{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,3,9]],"date-time":"2026-03-09T18:53:23Z","timestamp":1773082403267,"version":"3.50.1"},"reference-count":57,"publisher":"Oxford University Press (OUP)","issue":"17","license":[{"start":{"date-parts":[[2022,7,9]],"date-time":"2022-07-09T00:00:00Z","timestamp":1657324800000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by-nc\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100004239","name":"Poznan University of Technology","doi-asserted-by":"publisher","award":["0311\/SBAD\/0705"],"award-info":[{"award-number":["0311\/SBAD\/0705"]}],"id":[{"id":"10.13039\/501100004239","id-type":"DOI","asserted-by":"publisher"}]},{"name":"National Science Center","award":["2019\/35\/B\/ST6\/03074"],"award-info":[{"award-number":["2019\/35\/B\/ST6\/03074"]}]},{"DOI":"10.13039\/501100020811","name":"Institute of Bioorganic Chemistry","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100020811","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2022,9,2]]},"abstract":"<jats:title>Abstract<\/jats:title><jats:sec><jats:title>Motivation<\/jats:title><jats:p>Knowledge of the 3D structure of RNA supports discovering its functions and is crucial for designing drugs and modern therapeutic solutions. Thus, much attention is devoted to experimental determination and computational prediction targeting the global fold of RNA and its local substructures. The latter include multi-branched loops\u2014functionally significant elements that highly affect the spatial shape of the entire molecule. Unfortunately, their computational modeling constitutes a weak point of structural bioinformatics. A remedy for this is in collecting these motifs and analyzing their features.<\/jats:p><\/jats:sec><jats:sec><jats:title>Results<\/jats:title><jats:p>RNAloops is a self-updating database that stores multi-branched loops identified in the PDB-deposited RNA structures. A description of each loop includes angular data\u2014planar and Euler angles computed between pairs of adjacent helices to allow studying their mutual arrangement in space. The system enables search and analysis of multiloops, presents their structure details numerically and visually, and computes data statistics.<\/jats:p><\/jats:sec><jats:sec><jats:title>Availability and implementation<\/jats:title><jats:p>RNAloops is freely accessible at https:\/\/rnaloops.cs.put.poznan.pl.<\/jats:p><\/jats:sec><jats:sec><jats:title>Supplementary information<\/jats:title><jats:p>Supplementary data are available at Bioinformatics online.<\/jats:p><\/jats:sec>","DOI":"10.1093\/bioinformatics\/btac484","type":"journal-article","created":{"date-parts":[[2022,7,9]],"date-time":"2022-07-09T13:57:10Z","timestamp":1657375030000},"page":"4200-4205","source":"Crossref","is-referenced-by-count":14,"title":["RNAloops: a database of RNA multiloops"],"prefix":"10.1093","volume":"38","author":[{"given":"Jakub","family":"Wiedemann","sequence":"first","affiliation":[{"name":"Institute of Computing Science, Poznan University of Technology , 60-965 Poznan, Poland"}]},{"given":"Jacek","family":"Kaczor","sequence":"additional","affiliation":[{"name":"Institute of Computing Science, Poznan University of Technology , 60-965 Poznan, Poland"}]},{"given":"Maciej","family":"Milostan","sequence":"additional","affiliation":[{"name":"Institute of Computing Science, Poznan University of Technology , 60-965 Poznan, Poland"},{"name":"Poznan Supercomputing and Networking Center , 61-131 Poznan, Poland"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-4103-9238","authenticated-orcid":false,"given":"Tomasz","family":"Zok","sequence":"additional","affiliation":[{"name":"Institute of Computing Science, Poznan University of Technology , 60-965 Poznan, Poland"},{"name":"Poznan Supercomputing and Networking Center , 61-131 Poznan, Poland"}]},{"given":"Jacek","family":"Blazewicz","sequence":"additional","affiliation":[{"name":"Institute of Computing Science, Poznan University of Technology , 60-965 Poznan, Poland"},{"name":"Institute of Bioorganic Chemistry, Polish Academy of Sciences , 61-704 Poznan, Poland"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-8724-7908","authenticated-orcid":false,"given":"Marta","family":"Szachniuk","sequence":"additional","affiliation":[{"name":"Institute of Computing Science, Poznan University of Technology , 60-965 Poznan, Poland"},{"name":"Institute of Bioorganic Chemistry, Polish Academy of Sciences , 61-704 Poznan, Poland"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-5320-2023","authenticated-orcid":false,"given":"Maciej","family":"Antczak","sequence":"additional","affiliation":[{"name":"Institute of Computing Science, Poznan University of Technology , 60-965 Poznan, Poland"},{"name":"Institute of Bioorganic Chemistry, Polish Academy of Sciences , 61-704 Poznan, Poland"}]}],"member":"286","published-online":{"date-parts":[[2022,7,9]]},"reference":[{"key":"2023041408445033600_","doi-asserted-by":"crossref","first-page":"3668","DOI":"10.1093\/bioinformatics\/btac386","article-title":"RNAsolo: a repository of clean, experimentally determined RNA 3D structures","volume":"38","author":"Adamczyk","year":"2022","journal-title":"Bioinformatics"},{"key":"2023041408445033600_","first-page":"737","article-title":"New functionality of RNAComposer: application to shape the axis of miR160 precursor structure","volume":"63","author":"Antczak","year":"2016","journal-title":"Acta Biochim. 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