Second-Shell Residues Contribute to Catalysis by Predominately Preorganizing the Apo State in PafA - PubMed
- ️Sun Jan 01 2023
Harnessing generative AI to decode enzyme catalysis and evolution for enhanced engineering.
Xie WJ, Warshel A. Xie WJ, et al. Natl Sci Rev. 2023 Dec 28;10(12):nwad331. doi: 10.1093/nsr/nwad331. eCollection 2023 Dec. Natl Sci Rev. 2023. PMID: 38299119 Free PMC article. Review.
CHARMM at 45: Enhancements in Accessibility, Functionality, and Speed.
Hwang W, Austin SL, Blondel A, Boittier ED, Boresch S, Buck M, Buckner J, Caflisch A, Chang HT, Cheng X, Choi YK, Chu JW, Crowley MF, Cui Q, Damjanovic A, Deng Y, Devereux M, Ding X, Feig MF, Gao J, Glowacki DR, Gonzales JE 2nd, Hamaneh MB, Harder ED, Hayes RL, Huang J, Huang Y, Hudson PS, Im W, Islam SM, Jiang W, Jones MR, Käser S, Kearns FL, Kern NR, Klauda JB, Lazaridis T, Lee J, Lemkul JA, Liu X, Luo Y, MacKerell AD Jr, Major DT, Meuwly M, Nam K, Nilsson L, Ovchinnikov V, Paci E, Park S, Pastor RW, Pittman AR, Post CB, Prasad S, Pu J, Qi Y, Rathinavelan T, Roe DR, Roux B, Rowley CN, Shen J, Simmonett AC, Sodt AJ, Töpfer K, Upadhyay M, van der Vaart A, Vazquez-Salazar LI, Venable RM, Warrensford LC, Woodcock HL, Wu Y, Brooks CL 3rd, Brooks BR, Karplus M. Hwang W, et al. J Phys Chem B. 2024 Oct 17;128(41):9976-10042. doi: 10.1021/acs.jpcb.4c04100. Epub 2024 Sep 20. J Phys Chem B. 2024. PMID: 39303207 Free PMC article. Review.
Harnessing Generative AI to Decode Enzyme Catalysis and Evolution for Enhanced Engineering.
Xie WJ, Warshel A. Xie WJ, et al. bioRxiv [Preprint]. 2023 Oct 12:2023.10.10.561808. doi: 10.1101/2023.10.10.561808. bioRxiv. 2023. PMID: 37873334 Free PMC article. Updated. Preprint.