title: In Silico Analysis of Sequence-Structure-Function Relationship of the Escherichia coli Methionine Synthase.
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.
authors.affiliation: Department of Biotechnology and Bioinformatics, Uttaranchal College of Science and Technology, Dehradun, India.
authors.forename: Shiv
authors.initials: S
authors.lastname: Kumar
authors.affiliation: Department of Biotechnology and Bioinformatics, Uttaranchal College of Science and Technology, Dehradun, India.
authors.forename: Puja
authors.initials: P
authors.lastname: Bhagabati
authors.affiliation: Department of Biotechnology and Bioinformatics, Uttaranchal College of Science and Technology, Dehradun, India.
authors.forename: Reena
authors.initials: R
authors.lastname: Sachan
authors.affiliation: Schools of Biotechnology, Gautam Buddha University, Greater Noida, India.
authors.forename: Aman Chandra
authors.initials: AC
authors.lastname: Kaushik
authors.affiliation: Department of Biotechnology and Bioinformatics, Uttaranchal College of Science and Technology, Dehradun, India. vivek_bioinformatics@yahoo.com.
authors.forename: Vivek Dhar
authors.initials: VD
authors.lastname: Dwivedi
mesh_terms: D013766:5-Methyltetrahydrofolate-Homocysteine S-Methyltransferase / Q000737:chemistry* / Q000378:metabolism*; D004926:Escherichia coli / Q000201:enzymology*; D029968:Escherichia coli Proteins / Q000737:chemistry* / Q000378:metabolism*; D013329:Structure-Activity Relationship
chemical_list: D029968:Escherichia coli Proteins; D013766:5-Methyltetrahydrofolate-Homocysteine S-Methyltransferase
keywords: BLAST; Domain; Homologs; MSA; Methionine synthase; Phylogenetic tree; Protein; Ramachandran plot