Donald BR - Search Results

1

comets (Constrained Optimization of Multistate Energies by Tree Search): A Provable and Efficient Protein Design Algorithm to Optimize Binding Affinity and Specificity with Respect to Sequence.

Hallen MA, Donald BR. Hallen MA, et al. Among authors: donald br. J Comput Biol. 2016 May;23(5):311-21. doi: 10.1089/cmb.2015.0188. Epub 2016 Jan 13. J Comput Biol. 2016. PMID: 26761641 Free PMC article.

2

The NOESY jigsaw: automated protein secondary structure and main-chain assignment from sparse, unassigned NMR data.

Bailey-Kellogg C, Widge A, Kelley JJ, Berardi MJ, Bushweller JH, Donald BR. Bailey-Kellogg C, et al. Among authors: donald br. J Comput Biol. 2000;7(3-4):537-58. doi: 10.1089/106652700750050934. J Comput Biol. 2000. PMID: 11108478

3

A novel ensemble-based scoring and search algorithm for protein redesign and its application to modify the substrate specificity of the gramicidin synthetase a phenylalanine adenylation enzyme.

Lilien RH, Stevens BW, Anderson AC, Donald BR. Lilien RH, et al. Among authors: donald br. J Comput Biol. 2005 Jul-Aug;12(6):740-61. doi: 10.1089/cmb.2005.12.740. J Comput Biol. 2005. PMID: 16108714

4

Dead-end elimination with backbone flexibility.

Georgiev I, Donald BR. Georgiev I, et al. Among authors: donald br. Bioinformatics. 2007 Jul 1;23(13):i185-94. doi: 10.1093/bioinformatics/btm197. Bioinformatics. 2007. PMID: 17646295

5

The minimized dead-end elimination criterion and its application to protein redesign in a hybrid scoring and search algorithm for computing partition functions over molecular ensembles.

Georgiev I, Lilien RH, Donald BR. Georgiev I, et al. Among authors: donald br. J Comput Chem. 2008 Jul 30;29(10):1527-42. doi: 10.1002/jcc.20909. J Comput Chem. 2008. PMID: 18293294 Free PMC article.

6

Algorithm for backrub motions in protein design.

Georgiev I, Keedy D, Richardson JS, Richardson DC, Donald BR. Georgiev I, et al. Among authors: donald br. Bioinformatics. 2008 Jul 1;24(13):i196-204. doi: 10.1093/bioinformatics/btn169. Bioinformatics. 2008. PMID: 18586714 Free PMC article.

7

A Hausdorff-based NOE assignment algorithm using protein backbone determined from residual dipolar couplings and rotamer patterns.

Zeng J, Tripathy C, Zhou P, Donald BR. Zeng J, et al. Among authors: donald br. Comput Syst Bioinformatics Conf. 2008;7:169-81. Comput Syst Bioinformatics Conf. 2008. PMID: 19642278 Free article.

8

Protein side-chain resonance assignment and NOE assignment using RDC-defined backbones without TOCSY data.

Zeng J, Zhou P, Donald BR. Zeng J, et al. Among authors: donald br. J Biomol NMR. 2011 Aug;50(4):371-95. doi: 10.1007/s10858-011-9522-4. Epub 2011 Jun 25. J Biomol NMR. 2011. PMID: 21706248 Free PMC article.

9

NMR structural inference of symmetric homo-oligomers.

Chandola H, Yan AK, Potluri S, Donald BR, Bailey-Kellogg C. Chandola H, et al. Among authors: donald br. J Comput Biol. 2011 Dec;18(12):1757-75. doi: 10.1089/cmb.2010.0327. Epub 2011 Jun 30. J Comput Biol. 2011. PMID: 21718128 Free PMC article.

10

A Bayesian approach for determining protein side-chain rotamer conformations using unassigned NOE data.

Zeng J, Roberts KE, Zhou P, Donald BR. Zeng J, et al. Among authors: donald br. J Comput Biol. 2011 Nov;18(11):1661-79. doi: 10.1089/cmb.2011.0172. Epub 2011 Oct 4. J Comput Biol. 2011. PMID: 21970619 Free PMC article.

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