Baker D - Search Results

1

Engineering V-type nerve agents detoxifying enzymes using computationally focused libraries.

Cherny I, Greisen P Jr, Ashani Y, Khare SD, Oberdorfer G, Leader H, Baker D, Tawfik DS. Cherny I, et al. Among authors: baker d. ACS Chem Biol. 2013 Nov 15;8(11):2394-403. doi: 10.1021/cb4004892. Epub 2013 Oct 4. ACS Chem Biol. 2013. PMID: 24041203

2

Kemp elimination catalysts by computational enzyme design.

Röthlisberger D, Khersonsky O, Wollacott AM, Jiang L, DeChancie J, Betker J, Gallaher JL, Althoff EA, Zanghellini A, Dym O, Albeck S, Houk KN, Tawfik DS, Baker D. Röthlisberger D, et al. Among authors: baker d. Nature. 2008 May 8;453(7192):190-5. doi: 10.1038/nature06879. Epub 2008 Mar 19. Nature. 2008. PMID: 18354394

3

Evolutionary optimization of computationally designed enzymes: Kemp eliminases of the KE07 series.

Khersonsky O, Röthlisberger D, Dym O, Albeck S, Jackson CJ, Baker D, Tawfik DS. Khersonsky O, et al. Among authors: baker d. J Mol Biol. 2010 Mar 5;396(4):1025-42. doi: 10.1016/j.jmb.2009.12.031. Epub 2009 Dec 28. J Mol Biol. 2010. PMID: 20036254

4

Optimization of the in-silico-designed kemp eliminase KE70 by computational design and directed evolution.

Khersonsky O, Röthlisberger D, Wollacott AM, Murphy P, Dym O, Albeck S, Kiss G, Houk KN, Baker D, Tawfik DS. Khersonsky O, et al. Among authors: baker d. J Mol Biol. 2011 Apr 1;407(3):391-412. doi: 10.1016/j.jmb.2011.01.041. Epub 2011 Jan 28. J Mol Biol. 2011. PMID: 21277311 Free PMC article.

5

Restricted sidechain plasticity in the structures of native proteins and complexes.

Fleishman SJ, Khare SD, Koga N, Baker D. Fleishman SJ, et al. Among authors: baker d. Protein Sci. 2011 Apr;20(4):753-7. doi: 10.1002/pro.604. Protein Sci. 2011. PMID: 21432939 Free PMC article.

6

De novo enzyme design using Rosetta3.

Richter F, Leaver-Fay A, Khare SD, Bjelic S, Baker D. Richter F, et al. Among authors: baker d. PLoS One. 2011;6(5):e19230. doi: 10.1371/journal.pone.0019230. Epub 2011 May 16. PLoS One. 2011. PMID: 21603656 Free PMC article.

7

RosettaScripts: a scripting language interface to the Rosetta macromolecular modeling suite.

Fleishman SJ, Leaver-Fay A, Corn JE, Strauch EM, Khare SD, Koga N, Ashworth J, Murphy P, Richter F, Lemmon G, Meiler J, Baker D. Fleishman SJ, et al. Among authors: baker d. PLoS One. 2011;6(6):e20161. doi: 10.1371/journal.pone.0020161. Epub 2011 Jun 24. PLoS One. 2011. PMID: 21731610 Free PMC article.

8

Computational redesign of a mononuclear zinc metalloenzyme for organophosphate hydrolysis.

Khare SD, Kipnis Y, Greisen P Jr, Takeuchi R, Ashani Y, Goldsmith M, Song Y, Gallaher JL, Silman I, Leader H, Sussman JL, Stoddard BL, Tawfik DS, Baker D. Khare SD, et al. Among authors: baker d. Nat Chem Biol. 2012 Feb 5;8(3):294-300. doi: 10.1038/nchembio.777. Nat Chem Biol. 2012. PMID: 22306579 Free PMC article.

9

Bridging the gaps in design methodologies by evolutionary optimization of the stability and proficiency of designed Kemp eliminase KE59.

Khersonsky O, Kiss G, Röthlisberger D, Dym O, Albeck S, Houk KN, Baker D, Tawfik DS. Khersonsky O, et al. Among authors: baker d. Proc Natl Acad Sci U S A. 2012 Jun 26;109(26):10358-63. doi: 10.1073/pnas.1121063109. Epub 2012 Jun 8. Proc Natl Acad Sci U S A. 2012. PMID: 22685214 Free PMC article.

10

Computational design of catalytic dyads and oxyanion holes for ester hydrolysis.

Richter F, Blomberg R, Khare SD, Kiss G, Kuzin AP, Smith AJ, Gallaher J, Pianowski Z, Helgeson RC, Grjasnow A, Xiao R, Seetharaman J, Su M, Vorobiev S, Lew S, Forouhar F, Kornhaber GJ, Hunt JF, Montelione GT, Tong L, Houk KN, Hilvert D, Baker D. Richter F, et al. Among authors: baker d. J Am Chem Soc. 2012 Oct 3;134(39):16197-206. doi: 10.1021/ja3037367. Epub 2012 Sep 21. J Am Chem Soc. 2012. PMID: 22871159 Free PMC article.

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