Sequence Analysis of Hypothetical Proteins from 26695 to Identify Potential Virulence Factors
Helicobacter pylori is a Gram-negative bacteria that is responsible for gastritis in human. Its spiral flagellated body helps in locomotion and colonization in the host environment. It is capable of living in the highly acidic environment of the stomach with the help of acid adaptive genes. The geno...
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BioMed Central
2016-09-01
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| Series: | Genomics & Informatics |
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| Online Access: | http://genominfo.org/upload/pdf/gni-14-125.pdf |
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| author | Ahmad Abu Turab Naqvi Farah Anjum Faez Iqbal Khan Asimul Islam Faizan Ahmad Md. Imtaiyaz Hassan |
| author_facet | Ahmad Abu Turab Naqvi Farah Anjum Faez Iqbal Khan Asimul Islam Faizan Ahmad Md. Imtaiyaz Hassan |
| author_sort | Ahmad Abu Turab Naqvi |
| collection | DOAJ |
| description | Helicobacter pylori is a Gram-negative bacteria that is responsible for gastritis in human. Its spiral flagellated body helps in locomotion and colonization in the host environment. It is capable of living in the highly acidic environment of the stomach with the help of acid adaptive genes. The genome of H. pylori 26695 strain contains 1,555 coding genes that encode 1,445 proteins. Out of these, 340 proteins are characterized as hypothetical proteins (HP). This study involves extensive analysis of the HPs using an established pipeline which comprises various bioinformatics tools and databases to find out probable functions of the HPs and identification of virulence factors. After extensive analysis of all the 340 HPs, we found that 104 HPs are showing characteristic similarities with the proteins with known functions. Thus, on the basis of such similarities, we assigned probable functions to 104 HPs with high confidence and precision. All the predicted HPs contain representative members of diverse functional classes of proteins such as enzymes, transporters, binding proteins, regulatory proteins, proteins involved in cellular processes and other proteins with miscellaneous functions. Therefore, we classified 104 HPs into aforementioned functional groups. During the virulence factors analysis of the HPs, we found 11 HPs are showing significant virulence. The identification of virulence proteins with the help their predicted functions may pave the way for drug target estimation and development of effective drug to counter the activity of that protein. |
| format | Article |
| id | doaj-art-061d07ce9deb45989309c0d80e160b33 |
| institution | Kabale University |
| issn | 1598-866X 2234-0742 |
| language | English |
| publishDate | 2016-09-01 |
| publisher | BioMed Central |
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| series | Genomics & Informatics |
| spelling | doaj-art-061d07ce9deb45989309c0d80e160b332025-02-02T04:50:37ZengBioMed CentralGenomics & Informatics1598-866X2234-07422016-09-0114312513510.5808/GI.2016.14.3.125165Sequence Analysis of Hypothetical Proteins from 26695 to Identify Potential Virulence FactorsAhmad Abu Turab Naqvi0Farah Anjum1Faez Iqbal Khan2Asimul Islam3Faizan Ahmad4Md. Imtaiyaz Hassan5Center for Interdisciplinary Research in Basic Sciences, Jamia Millia Islamia, Jamia Nagar, New Delhi 110025, India.Female College of Applied Medical Science, Taif University, Al-Taif 21974, Kingdom of Saudi Arabia.School of Chemistry and Chemical Engineering, Henan University of Technology, Henan 450001, China.Center for Interdisciplinary Research in Basic Sciences, Jamia Millia Islamia, Jamia Nagar, New Delhi 110025, India.Center for Interdisciplinary Research in Basic Sciences, Jamia Millia Islamia, Jamia Nagar, New Delhi 110025, India.Center for Interdisciplinary Research in Basic Sciences, Jamia Millia Islamia, Jamia Nagar, New Delhi 110025, India.Helicobacter pylori is a Gram-negative bacteria that is responsible for gastritis in human. Its spiral flagellated body helps in locomotion and colonization in the host environment. It is capable of living in the highly acidic environment of the stomach with the help of acid adaptive genes. The genome of H. pylori 26695 strain contains 1,555 coding genes that encode 1,445 proteins. Out of these, 340 proteins are characterized as hypothetical proteins (HP). This study involves extensive analysis of the HPs using an established pipeline which comprises various bioinformatics tools and databases to find out probable functions of the HPs and identification of virulence factors. After extensive analysis of all the 340 HPs, we found that 104 HPs are showing characteristic similarities with the proteins with known functions. Thus, on the basis of such similarities, we assigned probable functions to 104 HPs with high confidence and precision. All the predicted HPs contain representative members of diverse functional classes of proteins such as enzymes, transporters, binding proteins, regulatory proteins, proteins involved in cellular processes and other proteins with miscellaneous functions. Therefore, we classified 104 HPs into aforementioned functional groups. During the virulence factors analysis of the HPs, we found 11 HPs are showing significant virulence. The identification of virulence proteins with the help their predicted functions may pave the way for drug target estimation and development of effective drug to counter the activity of that protein.http://genominfo.org/upload/pdf/gni-14-125.pdfdrug discoverydrug targethypothetical proteinspathogenesisvirulence |
| spellingShingle | Ahmad Abu Turab Naqvi Farah Anjum Faez Iqbal Khan Asimul Islam Faizan Ahmad Md. Imtaiyaz Hassan Sequence Analysis of Hypothetical Proteins from 26695 to Identify Potential Virulence Factors Genomics & Informatics drug discovery drug target hypothetical proteins pathogenesis virulence |
| title | Sequence Analysis of Hypothetical Proteins from 26695 to Identify Potential Virulence Factors |
| title_full | Sequence Analysis of Hypothetical Proteins from 26695 to Identify Potential Virulence Factors |
| title_fullStr | Sequence Analysis of Hypothetical Proteins from 26695 to Identify Potential Virulence Factors |
| title_full_unstemmed | Sequence Analysis of Hypothetical Proteins from 26695 to Identify Potential Virulence Factors |
| title_short | Sequence Analysis of Hypothetical Proteins from 26695 to Identify Potential Virulence Factors |
| title_sort | sequence analysis of hypothetical proteins from 26695 to identify potential virulence factors |
| topic | drug discovery drug target hypothetical proteins pathogenesis virulence |
| url | http://genominfo.org/upload/pdf/gni-14-125.pdf |
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