{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,6,17]],"date-time":"2026-06-17T06:44:53Z","timestamp":1781678693893,"version":"3.54.5"},"reference-count":103,"publisher":"Oxford University Press (OUP)","issue":"2","license":[{"start":{"date-parts":[[2022,2,21]],"date-time":"2022-02-21T00:00:00Z","timestamp":1645401600000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100000925","name":"National Health and Medical Research Council","doi-asserted-by":"publisher","award":["GNT1174405"],"award-info":[{"award-number":["GNT1174405"]}],"id":[{"id":"10.13039\/501100000925","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2022,3,10]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Changes in protein sequence can have dramatic effects on how proteins fold, their stability and dynamics. Over the last 20\u00a0years, pioneering methods have been developed to try to estimate the effects of missense mutations on protein stability, leveraging growing availability of protein 3D structures. These, however, have been developed and validated using experimentally derived structures and biophysical measurements. A large proportion of protein structures remain to be experimentally elucidated and, while many studies have based their conclusions on predictions made using homology models, there has been no systematic evaluation of the reliability of these tools in the absence of experimental structural data. We have, therefore, systematically investigated the performance and robustness of ten widely used structural methods when presented with homology models built using templates at a range of sequence identity levels (from 15% to 95%) and contrasted performance with sequence-based tools, as a baseline. We found there is indeed performance deterioration on homology models built using templates with sequence identity below 40%, where sequence-based tools might become preferable. This was most marked for mutations in solvent exposed residues and stabilizing mutations. As structure prediction tools improve, the reliability of these predictors is expected to follow, however we strongly suggest that these factors should be taken into consideration when interpreting results from structure-based predictors of mutation effects on protein stability.<\/jats:p>","DOI":"10.1093\/bib\/bbac025","type":"journal-article","created":{"date-parts":[[2022,1,31]],"date-time":"2022-01-31T12:10:23Z","timestamp":1643631023000},"source":"Crossref","is-referenced-by-count":40,"title":["Systematic evaluation of computational tools to predict the effects of mutations on protein stability in the absence of experimental structures"],"prefix":"10.1093","volume":"23","author":[{"given":"Qisheng","family":"Pan","sequence":"first","affiliation":[{"name":"Computational Biology and Clinical Informatics , , Melbourne, Victoria 3004 , Australia"},{"name":"Baker Heart and Diabetes Institute , , Melbourne, Victoria 3004 , Australia"},{"name":"School of Chemistry and Molecular Biosciences , , Brisbane City, Queensland 4072 , Australia"},{"name":"University of Queensland , , Brisbane City, Queensland 4072 , Australia"},{"name":"Systems and Computational Biology , , 30 Flemington Rd, Parkville, Victoria 3052 , Australia"},{"name":"Bio21 Institute, University of Melbourne , , 30 Flemington Rd, Parkville, Victoria 3052 , Australia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Thanh Binh","family":"Nguyen","sequence":"additional","affiliation":[{"name":"Computational Biology and Clinical Informatics , , Melbourne, Victoria 3004 , Australia"},{"name":"Baker Heart and Diabetes Institute , , Melbourne, Victoria 3004 , Australia"},{"name":"School of Chemistry and Molecular Biosciences , , Brisbane City, Queensland 4072 , Australia"},{"name":"University of Queensland , , Brisbane City, Queensland 4072 , Australia"},{"name":"Systems and Computational Biology , , 30 Flemington Rd, Parkville, Victoria 3052 , Australia"},{"name":"Bio21 Institute, University of Melbourne , , 30 Flemington Rd, Parkville, Victoria 3052 , Australia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-2948-2413","authenticated-orcid":false,"given":"David B","family":"Ascher","sequence":"additional","affiliation":[{"name":"Computational Biology and Clinical Informatics , , Melbourne, Victoria 3004 , Australia"},{"name":"Baker Heart and Diabetes Institute , , Melbourne, Victoria 3004 , Australia"},{"name":"School of Chemistry and Molecular Biosciences , , Brisbane City, Queensland 4072 , Australia"},{"name":"University of Queensland , , Brisbane City, Queensland 4072 , Australia"},{"name":"Systems and Computational Biology , , 30 Flemington Rd, Parkville, Victoria 3052 , Australia"},{"name":"Bio21 Institute, University of Melbourne , , 30 Flemington Rd, Parkville, Victoria 3052 , Australia"},{"name":"Department of Biochemistry , , 80 Tennis Ct Rd, Cambridge CB2 1GA , UK"},{"name":"University of Cambridge , , 80 Tennis Ct Rd, Cambridge CB2 1GA , UK"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-3004-2119","authenticated-orcid":false,"given":"Douglas E V","family":"Pires","sequence":"additional","affiliation":[{"name":"Computational Biology and Clinical Informatics , , Melbourne, Victoria 3004 , Australia"},{"name":"Baker Heart and Diabetes Institute , , Melbourne, Victoria 3004 , Australia"},{"name":"School of Chemistry and Molecular Biosciences , , Brisbane City, Queensland 4072 , Australia"},{"name":"University of Queensland , , Brisbane City, Queensland 4072 , Australia"},{"name":"Systems and Computational Biology , , 30 Flemington Rd, Parkville, Victoria 3052 , Australia"},{"name":"Bio21 Institute, University of Melbourne , , 30 Flemington Rd, Parkville, Victoria 3052 , Australia"},{"name":"School of Computing and Information Systems , , Melbourne, Victoria 3053 , Australia"},{"name":"University of Melbourne , , Melbourne, Victoria 3053 , 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