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Zhu X, Chen Z, Ai H. Mechanistic insight into the tautomerization of histidine initiated by water-catalyzed N-H and C-H cleavages. J Mol Model 2022; 28:325. [PMID: 36136156 DOI: 10.1007/s00894-022-05222-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/24/2022] [Accepted: 07/12/2022] [Indexed: 10/14/2022]
Abstract
The N-H and C-H activation is of great significance in organic chemistry and chemical industry fields, especially, in the utilization of petroleum raw materials. High NδH (tautomer of natural histidine) content would increase Alzheimer's disease risk. To inhibit this and improve the activation of N-H and C-H bonds, the isomerization mechanism from NδH to NεH of histidine-containing dipeptide catalyzed by water cluster was explored. The results discovered that water cluster assists this reaction by reducing the activation energies from 68.20 to 9.60 kcal mol-1, and its size not only affects the reaction rate but also determines the reaction pathway in a degree. Moreover, water cluster, taken as a potential green catalyst, is more effective on the reactions involving N-H and C-H bond cleavages than reported common toxic organometallic compounds and has different catalytic mechanisms. This work also provides some theoretical guidance for the modulation of Alzheimer's disease induced by histidine isomerization.
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Affiliation(s)
- Xueying Zhu
- School of Chemistry and Chemical Engineering, University of Jinan, Jinan, 250022, People's Republic of China.
| | - Zijiao Chen
- Institute of Science and Technology, Xinjiang University, Aksu, 843100, People's Republic of China
| | - Hongqi Ai
- School of Chemistry and Chemical Engineering, University of Jinan, Jinan, 250022, People's Republic of China.
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Bejarano CA, Díaz JE, Cifuentes-López A, López LV, Jaramillo-Gómez LM, Buendia-Atencio C, Lorett Velásquez VP, Mejía SM, Loaiza AE. Experimental and theoretical study of the mechanism and rate constants of the sequential 5- exo-trig spirocyclization involving vinyl, aryl and N-alkoxyaminyl radicals. Org Biomol Chem 2022; 20:4141-4154. [PMID: 35521783 DOI: 10.1039/d2ob00387b] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
In this research the sequential generation and cyclization of N-alkoxyaminyl radicals to produce 1-azaspiro[4.4]nonane, a prominent scaffold in organic and medicinal chemistry, was studied. Competition experiments in benzene at 80 °C with brominated oxime ethers using Bu3SnH as chain transfer and AIBN as the initiator generated vinyl or aryl radicals which were captured by oxime ethers, allowing approximate 5-exo-trig cyclization constants at 4.6 × 108 s-1 and 9.9 × 108 s-1 respectively to be established. Similar results were obtained by kinetic studies using the transition state theory (TST) from ab initio calculations with density functional theory (DFT) using the M06-2X, B3LYP, mPW1PW91 and TPSSh functionals in combination with the 6-311+G(d, p) basis set. Additionally, it was found that the 5-exo-trig cyclization of the N-alkoxyaminyl radical onto CC double bonds is a reversible process whose constants were determined to be in the range of 6.2 × 100 s-1 and 3.5 × 106 s-1 at 80 °C, depending on the nature of the substituents. The calculation of the radical stabilization energy (RSE) shows that the N-alkoxyaminyl radical is a very stable species and its reactivity in the addition on alkenes is governed by its nucleophilic character and the stability of the carbon-centered radical formed after cyclization. The reduction constant of the N-alkoxyaminyl radical with Bu3SnH in the gas phase at 80 °C was also estimated to be 3.4 × 100 M-1 s-1 through computational calculations. This information facilitates the rational planning of cascades and other methodologies applied to the construction of carbocyclic and aza-heterocyclic compounds.
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Affiliation(s)
- Carlos A Bejarano
- Departamento de Química, Facultad de Ciencias, Pontificia Universidad Javeriana, Bogotá 11001000, Colombia. .,Departamento de Química, Facultad de Ciencias, Universidad Antonio Nariño, Bogotá 110231, Colombia
| | - John E Díaz
- Departamento de Química, Facultad de Ciencias, Pontificia Universidad Javeriana, Bogotá 11001000, Colombia.
| | | | - Lina V López
- Departamento de Química, Facultad de Ciencias, Pontificia Universidad Javeriana, Bogotá 11001000, Colombia.
| | - Luz M Jaramillo-Gómez
- Departamento de Química, Facultad de Ciencias, Universidad del Valle, Cali 760032, Colombia
| | - Cristian Buendia-Atencio
- Departamento de Química, Facultad de Ciencias, Universidad Antonio Nariño, Bogotá 110231, Colombia
| | | | - Sol M Mejía
- Departamento de Química, Facultad de Ciencias, Pontificia Universidad Javeriana, Bogotá 11001000, Colombia.
| | - Alix E Loaiza
- Departamento de Química, Facultad de Ciencias, Pontificia Universidad Javeriana, Bogotá 11001000, Colombia.
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Li R, Yang X. Mechanistic insights into the α-branched amine formation with pivalic acid assisted C-H bond activation catalysed by Cp*Rh complexes. Dalton Trans 2021; 50:12888-12895. [PMID: 34581328 DOI: 10.1039/d1dt01890f] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Density functional theory computations revealed a pivalic acid assisted C-H bond activation mechanism for rhodium catalyzed formation of α-branched amines with C-C and C-N bond couplings. The reaction energies of the [Cp*RhCl2]2 dimer and silver cations indicate that the Cp*RhCl+ cation is the active catalyst. The essential role of pivalic acid is a co-catalyst for the activation of the ortho-C(sp2)-H bond in phenyl(pyrrolidin-1-yl)methanone, while the reaction of NaHCO3 and HCl reduces the overall barrier of the catalytic cycle. In the presence of both pivalic acid and NaHCO3 in the reaction, the C(sp2)-H bond is activated through a concerted metallation deprotonation process, and the C-C bond coupling is the rate-determining step with a total free energy barrier of 23.9 kcal mol-1. Without pivalic acid and NaHCO3, the C(sp2)-H bond can only be activated through a σ-bond metathesis process and the free energy barrier increases to 32.2 kcal mol-1. We also investigated the mechanisms of a side reaction for β-branched amine formation and the reaction without styrene and found that their free energy barriers are 33.4 and 30.5 kcal mol-1, respectively.
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Affiliation(s)
- Rongrong Li
- State Key Laboratory for Structural Chemistry of Unstable and Stable Species, Institute of Chemistry Chinese Academy of Sciences, Beijing 100190, P. R. China. .,University of Chinese Academy of Sciences, Beijing 100049, P. R. China.,Beijing National Laboratory for Molecular Sciences, CAS Research/Education Center for Excellence in Molecular Sciences, Beijing 100190, P. R. China
| | - Xinzheng Yang
- State Key Laboratory for Structural Chemistry of Unstable and Stable Species, Institute of Chemistry Chinese Academy of Sciences, Beijing 100190, P. R. China. .,University of Chinese Academy of Sciences, Beijing 100049, P. R. China.,Beijing National Laboratory for Molecular Sciences, CAS Research/Education Center for Excellence in Molecular Sciences, Beijing 100190, P. R. China.,Department of Chemistry, University of Washington, Seattle, WA 98195, USA
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Li X, Ren X, Wu H, Zhao W, Tang X, Huang G. Mechanism and selectivity of copper-catalyzed borocyanation of 1-aryl-1,3-butadienes: A computational study. CHINESE CHEM LETT 2021. [DOI: 10.1016/j.cclet.2020.11.045] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/13/2023]
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