{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,4,11]],"date-time":"2026-04-11T09:31:07Z","timestamp":1775899867127,"version":"3.50.1"},"reference-count":76,"publisher":"Oxford University Press (OUP)","issue":"11","license":[{"start":{"date-parts":[[2020,3,26]],"date-time":"2020-03-26T00:00:00Z","timestamp":1585180800000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/academic.oup.com\/journals\/pages\/open_access\/funder_policies\/chorus\/standard_publication_model"}],"funder":[{"name":"Shenzhen Science and Technology Innovation Committee","award":["JCYJ20170412150507046"],"award-info":[{"award-number":["JCYJ20170412150507046"]}]},{"name":"Shenzhen Science and Technology Innovation Committee","award":["JCYJ20170412151002616"],"award-info":[{"award-number":["JCYJ20170412151002616"]}]},{"DOI":"10.13039\/501100001809","name":"National Natural Science Foundation of China","doi-asserted-by":"publisher","award":["21933004"],"award-info":[{"award-number":["21933004"]}],"id":[{"id":"10.13039\/501100001809","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2020,6,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:sec>\n                  <jats:title>Motivation<\/jats:title>\n                  <jats:p>High-throughput sequencing discovers many naturally occurring disulfide-rich peptides or cystine-rich peptides (CRPs) with diversified bioactivities. However, their structure information, which is very important to peptide drug discovery, is still very limited.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Results<\/jats:title>\n                  <jats:p>We have developed a CRP-specific structure prediction method called Cystine-Rich peptide Structure Prediction (CRiSP), based on a customized template database with cystine-specific sequence alignment and three machine-learning predictors. The modeling accuracy is significantly better than several popular general-purpose structure modeling methods, and our CRiSP can provide useful model quality estimations.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Availability and implementation<\/jats:title>\n                  <jats:p>The CRiSP server is freely available on the website at http:\/\/wulab.com.cn\/CRISP.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Contact<\/jats:title>\n                  <jats:p>wuyd@pkusz.edu.cn or jiangfan@pku.edu.cn<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Supplementary information<\/jats:title>\n                  <jats:p>Supplementary data are available at Bioinformatics online.<\/jats:p>\n               <\/jats:sec>","DOI":"10.1093\/bioinformatics\/btaa193","type":"journal-article","created":{"date-parts":[[2020,3,22]],"date-time":"2020-03-22T12:07:23Z","timestamp":1584878843000},"page":"3385-3392","source":"Crossref","is-referenced-by-count":5,"title":["CRiSP: accurate structure prediction of disulfide-rich peptides with cystine-specific sequence alignment and machine learning"],"prefix":"10.1093","volume":"36","author":[{"given":"Zi-Lin","family":"Liu","sequence":"first","affiliation":[{"name":"Laboratory of Computational Chemistry and Drug Design , State Key Laboratory of Chemical Oncogenomics, Peking University Shenzhen Graduate School, Shenzhen 518055, China"}]},{"given":"Jing-Hao","family":"Hu","sequence":"additional","affiliation":[{"name":"Laboratory of Computational Chemistry and Drug Design , State Key Laboratory of Chemical Oncogenomics, Peking University Shenzhen Graduate School, Shenzhen 518055, China"},{"name":"College of Chemistry and Molecular Engineering , Peking University, Beijing 100871, China"}]},{"given":"Fan","family":"Jiang","sequence":"additional","affiliation":[{"name":"Laboratory of Computational Chemistry and Drug Design , State Key Laboratory of Chemical Oncogenomics, Peking University Shenzhen Graduate School, Shenzhen 518055, China"},{"name":"NanoAI Biotech Co. , Ltd, Shenzhen 518118, China"}]},{"given":"Yun-Dong","family":"Wu","sequence":"additional","affiliation":[{"name":"Laboratory of Computational Chemistry and Drug Design , State Key Laboratory of Chemical Oncogenomics, Peking University Shenzhen Graduate School, Shenzhen 518055, China"},{"name":"College of Chemistry and Molecular Engineering , Peking University, Beijing 100871, China"},{"name":"Shenzhen Bay Laboratory , Shenzhen 518055, China"}]}],"member":"286","published-online":{"date-parts":[[2020,3,26]]},"reference":[{"key":"2023062300082253200_btaa193-B1","doi-asserted-by":"crossref","first-page":"3031","DOI":"10.1021\/acs.jctc.7b00125","article-title":"The Rosetta all-atom energy function for macromolecular modeling and design","volume":"13","author":"Alford","year":"2017","journal-title":"J. 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