Structural Prediction and Mutational Analysis of Rv3906c Gene of Mycobacterium tuberculosis H37Rv to Determine Its Essentiality in Survival
The emergence of tuberculosis is at the peak; therefore to station it at its lower level we hereby try bioinformatics approach against Mycobacterium tuberculosis [M. tuberculosis] pathogenesis. Rv3906c is a conserved hypothetical gene of M. tuberculosis and contains many GTP binding protein motif DX...
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| Veröffentlicht in: | Advances in bioinformatics 2018, Vol.2018, p.6152014-6152014 |
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| description | The emergence of tuberculosis is at the peak; therefore to station it at its lower level we hereby try bioinformatics approach against Mycobacterium tuberculosis [M. tuberculosis] pathogenesis. Rv3906c is a conserved hypothetical gene of M. tuberculosis and contains many GTP binding protein motif DXXG which demonstrate that this gene might be processed in a GTP binding or in GTP hydrolyzing manner. This gene shows interaction with its adjacent genes as well as pcnA which is a polymerase and localized in the extracellular region and found to be a soluble protein. Rv3906c has binding pockets for calcium atom at various positions which prove that calcium might have some role during the process of this gene. GTP binding protein motif DXXG is present in various positions and calcium binds at this site with a C-score of 0.25. Mutational analysis on this motif shows the large decrease of stability after mutation of aspartate residue with glycine. Stress conditions like pH and temperature also change stability of the protein. A decrease in stability at this position might play a role in inhibition of survival of the pathogen. These computational studies of this gene might be a successful step towards drug development against tuberculosis. |
| doi_str_mv | 10.1155/2018/6152014 |
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Amjad ; Shivangi ; Thakur, Sonu Chand ; Meena, Laxman S.</creator><contributor>Fdez-Riverola, Florentino ; Florentino Fdez-Riverola</contributor><creatorcontrib>Beg, Md. Amjad ; Shivangi ; Thakur, Sonu Chand ; Meena, Laxman S. ; Fdez-Riverola, Florentino ; Florentino Fdez-Riverola</creatorcontrib><description>The emergence of tuberculosis is at the peak; therefore to station it at its lower level we hereby try bioinformatics approach against Mycobacterium tuberculosis [M. tuberculosis] pathogenesis. Rv3906c is a conserved hypothetical gene of M. tuberculosis and contains many GTP binding protein motif DXXG which demonstrate that this gene might be processed in a GTP binding or in GTP hydrolyzing manner. This gene shows interaction with its adjacent genes as well as pcnA which is a polymerase and localized in the extracellular region and found to be a soluble protein. Rv3906c has binding pockets for calcium atom at various positions which prove that calcium might have some role during the process of this gene. GTP binding protein motif DXXG is present in various positions and calcium binds at this site with a C-score of 0.25. Mutational analysis on this motif shows the large decrease of stability after mutation of aspartate residue with glycine. Stress conditions like pH and temperature also change stability of the protein. A decrease in stability at this position might play a role in inhibition of survival of the pathogen. These computational studies of this gene might be a successful step towards drug development against tuberculosis.</description><identifier>ISSN: 1687-8027</identifier><identifier>EISSN: 1687-8035</identifier><identifier>DOI: 10.1155/2018/6152014</identifier><identifier>PMID: 30186322</identifier><language>eng</language><publisher>New York: Hindawi</publisher><subject>Bioinformatics ; Biology ; Calcium ; Computer applications ; Disease ; Drug development ; Drug resistance ; Empowerment ; Genes ; Glycine ; GTP-binding protein ; HIV ; Human immunodeficiency virus ; Ligands ; Mutation ; Mycobacterium tuberculosis ; Pathogenesis ; Pathogens ; Proliferating cell nuclear antigen ; Proteins ; Stability analysis ; Survival ; Tuberculosis</subject><ispartof>Advances in bioinformatics, 2018, Vol.2018, p.6152014-6152014</ispartof><rights>Copyright © 2018 Md. Amjad Beg et al.</rights><rights>Copyright © 2018 Md. Amjad Beg et al. This is an open access article distributed under the Creative Commons Attribution License (the “License”), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License. https://creativecommons.org/licenses/by/4.0</rights><rights>Copyright © 2018 Md. Amjad Beg et al. 2018</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><orcidid>0000-0002-1356-496X</orcidid></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC6114228/pdf/$$EPDF$$P50$$Gpubmedcentral$$Hfree_for_read</linktopdf><linktohtml>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC6114228/$$EHTML$$P50$$Gpubmedcentral$$Hfree_for_read</linktohtml><link.rule.ids>230,314,723,776,780,881,4010,27902,27903,27904,53769,53771</link.rule.ids></links><search><contributor>Fdez-Riverola, Florentino</contributor><contributor>Florentino Fdez-Riverola</contributor><creatorcontrib>Beg, Md. Amjad</creatorcontrib><creatorcontrib>Shivangi</creatorcontrib><creatorcontrib>Thakur, Sonu Chand</creatorcontrib><creatorcontrib>Meena, Laxman S.