Perez A - Search Results

1

Regulation of the activity of the promoter of RNA-induced silencing, C3PO.

Sahu S, Williams L, Perez A, Philip F, Caso G, Zurawsky W, Scarlata S. Sahu S, et al. Among authors: perez a. Protein Sci. 2017 Sep;26(9):1807-1818. doi: 10.1002/pro.3219. Epub 2017 Jul 17. Protein Sci. 2017. PMID: 28714243 Free PMC article.

2

Refinement of Generalized Born Implicit Solvation Parameters for Nucleic Acids and Their Complexes with Proteins.

Nguyen H, Pérez A, Bermeo S, Simmerling C. Nguyen H, et al. Among authors: perez a. J Chem Theory Comput. 2015 Aug 11;11(8):3714-28. doi: 10.1021/acs.jctc.5b00271. J Chem Theory Comput. 2015. PMID: 26574454 Free PMC article.

3

MELD-Path Efficiently Computes Conformational Transitions, Including Multiple and Diverse Paths.

Perez A, Sittel F, Stock G, Dill K. Perez A, et al. J Chem Theory Comput. 2018 Apr 10;14(4):2109-2116. doi: 10.1021/acs.jctc.7b01294. Epub 2018 Mar 21. J Chem Theory Comput. 2018. PMID: 29547695 Free PMC article.

4

Extracting representative structures from protein conformational ensembles.

Perez A, Roy A, Kasavajhala K, Wagaman A, Dill KA, MacCallum JL. Perez A, et al. Proteins. 2014 Oct;82(10):2671-80. doi: 10.1002/prot.24633. Epub 2014 Jul 5. Proteins. 2014. PMID: 24975328

5

Determining protein structures by combining semireliable data with atomistic physical models by Bayesian inference.

MacCallum JL, Perez A, Dill KA. MacCallum JL, et al. Among authors: perez a. Proc Natl Acad Sci U S A. 2015 Jun 2;112(22):6985-90. doi: 10.1073/pnas.1506788112. Epub 2015 May 18. Proc Natl Acad Sci U S A. 2015. PMID: 26038552 Free PMC article.

6

MELD × MD Folds Nonthreadables, Giving Native Structures and Populations.

Robertson JC, Perez A, Dill KA. Robertson JC, et al. Among authors: perez a. J Chem Theory Comput. 2018 Dec 11;14(12):6734-6740. doi: 10.1021/acs.jctc.8b00886. Epub 2018 Nov 21. J Chem Theory Comput. 2018. PMID: 30407805 Free PMC article.

7

Computed Binding of Peptides to Proteins with MELD-Accelerated Molecular Dynamics.

Morrone JA, Perez A, MacCallum J, Dill KA. Morrone JA, et al. Among authors: perez a. J Chem Theory Comput. 2017 Feb 14;13(2):870-876. doi: 10.1021/acs.jctc.6b00977. Epub 2017 Jan 19. J Chem Theory Comput. 2017. PMID: 28042966

8

NMR-assisted protein structure prediction with MELDxMD.

Robertson JC, Nassar R, Liu C, Brini E, Dill KA, Perez A. Robertson JC, et al. Among authors: perez a. Proteins. 2019 Dec;87(12):1333-1340. doi: 10.1002/prot.25788. Epub 2019 Aug 8. Proteins. 2019. PMID: 31350773 Free PMC article.

9

Computing Ligands Bound to Proteins Using MELD-Accelerated MD.

Liu C, Brini E, Perez A, Dill KA. Liu C, et al. Among authors: perez a. J Chem Theory Comput. 2020 Oct 13;16(10):6377-6382. doi: 10.1021/acs.jctc.0c00543. Epub 2020 Sep 23. J Chem Theory Comput. 2020. PMID: 32910647 Free PMC article.

10

Constraint methods that accelerate free-energy simulations of biomolecules.

Perez A, MacCallum JL, Coutsias EA, Dill KA. Perez A, et al. J Chem Phys. 2015 Dec 28;143(24):243143. doi: 10.1063/1.4936911. J Chem Phys. 2015. PMID: 26723628 Free PMC article. Review.

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