On the Accuracy of QM/MM Models: A Systematic Study of Intramolecular Proton Transfer Reactions of Amino Acids in Water

2021 ◽  
Author(s):  
Junbo Chen ◽  
Jin Kato ◽  
Jason B. Harper ◽  
Yihan Shao ◽  
Junming Ho
Keyword(s):  
Amino Acids ◽  
Proton Transfer ◽  
Systematic Study ◽  
Intramolecular Proton Transfer ◽  
Transfer Reactions ◽  
Proton Transfer Reactions

scholarly journals Ultrafast intramolecular proton transfer reactions and solvation dynamics of DMSO

2019 ◽  
Vol 6 (6) ◽  
pp. 064901 ◽  
Author(s):  
Myungsam Jen ◽  
Kooknam Jeon ◽  
Sebok Lee ◽  
Sunjoo Hwang ◽  
Won-jin Chung ◽  
...  
Keyword(s):  
Proton Transfer ◽  
Intramolecular Proton Transfer ◽  
Transfer Reactions ◽  
Solvation Dynamics ◽  
Proton Transfer Reactions

Kinetics of proton-transfer reactions of amino acids and simple polypeptides

1968 ◽  
Vol 90 (25) ◽  
pp. 6909-6913 ◽  
Author(s):  
Kenneth R. Applegate ◽  
Leon J. Slutsky ◽  
Richard C. Parker
Keyword(s):  
Amino Acids ◽  
Proton Transfer ◽  
Transfer Reactions ◽  
Proton Transfer Reactions ◽  
Kinetics Of

The effect of water-mediated catalysis on the intramolecular proton-transfer reactions of the isomers of 5-chlorouracil: a theoretical study

2019 ◽  
Vol 75 (5) ◽  
pp. 554-561
Author(s):  
Jian Zhang ◽  
Xiu Li
Keyword(s):  
Proton Transfer ◽  
Density Functional ◽  
Dft Method ◽  
Intramolecular Proton Transfer ◽  
Transfer Reactions ◽  
Energy Barriers ◽  
Transfer Energy ◽  
Geometrical Structures ◽  
Proton Transfer Reactions ◽  
Mediated Catalysis

The geometrical structures and thermal energies (E), enthalpies (H) and Gibbs free energies (G) of 13 isomers of 5-chlorouracil (5ClU) in the gas and water phases were investigated using the density functional theory (DFT) method at the M06-2X/6-311++g(3df,3pd) level. The isomers of 5ClU can be microhydrated at different molecular target sites. The mono- and dihydrated forms are the most stable in both the gas and water phases, and, because of the intermolecular interactions, the hydrations lead to a degree of change in the stability trend. Two types of isomerizations were considered: the internal H—O bond rotations in which the H atom rotates 180° around the C—O bond and the intramolecular proton-transfer reactions in which an H atom is transferred between an O atom and a neighbouring N atom. The forward and backward energy barriers for isomerizations of nonhydrated 5ClU were calculated. In addition, 16 optimized transition-state structures for water-mediated catalysis on isomerizations of 5ClU were investigated. The forward and backward proton-transfer energy barriers of water-mediated catalysis on isomerizations of 5ClU were obtained. The results indicate that the catalytic effect of two H2O molecules is much greater than that of one H2O molecule in isomerizations of 5ClU.

Insights on the mechanism of proton transfer reactions in amino acids

2011 ◽  
Vol 13 (17) ◽  
pp. 7773 ◽  
Author(s):  
Fernanda Duarte ◽  
Esteban Vöhringer-Martinez ◽  
Alejandro Toro-Labbé
Keyword(s):  
Amino Acids ◽  
Proton Transfer ◽  
Transfer Reactions ◽  
Proton Transfer Reactions
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