</creatorcontrib><title>Structural Prediction and Mutational Analysis of Rv3906c Gene of Mycobacterium tuberculosis H37Rv to Determine Its Essentiality in Survival</title><title>Advances in bioinformatics</title><description>The emergence of tuberculosis is at the peak; therefore to station it at its lower level we hereby try bioinformatics approach against Mycobacterium tuberculosis [M. tuberculosis] pathogenesis. Rv3906c is a conserved hypothetical gene of M. tuberculosis and contains many GTP binding protein motif DXXG which demonstrate that this gene might be processed in a GTP binding or in GTP hydrolyzing manner. This gene shows interaction with its adjacent genes as well as pcnA which is a polymerase and localized in the extracellular region and found to be a soluble protein. Rv3906c has binding pockets for calcium atom at various positions which prove that calcium might have some role during the process of this gene. GTP binding protein motif DXXG is present in various positions and calcium binds at this site with a C-score of 0.25. Mutational analysis on this motif shows the large decrease of stability after mutation of aspartate residue with glycine. Stress conditions like pH and temperature also change stability of the protein. A decrease in stability at this position might play a role in inhibition of survival of the pathogen. 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Amjad ; Shivangi ; Thakur, Sonu Chand ; Meena, Laxman S.</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-g2974-55f3d495468cd8776b50ec305e425fd83ed1f7e68cc839b5929835694459154e3</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2018</creationdate><topic>Bioinformatics</topic><topic>Biology</topic><topic>Calcium</topic><topic>Computer applications</topic><topic>Disease</topic><topic>Drug development</topic><topic>Drug resistance</topic><topic>Empowerment</topic><topic>Genes</topic><topic>Glycine</topic><topic>GTP-binding protein</topic><topic>HIV</topic><topic>Human immunodeficiency virus</topic><topic>Ligands</topic><topic>Mutation</topic><topic>Mycobacterium tuberculosis</topic><topic>Pathogenesis</topic><topic>Pathogens</topic><topic>Proliferating cell nuclear antigen</topic><topic>Proteins</topic><topic>Stability analysis</topic><topic>Survival</topic><topic>Tuberculosis</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Beg, Md. 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Amjad</au><au>Shivangi</au><au>Thakur, Sonu Chand</au><au>Meena, Laxman S.</au><au>Fdez-Riverola, Florentino</au><au>Florentino Fdez-Riverola</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Structural Prediction and Mutational Analysis of Rv3906c Gene of Mycobacterium tuberculosis H37Rv to Determine Its Essentiality in Survival</atitle><jtitle>Advances in bioinformatics</jtitle><date>2018</date><risdate>2018</risdate><volume>2018</volume><spage>6152014</spage><epage>6152014</epage><pages>6152014-6152014</pages><issn>1687-8027</issn><eissn>1687-8035</eissn><abstract>The emergence of tuberculosis is at the peak; therefore to station it at its lower level we hereby try bioinformatics approach against Mycobacterium tuberculosis [M. tuberculosis] pathogenesis. Rv3906c is a conserved hypothetical gene of M. tuberculosis and contains many GTP binding protein motif DXXG which demonstrate that this gene might be processed in a GTP binding or in GTP hydrolyzing manner. This gene shows interaction with its adjacent genes as well as pcnA which is a polymerase and localized in the extracellular region and found to be a soluble protein. Rv3906c has binding pockets for calcium atom at various positions which prove that calcium might have some role during the process of this gene. GTP binding protein motif DXXG is present in various positions and calcium binds at this site with a C-score of 0.25. Mutational analysis on this motif shows the large decrease of stability after mutation of aspartate residue with glycine. Stress conditions like pH and temperature also change stability of the protein. A decrease in stability at this position might play a role in inhibition of survival of the pathogen. These computational studies of this gene might be a successful step towards drug development against tuberculosis.</abstract><cop>New York</cop><pub>Hindawi</pub><pmid>30186322</pmid><doi>10.1155/2018/6152014</doi><tpages>1</tpages><orcidid>https://orcid.org/0000-0002-1356-496X</orcidid><oa>free_for_read</oa></addata></record> |
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| subjects | Bioinformatics Biology Calcium Computer applications Disease Drug development Drug resistance Empowerment Genes Glycine GTP-binding protein HIV Human immunodeficiency virus Ligands Mutation Mycobacterium tuberculosis Pathogenesis Pathogens Proliferating cell nuclear antigen Proteins Stability analysis Survival Tuberculosis |
| title | Structural Prediction and Mutational Analysis of Rv3906c Gene of Mycobacterium tuberculosis H37Rv to Determine Its Essentiality in Survival |
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