Posted Fri, Mar, 21,2014
Published today in Bioinformatics and Biology Insights is a new original research article by Arafat Rahman Oany, Tahmina Pervin Jyoti and Shah Adil Ishtiyaq Ahmad. Read more about this paper below:
Title
An In Silico Approach for Characterization of an Aminoglycoside Antibiotic-Resistant Methyltransferase Protein from Pyrococcus furiosus (DSM 3638)
Abstract
Pyrococcus furiosus is a hyperthermophilic archaea. A hypothetical protein of this archaea, PF0847, was selected for computational analysis. Basic local alignment search tool and multiple sequence alignment (MSA) tool were employed to search for related proteins. Both the secondary and tertiary structure prediction were obtained for further analysis. Three-dimensional model was assessed by PROCHECK and QMEAN6 programs. To get insights about the physical and functional associations of the protein, STRING network analysis was performed. Binding of the SAM (S-adenosyl-l-methionine) ligand with our protein, fetched from an antibiotic-related methyltransferase (PDB code: 3P2K: D), showed high docking energy and suggested the function of the protein as methyltransferase. Finally, we tried to look for a specific function of the proposed methyltransferase, and binding of the geneticin bound to the eubacterial 16S rRNA A-site (PDB code: 1MWL) in the active site of the PF0847 gave us the indication to predict the protein responsible for aminoglycoside antibiotic resistance.
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Interview with Professor Jamie DaviesAs a new contributor, my experience publishing our article in Genetics and Epigenetics was extremely positive. The reviewing process was prompt and fair (four reviewers examined our review article!) and then, the editorial office was very helpful by regularly updating me on the progression of the publication process. I strongly recommend the journal to my colleagues in the field and hope that the journal will grow up and gain the notoriety it deserves in our ...
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