Literature DB >> 32534547

Kinetic pathways of water exchange in the first hydration shell of magnesium.

Nadine Schwierz1.   

Abstract

Water exchange between the coordination shells of metal cations in aqueous solutions is fundamental in understanding their role in biochemical processes. Despite the importance, the microscopic mechanism of water exchange in the first hydration shell of Mg2+ has not been resolved since the exchange dynamics is out of reach for conventional all-atom simulations. To overcome this challenge, transition path sampling is applied to resolve the kinetic pathways, to characterize the reaction mechanism and to provide an accurate estimate of the exchange rate. The results reveal that water exchange involves the concerted motion of two exchanging water molecules and the collective rearrangement of all water molecules in the first hydration shell. Using a recently developed atomistic model for Mg2+, water molecules remain in the first hydration shell for about 40 ms, a time considerably longer compared to the 0.1 ms predicted by transition state theory based on the coordinates of a single water molecule. The discrepancy between these timescales arises from the neglected degrees of freedom of the second exchanging water molecule that plays a decisive role in the reaction mechanism. The approach presented here contributes molecular insights into the dynamics of water around metal cations and provides the basis for developing accurate atomistic models or for understanding complex biological processes involving metal cations.

Entities:  

Year:  2020        PMID: 32534547     DOI: 10.1063/1.5144258

Source DB:  PubMed          Journal:  J Chem Phys        ISSN: 0021-9606            Impact factor:   3.488


  6 in total

1.  Systematic Evaluation of Ion Diffusion and Water Exchange.

Authors:  Zhen Li; Kenneth M Merz
Journal:  J Chem Theory Comput       Date:  2022-04-14       Impact factor: 6.578

2.  Optimized Magnesium Force Field Parameters for Biomolecular Simulations with Accurate Solvation, Ion-Binding, and Water-Exchange Properties in SPC/E, TIP3P-fb, TIP4P/2005, TIP4P-Ew, and TIP4P-D.

Authors:  Kara K Grotz; Nadine Schwierz
Journal:  J Chem Theory Comput       Date:  2021-12-09       Impact factor: 6.006

3.  Artificial Intelligence Resolves Kinetic Pathways of Magnesium Binding to RNA.

Authors:  Jan Neumann; Nadine Schwierz
Journal:  J Chem Theory Comput       Date:  2022-01-27       Impact factor: 6.006

4.  Stochastic Model of Solvent Exchange in the First Coordination Shell of Aqua Ions.

Authors:  Luca Sagresti; Lorenzo Peri; Giacomo Ceccarelli; Giuseppe Brancato
Journal:  J Chem Theory Comput       Date:  2022-04-26       Impact factor: 6.006

5.  Sodium and Magnesium Ion Location at the Backbone and at the Nucleobase of RNA: Ab Initio Molecular Dynamics in Water Solution.

Authors:  Stefan K Kolev; Petko St Petkov; Teodor I Milenov; Georgi N Vayssilov
Journal:  ACS Omega       Date:  2022-06-23

6.  Hydrogen-Bond Structure and Low-Frequency Dynamics of Electrolyte Solutions: Hydration Numbers from ab Initio Water Reorientation Dynamics and Dielectric Relaxation Spectroscopy.

Authors:  Seonmyeong Kim; Xiangwen Wang; Jeongmin Jang; Kihoon Eom; Simon L Clegg; Gun-Sik Park; Devis Di Tommaso
Journal:  Chemphyschem       Date:  2020-09-30       Impact factor: 3.102

  6 in total

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