Literature DB >> 25415885

Ab initio molecular dynamics study of the mechanism of proton recombination with a weak base.

Jérôme Cuny1, Ali A Hassanali.   

Abstract

Despite its fundamental nature, many of the microscopic features of acid–base recombination remain poorly understood. In this work, we use ab initio molecular dynamics simulations to study the recombination of the proton with a weak base, the carbonate ion CO3(2–). Our simulations elucidate the network structure around CO3(2–) that provides a distribution of pathways over which recombination can occur. We observe that the penultimate neutralization step involves a correlated behavior of the transferred protons that is mediated by the water wires decorating the carbonate. These concerted proton transfers are coupled to collective compressions of these water wires. We show further that these processes are dynamically coupled to the reorganization of the water molecules hydrating the CO3(2–) ion. The insights from these simulations help to bridge the structural and dynamical complexity of the microscopic mechanisms with those of phenomenological models invoked by experiments in this field.

Entities:  

Mesh:

Substances:

Year:  2014        PMID: 25415885     DOI: 10.1021/jp507246e

Source DB:  PubMed          Journal:  J Phys Chem B        ISSN: 1520-5207            Impact factor:   2.991


  7 in total

1.  Local initiation conditions for water autoionization.

Authors:  Mahmoud Moqadam; Anders Lervik; Enrico Riccardi; Vishwesh Venkatraman; Bjørn Kåre Alsberg; Titus S van Erp
Journal:  Proc Natl Acad Sci U S A       Date:  2018-04-30       Impact factor: 11.205

2.  Protonation and electronic structure of 2,6-dichlorophenolindophenolate during reduction. A theoretical study including explicit solvent.

Authors:  Michal Malček; Lukáš Bučinský; Zuzana Barbieriková; Sandra Dorotíková; Dana Dvoranová; Vlasta Brezová; Peter Rapta; Stanislav Biskupič
Journal:  J Mol Model       Date:  2016-09-29       Impact factor: 1.810

Review 3.  Protons and Hydroxide Ions in Aqueous Systems.

Authors:  Noam Agmon; Huib J Bakker; R Kramer Campen; Richard H Henchman; Peter Pohl; Sylvie Roke; Martin Thämer; Ali Hassanali
Journal:  Chem Rev       Date:  2016-06-17       Impact factor: 60.622

4.  Short hydrogen bonds enhance nonaromatic protein-related fluorescence.

Authors:  Amberley D Stephens; Muhammad Nawaz Qaisrani; Michael T Ruggiero; Gonzalo Díaz Mirón; Uriel N Morzan; Mariano C González Lebrero; Saul T E Jones; Emiliano Poli; Andrew D Bond; Philippa J Woodhams; Elyse M Kleist; Luca Grisanti; Ralph Gebauer; J Axel Zeitler; Dan Credgington; Ali Hassanali; Gabriele S Kaminski Schierle
Journal:  Proc Natl Acad Sci U S A       Date:  2021-05-25       Impact factor: 12.779

5.  A computational study on how structure influences the optical properties in model crystal structures of amyloid fibrils.

Authors:  Luca Grisanti; Dorothea Pinotsi; Ralph Gebauer; Gabriele S Kaminski Schierle; Ali A Hassanali
Journal:  Phys Chem Chem Phys       Date:  2017-02-01       Impact factor: 3.945

6.  Hydrogen Bonds and Life in the Universe.

Authors:  Giovanni Vladilo; Ali Hassanali
Journal:  Life (Basel)       Date:  2018-01-03

7.  Correlated dynamics in aqueous proton diffusion.

Authors:  Sean A Fischer; Brett I Dunlap; Daniel Gunlycke
Journal:  Chem Sci       Date:  2018-07-30       Impact factor: 9.825

  7 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.