia). Linking:To link to this page or any pages linking to this page you must link directly to this page only here rather than put up your own page.


OJBTM

Online Journal of Bioinformatics

Volume 13(1):120-129, 2012.


In silico analysis and homology model of legume antioxidant proteins.

 

Sarika J1, Iquebal MA2 and Rai A1

 

1Centre for Agricultural Bioinformatics, 2Division of Biometrics and Statistical Modelling, Indian Agricultural Statistics Research Institute, PUSA, New Delhi, INDIA

 

ABSTRACT

 

Sarika J, Iquebal MA, Rai A., In silico analysis and homology model of legume antioxidant proteins, Online J Bioinform, 13(1):120-129, 2012. The availability of plant genome data has stimulated in silico homology modelling of plant proteins which are structurally unknown. The conserved domain database search analysis to determine domain and motif showed that the antioxidants were found to belong to Cu-Zu Superoxide-Dismutase super family. In this study physico-chemical and functional characterization of antioxidant proteins in chickpea, rajmash, pea and vigna were determined. Self-optimized prediction with alignment was used to calculate the secondary structural features of protein sequences. The 3-D structure was determined by GENO3D and SWISS-MODEL. SWISS-MODEL proved to be more precise using SAVS. Stereochemical properties and quality of the modelled structures were then assessed by Ramchandran plot analysis validated with PROCHECK. The modelled structures could be used as a foundation for functional analysis of experimentally derived crystal structures.

 

Keywords: Antioxidants, Chickpea, Homology modelling, Ramachandran plot, Swiss-Model


MAIN

 

FULL-TEXT(SUBSCRIPTION)