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Structure prediction for CASP8 with all-atom refinement using Rosetta.
Raman S, Vernon R, Thompson J, Tyka M, Sadreyev R, Pei J, Kim D, Kellogg E, DiMaio F, Lange O, Kinch L, Sheffler W, Kim BH, Das R, Grishin NV, Baker D. Raman S, et al. Among authors: dimaio f. Proteins. 2009;77 Suppl 9(0 9):89-99. doi: 10.1002/prot.22540. Proteins. 2009. PMID: 19701941 Free PMC article.
Alternate states of proteins revealed by detailed energy landscape mapping.
Tyka MD, Keedy DA, André I, Dimaio F, Song Y, Richardson DC, Richardson JS, Baker D. Tyka MD, et al. Among authors: dimaio f. J Mol Biol. 2011 Jan 14;405(2):607-18. doi: 10.1016/j.jmb.2010.11.008. Epub 2010 Nov 10. J Mol Biol. 2011. PMID: 21073878 Free PMC article.
CASP11 refinement experiments with ROSETTA.
Park H, DiMaio F, Baker D. Park H, et al. Among authors: dimaio f. Proteins. 2016 Sep;84 Suppl 1(Suppl 1):314-22. doi: 10.1002/prot.24862. Epub 2015 Aug 14. Proteins. 2016. PMID: 26205421 Free PMC article.
The Rosetta All-Atom Energy Function for Macromolecular Modeling and Design.
Alford RF, Leaver-Fay A, Jeliazkov JR, O'Meara MJ, DiMaio FP, Park H, Shapovalov MV, Renfrew PD, Mulligan VK, Kappel K, Labonte JW, Pacella MS, Bonneau R, Bradley P, Dunbrack RL Jr, Das R, Baker D, Kuhlman B, Kortemme T, Gray JJ. Alford RF, et al. Among authors: dimaio fp. J Chem Theory Comput. 2017 Jun 13;13(6):3031-3048. doi: 10.1021/acs.jctc.7b00125. Epub 2017 May 12. J Chem Theory Comput. 2017. PMID: 28430426 Free PMC article.
Protein structure prediction using Rosetta in CASP12.
Ovchinnikov S, Park H, Kim DE, DiMaio F, Baker D. Ovchinnikov S, et al. Among authors: dimaio f. Proteins. 2018 Mar;86 Suppl 1(Suppl 1):113-121. doi: 10.1002/prot.25390. Epub 2017 Oct 8. Proteins. 2018. PMID: 28940798 Free PMC article.
171 results