Local protein structures to bridge sequence-structure knowledge
Protein sequences can be classified based on their structure similarity and/or common evolutionary origin called structural class. Information on structural class is readily available, easing the protein structure and protein function probing. SCOP and CATH are two prominent classification schemes u...
| Main Authors: | , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
World Academy of Research in Science and Engineering
2019
|
| Subjects: | |
| Online Access: | http://eprints.utm.my/90598/1/RohayantiHassan2019_LocalProteinStructures.pdf |
| _version_ | 1796865062616432640 |
|---|---|
| author | Hassan, R. Ahmad, A. S. Imrona, M. Kasim, S. |
| author_facet | Hassan, R. Ahmad, A. S. Imrona, M. Kasim, S. |
| author_sort | Hassan, R. |
| collection | ePrints |
| description | Protein sequences can be classified based on their structure similarity and/or common evolutionary origin called structural class. Information on structural class is readily available, easing the protein structure and protein function probing. SCOP and CATH are two prominent classification schemes used to assign the structural class of proteins. Both schemes determine the structural class manually base on known protein tertiary structures. However, the quantity of known protein sequences is growing exponentially with respect to the quantity of known tertiary proteins structures. Although SCOP and CATH are examples of well-established databases that contain more reliable information of structural class, yet the lack of known structural class of protein due to the laborious wet-lab experimental routine limits the high-throughput structural class assignment. The fact that this is a tedious and time-consuming manually-determined method has further limited the structural class assignment. As a consequence, the assignment of structural class by computational method suffers from the arbitrated statistical infer-ence. Thus, this study aims to provide a structural class prediction method that can acquire the knowledge of local protein structures, derived from known excessive primary sequences, in order to produce high-throughput sequence-structure class assignment instead of the laborious experimental based method. This structural class prediction method is termed as SVM-LpsSCPred. |
| first_indexed | 2024-03-05T20:51:15Z |
| format | Article |
| id | utm.eprints-90598 |
| institution | Universiti Teknologi Malaysia - ePrints |
| language | English |
| last_indexed | 2024-03-05T20:51:15Z |
| publishDate | 2019 |
| publisher | World Academy of Research in Science and Engineering |
| record_format | dspace |
| spelling | utm.eprints-905982021-04-29T23:28:08Z http://eprints.utm.my/90598/ Local protein structures to bridge sequence-structure knowledge Hassan, R. Ahmad, A. S. Imrona, M. Kasim, S. QA75 Electronic computers. Computer science Protein sequences can be classified based on their structure similarity and/or common evolutionary origin called structural class. Information on structural class is readily available, easing the protein structure and protein function probing. SCOP and CATH are two prominent classification schemes used to assign the structural class of proteins. Both schemes determine the structural class manually base on known protein tertiary structures. However, the quantity of known protein sequences is growing exponentially with respect to the quantity of known tertiary proteins structures. Although SCOP and CATH are examples of well-established databases that contain more reliable information of structural class, yet the lack of known structural class of protein due to the laborious wet-lab experimental routine limits the high-throughput structural class assignment. The fact that this is a tedious and time-consuming manually-determined method has further limited the structural class assignment. As a consequence, the assignment of structural class by computational method suffers from the arbitrated statistical infer-ence. Thus, this study aims to provide a structural class prediction method that can acquire the knowledge of local protein structures, derived from known excessive primary sequences, in order to produce high-throughput sequence-structure class assignment instead of the laborious experimental based method. This structural class prediction method is termed as SVM-LpsSCPred. World Academy of Research in Science and Engineering 2019 Article PeerReviewed application/pdf en http://eprints.utm.my/90598/1/RohayantiHassan2019_LocalProteinStructures.pdf Hassan, R. and Ahmad, A. S. and Imrona, M. and Kasim, S. (2019) Local protein structures to bridge sequence-structure knowledge. International Journal of Advanced Trends in Computer Science and Engineering, 8 (1.3). pp. 196-201. ISSN 2278-3091 http://dx.doi.org/10.30534/ijatcse/2019/3981.32019 DOI: 10.30534/ijatcse/2019/3981.32019 |
| spellingShingle | QA75 Electronic computers. Computer science Hassan, R. Ahmad, A. S. Imrona, M. Kasim, S. Local protein structures to bridge sequence-structure knowledge |
| title | Local protein structures to bridge sequence-structure knowledge |
| title_full | Local protein structures to bridge sequence-structure knowledge |
| title_fullStr | Local protein structures to bridge sequence-structure knowledge |
| title_full_unstemmed | Local protein structures to bridge sequence-structure knowledge |
| title_short | Local protein structures to bridge sequence-structure knowledge |
| title_sort | local protein structures to bridge sequence structure knowledge |
| topic | QA75 Electronic computers. Computer science |
| url | http://eprints.utm.my/90598/1/RohayantiHassan2019_LocalProteinStructures.pdf |
| work_keys_str_mv | AT hassanr localproteinstructurestobridgesequencestructureknowledge AT ahmadas localproteinstructurestobridgesequencestructureknowledge AT imronam localproteinstructurestobridgesequencestructureknowledge AT kasims localproteinstructurestobridgesequencestructureknowledge |