SALIGN : a web server for alignment of multiple protein sequences and structures
Summary: Accurate alignment of protein sequences and/or structures is crucial for many biological analyses, including functional annotation of proteins, classifying protein sequences into families, and comparative protein structure modeling. Described here is a web interface to SALIGN, the versatile...
| Váldodahkkit: | , , , , , |
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| Eará dahkkit: | |
| Materiálatiipa: | Journal Article |
| Giella: | English |
| Almmustuhtton: |
2013
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| Fáttát: | |
| Liŋkkat: | https://hdl.handle.net/10356/96020 http://hdl.handle.net/10220/10779 |
| _version_ | 1826114581520449536 |
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| author | Webb, Benjamin M. Braberg, Hannes Tjioe, Elina Pieper, Ursula Sali, Andrej Madhusudhan, Mallur Srivatsan |
| author2 | School of Biological Sciences |
| author_facet | School of Biological Sciences Webb, Benjamin M. Braberg, Hannes Tjioe, Elina Pieper, Ursula Sali, Andrej Madhusudhan, Mallur Srivatsan |
| author_sort | Webb, Benjamin M. |
| collection | NTU |
| description | Summary: Accurate alignment of protein sequences and/or structures is crucial for many biological analyses, including functional annotation of proteins, classifying protein sequences into families, and comparative protein structure modeling. Described here is a web interface to SALIGN, the versatile protein multiple sequence/structure alignment module of MODELLER. The web server automatically determines the best alignment procedure based on the inputs, while allowing the user to override default parameter values. Multiple alignments are guided by a dendrogram computed from a matrix of all pairwise alignment scores. When aligning sequences to structures, SALIGN uses structural environment information to place gaps optimally. If two multiple sequence alignments of related proteins are input to the server, a profile–profile alignment is performed. All features of the server have been previously optimized for accuracy, especially in the contexts of comparative modeling and identification of interacting protein partners. |
| first_indexed | 2024-10-01T03:41:27Z |
| format | Journal Article |
| id | ntu-10356/96020 |
| institution | Nanyang Technological University |
| language | English |
| last_indexed | 2024-10-01T03:41:27Z |
| publishDate | 2013 |
| record_format | dspace |
| spelling | ntu-10356/960202022-02-16T16:28:59Z SALIGN : a web server for alignment of multiple protein sequences and structures Webb, Benjamin M. Braberg, Hannes Tjioe, Elina Pieper, Ursula Sali, Andrej Madhusudhan, Mallur Srivatsan School of Biological Sciences DRNTU::Science::Biological sciences Summary: Accurate alignment of protein sequences and/or structures is crucial for many biological analyses, including functional annotation of proteins, classifying protein sequences into families, and comparative protein structure modeling. Described here is a web interface to SALIGN, the versatile protein multiple sequence/structure alignment module of MODELLER. The web server automatically determines the best alignment procedure based on the inputs, while allowing the user to override default parameter values. Multiple alignments are guided by a dendrogram computed from a matrix of all pairwise alignment scores. When aligning sequences to structures, SALIGN uses structural environment information to place gaps optimally. If two multiple sequence alignments of related proteins are input to the server, a profile–profile alignment is performed. All features of the server have been previously optimized for accuracy, especially in the contexts of comparative modeling and identification of interacting protein partners. 2013-06-27T03:29:41Z 2019-12-06T19:24:35Z 2013-06-27T03:29:41Z 2019-12-06T19:24:35Z 2012 2012 Journal Article Braberg, H., Webb, B. M., Tjioe, E., Pieper, U., Sali, A., & Madhusudhan, M. S. (2012). SALIGN: a web server for alignment of multiple protein sequences and structures. Bioinformatics, 28(15), 2072-2073. 1367-4803 https://hdl.handle.net/10356/96020 http://hdl.handle.net/10220/10779 10.1093/bioinformatics/bts302 22618536 en Bioinformatics © 2012 The Author. |
| spellingShingle | DRNTU::Science::Biological sciences Webb, Benjamin M. Braberg, Hannes Tjioe, Elina Pieper, Ursula Sali, Andrej Madhusudhan, Mallur Srivatsan SALIGN : a web server for alignment of multiple protein sequences and structures |
| title | SALIGN : a web server for alignment of multiple protein sequences and structures |
| title_full | SALIGN : a web server for alignment of multiple protein sequences and structures |
| title_fullStr | SALIGN : a web server for alignment of multiple protein sequences and structures |
| title_full_unstemmed | SALIGN : a web server for alignment of multiple protein sequences and structures |
| title_short | SALIGN : a web server for alignment of multiple protein sequences and structures |
| title_sort | salign a web server for alignment of multiple protein sequences and structures |
| topic | DRNTU::Science::Biological sciences |
| url | https://hdl.handle.net/10356/96020 http://hdl.handle.net/10220/10779 |
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