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Structure and function predictions of hypothetical proteins in Vibrio Phages
Swapnil G. Sanmukh, Waman Narayan Paunikar, Tarun Kanti Ghosh, Tapan Chakrabarti
Pages - 161 - 175     |    Revised - 30-11-2010     |    Published - 20-12-2010
Volume - 4   Issue - 5    |    Publication Date - December 2010  Table of Contents
Bioinformatics web tools, conserved domains, Protein structure prediction, uncharacterized proteins, pathogenicity
The Vibriophages are the potential agents for the transfer of the virulence factor to their host through lateral gene transfer. The complete genome sequencing of various known vibriophages has been done which deciphered the presence of various gene sequences for hypothetical proteins whose function is not yet understood. We analyzed complete genome of 21such Vibriophages for hypothetical proteins from which 13 phages were sorted for our studies. Our attempt is to predict the structure and function of these hypothetical proteins by the application of computational methods and Bioinformatics. The probable function prediction of the hypothetical protein was done by using Bioinformatics web tools like CDD-BLAST, INTERPROSCAN, PFAM and COGs by searching sequence databases for the presence of orthologous enzymatic conserved domains in the hypothetical sequences. While tertiary structures were constructed using PS2 Server (Protein Structure Prediction server). These study revealed presences of enzymatic functional domain in 92 uncharacterized proteins, their roles are yet to be discovered in Vibriophages. These deciphered enzymatic data for hypothetical proteins can be used for the understanding of functional, structural, evolutionary and metabolic development of Vibriophages and its life cycle along with their role in host evolution and pathogenicity.
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1 Thakare, H. S., Meshram, D. B., Jangam, C. M., Labhasetwar, P., Roychoudhary, K., & Ingle, A. B. (2016). Comparative genomics for understanding the structure, function and sub-cellular localization of hypothetical proteins in Thermanerovibrio acidaminovorans DSM 6589 (tai). Computational biology and chemistry, 61, 226-228.
2 Sanmukh, S. G., Khairnar, K., Khairnar, S., & Paunikar, W. N. Novel Applications of Bacterial and Algal Viruses in Advancement of Molecular Biology and for Enhancement of Bio-fuel Production.
3 Siddiqui, A., Ahmad, M., Pandya, A., Sanmukh, S., & Khairnar, K. (2014). Genome Annotation and Structure Predictions for Hypothetical Proteins in Agrobacterium Fabrum Str. C58 Plasmid At. International Journal of Computer Applications, 85(1).
4 Sanmukh, S. G., & Paunikar, W. N. (2012). Unique features of Plasmids among different Citrobacter species.
5 Sanmukh, S. G., & Paunikar, W. N. (2012). Understanding Mycobacteriophages through their unrevealed proteins. Fuzzy Systems, 4(6), 195-231.
6 Sanmukh, S. G., & Paunikar, W. N. (2012). Yersinia Phages and their Novel Proteins. Data Mining and Knowledge Engineering, 4(5), 205-209.
7 Sanmukh, S., & Paunikar, W. (2012). Study of Prophages from Lactobacillus Species. Automation and Autonomous System, 4(5), 166-179.
8 Sanmukh, S. G., Rahman, M., & Paunikar, W. N. (2012). Comparative Genomic Studies of hypothetical proteins in Cyanophages. evolution, 20, 33.
9 Sanmukh, S. G., Paunikar, W. N., Meshram, D. B., & Ghosh, T. K. (2011). Insilico function prediction for hypothetical proteins in Vibrio parahaemolyticus Chromosome II. Data Mining and Knowledge Engineering, 3(7), 404-432.
10 Sanmukh, S. G., Meshram, D. B., Paunikar, W. N., & Ghosh, T. K. (2011). Computational characterizations for structure and function of unclassified proteins in Ictalurus punctatus. Artificial Intelligent Systems and Machine Learning, 3(5), 260-280.
11 Paunikar, W. N., Sanmukh, S. G., & Ghosh, T. K. (2011). Exploring the hypothetical proteins in Rizhophages and their role in influencing Rhizobium species in soil. Artificial Intelligent Systems and Machine Learning, 3(4), 186-194.
12 Sanmukh, S. G., Paunikar, W. N., & Ghosh, T. K. (2011). Study of Hypothetical Proteins in Salmonella Phages and Predicting their Structural and Functional Relationship. Biometrics and Bioinformatics, 3(2), 70-73.
13 Sanmukh, S. G., Paunikar, W. N., Meshram, D. B., & Ghosh, T. K. (2011). Functionality Search in Hypothetical Proteins of Halobacterium Salinarum. Fuzzy Systems, 3(5), 164-187.
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Dr. Swapnil G. Sanmukh
Mr. Waman Narayan Paunikar
National Environmental Engineering Research Institute, NEERI, Nagpur, India - India
Mr. Tarun Kanti Ghosh
National Environmental Engineering Research Institute, NEERI, Nagpur, India - India
Dr. Tapan Chakrabarti