Preprints:
D. F. Muir, G. P. R. Asper, P. Notin, J. A. Posner, D. S. Marks, M. J. Keiser, M. M. Pinney, Evolutionary-Scale Enzymology Enables Biochemical Constant Prediction Across a Multi-Peaked Catalytic Landscape. bioRxiv doi: 10.1101/2024.10.23.619915 (2024).

S. Du, R. C. Kretsch, J. Parres-Gold, E. Pieri, V. W. D. Cruzeiro, M. Zhu, M. M. Pinney, F. Yabukarski, J. P. Schwans, T. J. Martínez, D. Herschlag, Conformational Ensembles Reveal the Origins of Serine Protease Catalysis. bioRxiv, doi: 10.1101/2024.02.28.582624 (2024).

Pinney MM, Mokhtari DA, Akiva E, Yabukarski F, Sanchez DM, Liang R, Doukov T, Martinez TJ, Babbitt PC, Herschlag D. Parallel molecular mechanisms for enzyme temperature adaptation. Science. 2021 Mar 5;371(6533). doi: 10.1126/science.aay2784. PubMed PMID: 33674467.

Yabukarski F, Biel JT, Pinney MM, Doukov T, Powers AS, Fraser JS, Herschlag D. Assessment of enzyme active site positioning and tests of catalytic mechanisms through X-ray-derived conformational ensembles. Proc Natl Acad Sci U S A. 2020 Dec 29;117(52):33204-33215. doi: 10.1073/pnas.2011350117. Epub 2020 Dec 21. PubMed PMID: 33376217; PubMed Central PMCID: PMC7776779.

Komaki Y, Simpson AM, Choe JK, Pinney MM, Herschlag D, Chuang YH, Mitch WA. Serum electrolytes can promote hydroxyl radical-initiated biomolecular damage from inflammation. Free Radic Biol Med. 2019 Sep;141:475-482. doi: 10.1016/j.freeradbiomed.2019.07.023. Epub 2019 Jul 23. PubMed PMID: 31349038.

Pinney MM, Natarajan A, Yabukarski F, Sanchez DM, Liu F, Liang R, Doukov T, Schwans JP, Martinez TJ, Herschlag D. Structural Coupling Throughout the Active Site Hydrogen Bond Networks of Ketosteroid Isomerase and Photoactive Yellow Protein. J Am Chem Soc. 2018 Aug 8;140(31):9827-9843. doi: 10.1021/jacs.8b01596. Epub 2018 Jul 27. PubMed PMID: 29990421.

Herschlag D, Pinney MM. Hydrogen Bonds: Simple after All?. Biochemistry. 2018 Jun 19;57(24):3338-3352. doi: 10.1021/acs.biochem.8b00217. Epub 2018 May 16. Review. PubMed PMID: 29678112.

Lamba V, Yabukarski F, Pinney M, Herschlag D. Evaluation of the Catalytic Contribution from a Positioned General Base in Ketosteroid Isomerase. J Am Chem Soc. 2016 Aug 10;138(31):9902-9. doi: 10.1021/jacs.6b04796. Epub 2016 Jul 27. PubMed PMID: 27410422.

Saouma CT, Pinney MM, Mayer JM. Electron transfer and proton-coupled electron transfer reactivity and self-exchange of synthetic [2Fe-2S] complexes: models for Rieske and mitoNEET clusters. Inorg Chem. 2014 Mar 17;53(6):3153-61. doi: 10.1021/ic403131p. Epub 2014 Mar 4. PubMed PMID: 24592857; PubMed Central PMCID: PMC3993882.