Evanseck JD - Search Results

1

All-atom empirical potential for molecular modeling and dynamics studies of proteins.

MacKerell AD, Bashford D, Bellott M, Dunbrack RL, Evanseck JD, Field MJ, Fischer S, Gao J, Guo H, Ha S, Joseph-McCarthy D, Kuchnir L, Kuczera K, Lau FT, Mattos C, Michnick S, Ngo T, Nguyen DT, Prodhom B, Reiher WE, Roux B, Schlenkrich M, Smith JC, Stote R, Straub J, Watanabe M, Wiórkiewicz-Kuczera J, Yin D, Karplus M. MacKerell AD, et al. Among authors: evanseck jd. J Phys Chem B. 1998 Apr 30;102(18):3586-616. doi: 10.1021/jp973084f. J Phys Chem B. 1998. PMID: 24889800

2

Locally accessible conformations of proteins: multiple molecular dynamics simulations of crambin.

Caves LS, Evanseck JD, Karplus M. Caves LS, et al. Among authors: evanseck jd. Protein Sci. 1998 Mar;7(3):649-66. doi: 10.1002/pro.5560070314. Protein Sci. 1998. PMID: 9541397 Free PMC article.

3

Simulation analysis of triose phosphate isomerase: conformational transition and catalysis.

Karplus M, Evanseck JD, Joseph D, Bash PA, Field MJ. Karplus M, et al. Among authors: evanseck jd. Faraday Discuss. 1992;(93):239-48. doi: 10.1039/fd9929300239. Faraday Discuss. 1992. PMID: 1290934 Review.

4

Computational studies of inclusion phenomena and synthesis of a novel and selective molecular receptor for 1,4-disubstituted benzenes and 4,4'-disubstituted biphenyls.

Macias AT, Kumar KA, Marchand AP, Evanseck JD. Macias AT, et al. Among authors: evanseck jd. J Org Chem. 2000 Apr 7;65(7):2083-9. doi: 10.1021/jo991669v. J Org Chem. 2000. PMID: 10774029

5

Delta SARS-CoV-2 s2m Structure, Dynamics, and Entropy: Consequences of the G15U Mutation.

Makowski JA, Kensinger AH, Cunningham CL, Frye CJ, Shine M, Lackey PE, Mihailescu MR, Evanseck JD. Makowski JA, et al. Among authors: evanseck jd. ACS Phys Chem Au. 2023 May 17;3(5):434-443. doi: 10.1021/acsphyschemau.3c00008. eCollection 2023 Sep 27. ACS Phys Chem Au. 2023. PMID: 37780540 Free PMC article.

6

Effect of the SARS-CoV-2 Delta-associated G15U mutation on the s2m element dimerization and its interactions with miR-1307-3p.

Cunningham CL, Frye CJ, Makowski JA, Kensinger AH, Shine M, Milback EJ, Lackey PE, Evanseck JD, Mihailescu MR. Cunningham CL, et al. Among authors: evanseck jd. RNA. 2023 Nov;29(11):1754-1771. doi: 10.1261/rna.079627.123. Epub 2023 Aug 21. RNA. 2023. PMID: 37604684

7

Uridylation of the histone mRNA stem-loop weakens binding interactions with SLBP while maintaining interactions with 3'hExo.

Shine M, Harris SE, Pellegrene KA, Kensinger AH, Mihailescu MR, Evanseck JD, Lackey PE. Shine M, et al. Among authors: evanseck jd. RNA Biol. 2023 Jan;20(1):469-481. doi: 10.1080/15476286.2023.2171760. RNA Biol. 2023. PMID: 37516934 Free PMC article.

8

Parameterization of the miniPEG-Modified γPNA Backbone: Toward Induced γPNA Duplex Dissociation.

Tamez A, Nilsson L, Mihailescu MR, Evanseck JD. Tamez A, et al. Among authors: evanseck jd. J Chem Theory Comput. 2023 Jun 13;19(11):3346-3358. doi: 10.1021/acs.jctc.2c01163. Epub 2023 May 17. J Chem Theory Comput. 2023. PMID: 37195939 Free PMC article.

9

Effect of the SARS-CoV-2 Delta-associated G15U mutation on the s2m element dimerization and its interactions with miR-1307-3p.

Cunningham CL, Frye CJ, Makowski JA, Kensinger AH, Shine M, Milback EJ, Lackey PE, Evanseck JD, Mihailescu MR. Cunningham CL, et al. Among authors: evanseck jd. bioRxiv [Preprint]. 2023 Feb 10:2023.02.10.528014. doi: 10.1101/2023.02.10.528014. bioRxiv. 2023. PMID: 36798421 Free PMC article. Updated. Preprint.

10

Structural, Dynamical, and Entropic Differences between SARS-CoV and SARS-CoV-2 s2m Elements Using Molecular Dynamics Simulations.

Kensinger AH, Makowski JA, Pellegrene KA, Imperatore JA, Cunningham CL, Frye CJ, Lackey PE, Mihailescu MR, Evanseck JD. Kensinger AH, et al. Among authors: evanseck jd. ACS Phys Chem Au. 2022 Oct 4;3(1):30-43. doi: 10.1021/acsphyschemau.2c00032. eCollection 2023 Jan 25. ACS Phys Chem Au. 2022. PMID: 36711027 Free PMC article.

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