Ovchinnikov S - Search Results

1

Template-based modeling by ClusPro in CASP13 and the potential for using co-evolutionary information in docking.

Porter KA, Padhorny D, Desta I, Ignatov M, Beglov D, Kotelnikov S, Sun Z, Alekseenko A, Anishchenko I, Cong Q, Ovchinnikov S, Baker D, Vajda S, Kozakov D. Porter KA, et al. Among authors: ovchinnikov s. Proteins. 2019 Dec;87(12):1241-1248. doi: 10.1002/prot.25808. Epub 2019 Oct 1. Proteins. 2019. PMID: 31444975 Free PMC article.

2

Assessing the utility of coevolution-based residue-residue contact predictions in a sequence- and structure-rich era.

Kamisetty H, Ovchinnikov S, Baker D. Kamisetty H, et al. Among authors: ovchinnikov s. Proc Natl Acad Sci U S A. 2013 Sep 24;110(39):15674-9. doi: 10.1073/pnas.1314045110. Epub 2013 Sep 5. Proc Natl Acad Sci U S A. 2013. PMID: 24009338 Free PMC article.

3

Robust and accurate prediction of residue-residue interactions across protein interfaces using evolutionary information.

Ovchinnikov S, Kamisetty H, Baker D. Ovchinnikov S, et al. Elife. 2014 May 1;3:e02030. doi: 10.7554/eLife.02030. Elife. 2014. PMID: 24842992 Free PMC article.

4

Computation and Functional Studies Provide a Model for the Structure of the Zinc Transporter hZIP4.

Antala S, Ovchinnikov S, Kamisetty H, Baker D, Dempski RE. Antala S, et al. Among authors: ovchinnikov s. J Biol Chem. 2015 Jul 17;290(29):17796-17805. doi: 10.1074/jbc.M114.617613. Epub 2015 May 13. J Biol Chem. 2015. PMID: 25971965 Free PMC article.

5

Large-scale determination of previously unsolved protein structures using evolutionary information.

Ovchinnikov S, Kinch L, Park H, Liao Y, Pei J, Kim DE, Kamisetty H, Grishin NV, Baker D. Ovchinnikov S, et al. Elife. 2015 Sep 3;4:e09248. doi: 10.7554/eLife.09248. Elife. 2015. PMID: 26335199 Free PMC article.

6

Catalytic efficiencies of directly evolved phosphotriesterase variants with structurally different organophosphorus compounds in vitro.

Goldsmith M, Eckstein S, Ashani Y, Greisen P Jr, Leader H, Sussman JL, Aggarwal N, Ovchinnikov S, Tawfik DS, Baker D, Thiermann H, Worek F. Goldsmith M, et al. Among authors: ovchinnikov s. Arch Toxicol. 2016 Nov;90(11):2711-2724. doi: 10.1007/s00204-015-1626-2. Epub 2015 Nov 26. Arch Toxicol. 2016. PMID: 26612364

7

Improved de novo structure prediction in CASP11 by incorporating coevolution information into Rosetta.

Ovchinnikov S, Kim DE, Wang RY, Liu Y, DiMaio F, Baker D. Ovchinnikov S, et al. Proteins. 2016 Sep;84 Suppl 1(Suppl 1):67-75. doi: 10.1002/prot.24974. Epub 2016 Feb 24. Proteins. 2016. PMID: 26677056 Free PMC article.

8

Structure prediction using sparse simulated NOE restraints with Rosetta in CASP11.

Ovchinnikov S, Park H, Kim DE, Liu Y, Wang RY, Baker D. Ovchinnikov S, et al. Proteins. 2016 Sep;84 Suppl 1(Suppl 1):181-8. doi: 10.1002/prot.25006. Epub 2016 Mar 6. Proteins. 2016. PMID: 26857542 Free PMC article.

9

Protein structure determination using metagenome sequence data.

Ovchinnikov S, Park H, Varghese N, Huang PS, Pavlopoulos GA, Kim DE, Kamisetty H, Kyrpides NC, Baker D. Ovchinnikov S, et al. Science. 2017 Jan 20;355(6322):294-298. doi: 10.1126/science.aah4043. Science. 2017. PMID: 28104891 Free PMC article.

10

Applications of contact predictions to structural biology.

Simkovic F, Ovchinnikov S, Baker D, Rigden DJ. Simkovic F, et al. Among authors: ovchinnikov s. IUCrJ. 2017 Apr 18;4(Pt 3):291-300. doi: 10.1107/S2052252517005115. eCollection 2017 May 1. IUCrJ. 2017. PMID: 28512576 Free PMC article. Review.

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