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In Silico Analysis of Sequence–Structure–Function Relationship of the Escherichia coli Methionine Synthase

  • Shiv Kumar
  • Puja Bhagabati
  • Reena Sachan
  • Aman Chandra Kaushik
  • Vivek Dhar DwivediEmail author
Original Research Article

Abstract

The molecular evolution of various metabolic pathways in the organisms can be employed for scrutinizing the molecular aspects behind origin of life. In the present study, we chiefly concerned about the sequence–structure–function relationship between the Escherichia coli methionine synthase and their respective animal homologs by in silico approach. Using homology prediction technique, it was observed that only 79 animal species showed similarity with the E. coli methionine synthase. Also, multiple sequence alignment depicted only 25 conserved patterns between the E. coli methionine synthase and their respective animal homologs. Based on that, Pfam analysis identified the protein families of 22 conserved patterns among the attained 25 conserved patterns. Furthermore, the 3D structure was generated by HHpred and evaluated by corresponding Ramachandran plot specifying 93 % of the ϕ and ψ residues angles in the most ideal regions. Hence, the designed structure was established as a good quality model for the full length of E. coli methionine synthase.

Keywords

BLAST Domain Homologs Methionine synthase  MSA Phylogenetic tree Protein Ramachandran plot 

Notes

Acknowledgments

The authors are very thankful to Dr. S.S. Sawhney, Director, Uttaranchal College of Science and Technology, for providing the laboratory facilities and support to carry out the present work.

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Copyright information

© International Association of Scientists in the Interdisciplinary Areas and Springer-Verlag Berlin Heidelberg 2015

Authors and Affiliations

  • Shiv Kumar
    • 1
  • Puja Bhagabati
    • 1
  • Reena Sachan
    • 1
  • Aman Chandra Kaushik
    • 2
  • Vivek Dhar Dwivedi
    • 1
    Email author
  1. 1.Department of Biotechnology and BioinformaticsUttaranchal College of Science and TechnologyDehradunIndia
  2. 2.Schools of BiotechnologyGautam Buddha UniversityGreater NoidaIndia

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