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DescribePROT: database of amino acid-level protein structure and function predictions
We present DescribePROT, the database of predicted amino acid-level descriptors of structure and function of proteins. DescribePROT delivers a comprehensive collection of 13 complementary descriptors predicted using 10 popular and accurate algorithms for 83 complete proteomes that cover key model or...
Autores principales: | , , , , , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Oxford University Press
2020
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7778963/ https://www.ncbi.nlm.nih.gov/pubmed/33119734 http://dx.doi.org/10.1093/nar/gkaa931 |
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author | Zhao, Bi Katuwawala, Akila Oldfield, Christopher J Dunker, A Keith Faraggi, Eshel Gsponer, Jörg Kloczkowski, Andrzej Malhis, Nawar Mirdita, Milot Obradovic, Zoran Söding, Johannes Steinegger, Martin Zhou, Yaoqi Kurgan, Lukasz |
author_facet | Zhao, Bi Katuwawala, Akila Oldfield, Christopher J Dunker, A Keith Faraggi, Eshel Gsponer, Jörg Kloczkowski, Andrzej Malhis, Nawar Mirdita, Milot Obradovic, Zoran Söding, Johannes Steinegger, Martin Zhou, Yaoqi Kurgan, Lukasz |
author_sort | Zhao, Bi |
collection | PubMed |
description | We present DescribePROT, the database of predicted amino acid-level descriptors of structure and function of proteins. DescribePROT delivers a comprehensive collection of 13 complementary descriptors predicted using 10 popular and accurate algorithms for 83 complete proteomes that cover key model organisms. The current version includes 7.8 billion predictions for close to 600 million amino acids in 1.4 million proteins. The descriptors encompass sequence conservation, position specific scoring matrix, secondary structure, solvent accessibility, intrinsic disorder, disordered linkers, signal peptides, MoRFs and interactions with proteins, DNA and RNAs. Users can search DescribePROT by the amino acid sequence and the UniProt accession number and entry name. The pre-computed results are made available instantaneously. The predictions can be accesses via an interactive graphical interface that allows simultaneous analysis of multiple descriptors and can be also downloaded in structured formats at the protein, proteome and whole database scale. The putative annotations included by DescriPROT are useful for a broad range of studies, including: investigations of protein function, applied projects focusing on therapeutics and diseases, and in the development of predictors for other protein sequence descriptors. Future releases will expand the coverage of DescribePROT. DescribePROT can be accessed at http://biomine.cs.vcu.edu/servers/DESCRIBEPROT/. |
format | Online Article Text |
id | pubmed-7778963 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2020 |
publisher | Oxford University Press |
record_format | MEDLINE/PubMed |
spelling | pubmed-77789632021-01-06 DescribePROT: database of amino acid-level protein structure and function predictions Zhao, Bi Katuwawala, Akila Oldfield, Christopher J Dunker, A Keith Faraggi, Eshel Gsponer, Jörg Kloczkowski, Andrzej Malhis, Nawar Mirdita, Milot Obradovic, Zoran Söding, Johannes Steinegger, Martin Zhou, Yaoqi Kurgan, Lukasz Nucleic Acids Res Database Issue We present DescribePROT, the database of predicted amino acid-level descriptors of structure and function of proteins. DescribePROT delivers a comprehensive collection of 13 complementary descriptors predicted using 10 popular and accurate algorithms for 83 complete proteomes that cover key model organisms. The current version includes 7.8 billion predictions for close to 600 million amino acids in 1.4 million proteins. The descriptors encompass sequence conservation, position specific scoring matrix, secondary structure, solvent accessibility, intrinsic disorder, disordered linkers, signal peptides, MoRFs and interactions with proteins, DNA and RNAs. Users can search DescribePROT by the amino acid sequence and the UniProt accession number and entry name. The pre-computed results are made available instantaneously. The predictions can be accesses via an interactive graphical interface that allows simultaneous analysis of multiple descriptors and can be also downloaded in structured formats at the protein, proteome and whole database scale. The putative annotations included by DescriPROT are useful for a broad range of studies, including: investigations of protein function, applied projects focusing on therapeutics and diseases, and in the development of predictors for other protein sequence descriptors. Future releases will expand the coverage of DescribePROT. DescribePROT can be accessed at http://biomine.cs.vcu.edu/servers/DESCRIBEPROT/. Oxford University Press 2020-10-29 /pmc/articles/PMC7778963/ /pubmed/33119734 http://dx.doi.org/10.1093/nar/gkaa931 Text en © The Author(s) 2020. Published by Oxford University Press on behalf of Nucleic Acids Research. http://creativecommons.org/licenses/by-nc/4.0/ This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/4.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com |
spellingShingle | Database Issue Zhao, Bi Katuwawala, Akila Oldfield, Christopher J Dunker, A Keith Faraggi, Eshel Gsponer, Jörg Kloczkowski, Andrzej Malhis, Nawar Mirdita, Milot Obradovic, Zoran Söding, Johannes Steinegger, Martin Zhou, Yaoqi Kurgan, Lukasz DescribePROT: database of amino acid-level protein structure and function predictions |
title | DescribePROT: database of amino acid-level protein structure and function predictions |
title_full | DescribePROT: database of amino acid-level protein structure and function predictions |
title_fullStr | DescribePROT: database of amino acid-level protein structure and function predictions |
title_full_unstemmed | DescribePROT: database of amino acid-level protein structure and function predictions |
title_short | DescribePROT: database of amino acid-level protein structure and function predictions |
title_sort | describeprot: database of amino acid-level protein structure and function predictions |
topic | Database Issue |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7778963/ https://www.ncbi.nlm.nih.gov/pubmed/33119734 http://dx.doi.org/10.1093/nar/gkaa931 |
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