The existence of pre- and post-reaction complexes has been proposed to influence hydrogen abstraction reaction kinetics, but the significance still remains controversial. A theoretical study is presented to discuss the effects of complexes on hydrogen abstraction from 2-butanone by OH radicals based on the detailed PESs at the DLPNO-CCSD(T)/aug-cc-pVTZ//M06-2x-D3/may-cc-pVTZ level with five pre-reaction complexes at the entrance of the channels and four post-reaction complexes at the exit. The hydrogen bond interactions, steric effects, and contributions to the bonding orbital of the OH radical species and 2-butanone species in the complex structures were visualized and investigated by wavefunction analyses. Three kinds of mechanisms-the general bimolecular reaction, the reaction with the complexes considered, and the well-skipping reaction-were compared based on high-pressure-limit rate constants, predicted branching ratios, and fractional populations of reactants and products in the temperature range of 250-2000 K. The existence of complexes was proved to be crucial in the kinetics and mechanisms of the hydrogen abstraction from 2-butanone molecules by OH radicals.
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http://dx.doi.org/10.1039/d0ra05332e | DOI Listing |
Adv Sci (Weinh)
January 2025
Center of Super-Diamond and Advanced Films (COSDAF) and Department of Chemistry, City University of Hong Kong, Hong Kong SAR, 999077, P. R. China.
A new aggregation-induced emission (AIE) luminogen is obtained by dimerizing acridin-9(10H)-one (Ac), an aggregation-caused quenching (ACQ) effect monomer via an N─N bond and forming 9H,9'H-[10,10'-biacridine]-9,9'-dione (DiAc) with D symmetry. The quenching of DiAc in solution is ascribed to the enhanced basicity promoting hydrogen bonding and then a hydrogen abstraction (HA) reaction and/or an unallowed transition in frontier orbitals with the same symmetry facilitating intersystem crossing. It is found that emissive Ac is one product of the non-emissive DiAc solution in the HA reaction activated by UV irradiation.
View Article and Find Full Text PDFSci Rep
January 2025
Department of Physical Chemistry, Gdańsk University of Technology, Narutowicza 11/12, Gdańsk, 80-233, Poland.
The study investigated the degradation of 3-methoxy-1-propanol (3M1P) by OH using the M06-2X/6-311++G(d, p) level, with CCSD(T) single-point corrections. We focused on hydrogen atom abstraction from various alkyl groups within the molecule. The rate coefficient for 3M1P degradation was calculated from the sum of the rate coefficients corresponding to the removal of H-atoms from primary (-CH), secondary (-CH-), tertiary (-CH< ), and alcohol (-ΟH) groups.
View Article and Find Full Text PDFJ Am Soc Mass Spectrom
January 2025
Suntory Institute for Bioorganic Research, Suntory Foundation for Life Sciences, 8-1-1 Seikadai, Seika-Cho, Soraku-Gun, Kyoto 619-0284 Japan.
In this study, we analyzed purine derivatives using multimatrix variation matrix-assisted laser desorption ionization mass spectrometry (MALDI MS) with α-cyano-4-hydroxycinnamic acid (CHCA), 1,5-diaminonaphtalene (DAN), 5-formylsalicylic acid (FSA), and 5-nitrosalicylic acid (NSA) as matrices. Further, we focused on the abstraction/attachment of hydrogen from/to analytes and detected [M - H], [M + 2H] and/or [M + 3H] in MALDI MS spectra of compounds containing nitrogen and/or carbonyl oxygen. Although [M - H] generation of purine compounds in MALDI MS with conventional matrices was challenging, NSA-MALDI MS effectively yielded the [M - H]species of purine derivatives compared with CHCA, FSA, and DAN, and the [M - H]/[M + H] ratios reflected their structures, such as the substituting groups and positions.
View Article and Find Full Text PDFJ Mol Model
January 2025
Laboratorio de Química Teórica Computacional (QTC), Facultad de Química y de Farmacia, Pontificia Universidad Católica de Chile, Avenida Vicuña Mackenna 4860, 7820436, Santiago de Chile, Chile.
Context: Dopamine -monooxygenase (D M) is an essential enzyme in the organism that regioselectively converts dopamine into R-norepinephrine, the key step of the reaction, studied in this paper, is a hydrogen atom transfer (HAT) from dopamine to a superoxo complex on D M, forming a hydroperoxo intermediate and dopamine radical. It was found that the formation of a hydrogen bond between dopamine and the D M catalyst strengthens the substrate-enzyme interaction and facilitates the HAT which takes place selectively to give the desired enantiomeric form of the product. Six reactions leading to the hydroperoxo intermediate were analyzed in detail using theoretical and computational tools in order to identify the most probable reaction mechanism.
View Article and Find Full Text PDFPhys Med Biol
January 2025
Department of Oncology Radiation, University of California San Francisco, 1600 Divisadero Street, Suite HM006, San Francisco, California, 94143, UNITED STATES.
To study the effect of dose-rate in the time evolution of chemical yields produced in pure water versus a cellular-like environment for FLASH radiotherapy research. A version of TOPAS-nBio with Tau-Leaping algorithm was used to simulate the homogenous chemistry stage of water radiolysis using three chemical models: 1) liquid water model that considered scavenging of eaq-, H● by dissolved oxygen; 2) Michaels & Hunt model that considered scavenging of ●OH, eaq-, and H● by biomolecules existing in cellular environment; 3) Wardman model that considered model 2) and the chemical repair enzyme glutathione (GHS). H2O2 concentrations at conventional and FLASH dose-rates were compared with published measurements.
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