Investigation of Optimum Conformations and Structure Analysis of RL and LR Nests using Ramachandran Plot

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Author(s): Sumukh Deshpande (University of Hail, Saudi Arabia), Saikat Kumar Basu (University of Lethbridge, Canada)and Pooja Purohit (Almas International, Saudi Arabia)
Copyright: 2015
Pages: 16
Source title: Robotics, Automation, and Control in Industrial and Service Settings
Source Author(s)/Editor(s): Zongwei Luo (South University of Science and Technology of China, China)
DOI: 10.4018/978-1-4666-8693-9.ch007

Keywords: Computer Science & IT / Engineering Science Reference / Industrial Engineering / Robotics

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Abstract

We have surveyed polypeptides with the optimal conformations of nests which are the common anion-binding motifs comprising 8% of the amino acids which are characterized by a structural depression or a hole. Using automated bioinformatics algorithm, novel ring structure of the nest has been found. Using automated algorithm, models of polypeptides were made in-silico (computationally) and oxygen atoms are inserted along the extension of the NH groups. These sophisticated algorithms allow insertion of atoms along the NH group at the correct distance which causes extension of the group thus forming hydrogen bond. Optimal conformations of these structures are found from these customized models. This study chapter provides a demonstration of an important discovery of optimum conformations of RL and LR nests by the use of sophisticated bioinformatics automation pipeline and a unique application of automation and control in bioinformatics.

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Investigation of Optimum Conformations and Structure Analysis of RL and LR Nests using Ramachandran Plot

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