Homology modeling and assigned functional annotation of an uncharacterized antitoxin protein from Streptomyces xinghaiensis

BACK TO CONTENTS | PDF | PREVIOUS | NEXT

Title	Homology modeling and assigned functional annotation of an uncharacterized antitoxin protein from Streptomyces xinghaiensis
Authors	Arafat Rahman Oany¹*, Md Shahabuddin Ahmed¹, Nasreen Jahan¹, Md Abdul Latif ¹, Shahin Mahmud¹, Md. Ahmed Hossain¹, Fatema Akter ², Hasibul Haque Rakib¹, Md. Shariful Islam¹
Affiliation	¹Department of Biotechnology and Genetic Engineering, Faculty of Life Science, Mawlana Bhashani Science and Technology University, Santosh, Tangail-1902, Bangladesh; ²Department of Biochemistry and Molecular Biology, University of Dhaka, Bangladesh.
Email	arafatr@outlook.com ; *Corresponding author
Article Type	Hypothesis
Date	Received November 01, 2015; Accepted November 04, 2015; Published November 30, 2015
Abstract	Streptomyces xinghaiensis is a Gram-positive, aerobic and non-motile bacterium. The bacterial genome is known. Therefore, it is of interest to study the uncharacterized proteins in the genome. An uncharacterized protein (gi\|518540893\|86 residues) in the genome was selected for a comprehensive computational sequence-structure-function analysis using available data and tools. Sub-cellular localization of the targeted protein with conserved residues and assigned secondary structures is documented. Sequence homology search against the protein data bank (PDB) and non-redundant GenBank proteins using BLASTp showed different homologous proteins with known antitoxin function. A homology model of the target protein was developed using a known template (PDB ID: 3CTO:A) with 62% sequence similarity in HHpred after assessment using programs PROCHECK and QMEAN6. The predicted active site using CASTp is analyzed for assigned anti-toxin function. This information finds specific utility in annotating the said uncharacterized protein in the bacterial genome.
Keywords	antitoxin, homology modeling, active-site residues, prediction, hypothetical protein, Streptomyces xinghaiensis
Citation	Oany *et al.* Bioinformation 11(11):493-500 (2015)
Edited by	P Kangueane
ISSN	0973-2063
Publisher	Biomedical Informatics
License	This is an Open Access article which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly credited. This is distributed under the terms of the Creative Commons Attribution License.