Strodel B - Search Results

1

Markov models for the elucidation of allosteric regulation.

Sengupta U, Strodel B. Sengupta U, et al. Among authors: strodel b. Philos Trans R Soc Lond B Biol Sci. 2018 Jun 19;373(1749):20170178. doi: 10.1098/rstb.2017.0178. Philos Trans R Soc Lond B Biol Sci. 2018. PMID: 29735732 Free PMC article. Review.

2

Early amyloid β-protein aggregation precedes conformational change.

Barz B, Olubiyi OO, Strodel B. Barz B, et al. Among authors: strodel b. Chem Commun (Camb). 2014 May 25;50(40):5373-5. doi: 10.1039/c3cc48704k. Epub 2014 Jan 27. Chem Commun (Camb). 2014. PMID: 24471163

3

Investigating Structure and Dynamics of Atg8 Family Proteins.

Weiergräber OH, Schwarten M, Strodel B, Willbold D. Weiergräber OH, et al. Among authors: strodel b. Methods Enzymol. 2017;587:115-142. doi: 10.1016/bs.mie.2016.09.056. Epub 2016 Dec 1. Methods Enzymol. 2017. PMID: 28253952 Review.

4

Loop Motion in Triosephosphate Isomerase Is Not a Simple Open and Shut Case.

Liao Q, Kulkarni Y, Sengupta U, Petrović D, Mulholland AJ, van der Kamp MW, Strodel B, Kamerlin SCL. Liao Q, et al. Among authors: strodel b. J Am Chem Soc. 2018 Nov 21;140(46):15889-15903. doi: 10.1021/jacs.8b09378. Epub 2018 Nov 8. J Am Chem Soc. 2018. PMID: 30362343 Free article.

5

Automated Markov state models for molecular dynamics simulations of aggregation and self-assembly.

Sengupta U, Carballo-Pacheco M, Strodel B. Sengupta U, et al. Among authors: strodel b. J Chem Phys. 2019 Mar 21;150(11):115101. doi: 10.1063/1.5083915. J Chem Phys. 2019. PMID: 30901988

6

Performance of Markov State Models and Transition Networks on Characterizing Amyloid Aggregation Pathways from MD Data.

Illig AM, Strodel B. Illig AM, et al. Among authors: strodel b. J Chem Theory Comput. 2020 Dec 8;16(12):7825-7839. doi: 10.1021/acs.jctc.0c00727. Epub 2020 Nov 24. J Chem Theory Comput. 2020. PMID: 33233894

7

Molecular simulations of IDPs: From ensemble generation to IDP interactions leading to disorder-to-order transitions.

Fatafta H, Samantray S, Sayyed-Ahmad A, Coskuner-Weber O, Strodel B. Fatafta H, et al. Among authors: strodel b. Prog Mol Biol Transl Sci. 2021;183:135-185. doi: 10.1016/bs.pmbts.2021.06.003. Epub 2021 Jul 29. Prog Mol Biol Transl Sci. 2021. PMID: 34656328

8

Molecular Dynamics Simulations of Protein Aggregation: Protocols for Simulation Setup and Analysis with Markov State Models and Transition Networks.

Samantray S, Schumann W, Illig AM, Carballo-Pacheco M, Paul A, Barz B, Strodel B. Samantray S, et al. Among authors: strodel b. Methods Mol Biol. 2022;2340:235-279. doi: 10.1007/978-1-0716-1546-1_12. Methods Mol Biol. 2022. PMID: 35167078

9

Protein structure prediction using global optimization by basin-hopping with NMR shift restraints.

Hoffmann F, Strodel B. Hoffmann F, et al. Among authors: strodel b. J Chem Phys. 2013 Jan 14;138(2):025102. doi: 10.1063/1.4773406. J Chem Phys. 2013. PMID: 23320726

10

A kinetic approach to the sequence-aggregation relationship in disease-related protein assembly.

Barz B, Wales DJ, Strodel B. Barz B, et al. Among authors: strodel b. J Phys Chem B. 2014 Jan 30;118(4):1003-11. doi: 10.1021/jp412648u. Epub 2014 Jan 17. J Phys Chem B. 2014. PMID: 24401100 Free PMC article.

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