SWORD2: hierarchical analysis of protein 3D structures.

Autor:	Cretin G; Université Paris Cité and Université des Antilles and Université de la Réunion, INSERM, BIGR, F-75015 Paris, France.; Laboratoire d'Excellence GR-Ex, 75015 Paris, France., Galochkina T; Université Paris Cité and Université des Antilles and Université de la Réunion, INSERM, BIGR, F-75015 Paris, France.; Laboratoire d'Excellence GR-Ex, 75015 Paris, France., Vander Meersche Y; Université Paris Cité and Université des Antilles and Université de la Réunion, INSERM, BIGR, F-75015 Paris, France.; Laboratoire d'Excellence GR-Ex, 75015 Paris, France., de Brevern AG; Université Paris Cité and Université des Antilles and Université de la Réunion, INSERM, BIGR, F-75015 Paris, France.; Laboratoire d'Excellence GR-Ex, 75015 Paris, France., Postic G; Université Paris-Saclay, Univ Evry, IBISC, 91020 Evry-Courcouronnes, France., Gelly JC; Université Paris Cité and Université des Antilles and Université de la Réunion, INSERM, BIGR, F-75015 Paris, France.; Laboratoire d'Excellence GR-Ex, 75015 Paris, France.
Jazyk:	angličtina
Zdroj:	Nucleic acids research [Nucleic Acids Res] 2022 Jul 05; Vol. 50 (W1), pp. W732-W738.
DOI:	10.1093/nar/gkac370
Abstrakt:	Understanding the functions and origins of proteins requires splitting these macromolecules into fragments that could be independent in terms of folding, activity, or evolution. For that purpose, structural domains are the typical level of analysis, but shorter segments, such as subdomains and supersecondary structures, are insightful as well. Here, we propose SWORD2, a web server for exploring how an input protein structure may be decomposed into 'Protein Units' that can be hierarchically assembled to delimit structural domains. For each partitioning solution, the relevance of the identified substructures is estimated through different measures. This multilevel analysis is achieved by integrating our previous work on domain delineation, 'protein peeling' and model quality assessment. We hope that SWORD2 will be useful to biologists searching for key regions in their proteins of interest and to bioinformaticians building datasets of protein structures. The web server is freely available online: https://www.dsimb.inserm.fr/SWORD2. (© The Author(s) 2022. Published by Oxford University Press on behalf of Nucleic Acids Research.)
Databáze:	MEDLINE
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