Literature DB >> 14746502

Hydration structure and free energy of biomolecularly specific aqueous dications, including Zn2+ and first transition row metals.

D Asthagiri1, Lawrence R Pratt, Michael E Paulaitis, Susan B Rempe.   

Abstract

The hydration of some of the alkaline earth divalent metal cations and first row transition metal cations is considered within the quasi-chemical theory of solutions. Quantum chemical calculations provide information on the chemically important interactions between the ion and its first-shell water molecules. A dielectric continuum model supplies the outer-shell contribution. The theory then provides the framework to mesh these quantities together. The agreement between the calculated and experimental quantities is good. For the transition metal cations, it is seen that the ligand field contributions play an important role in the physics of hydration. Removing these bonding contributions from the computed hydration free energy results in a linear decrease in the hydration free energy along the period. It is precisely such effects that molecular mechanics force fields have not captured. The implications and extensions of this study to metal atoms in proteins are suggested.

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Year:  2004        PMID: 14746502     DOI: 10.1021/ja0382967

Source DB:  PubMed          Journal:  J Am Chem Soc        ISSN: 0002-7863            Impact factor:   15.419


  17 in total

1.  Ab initio molecular dynamics and quasichemical study of H+(aq).

Authors:  D Asthagiri; L R Pratt; J D Kress
Journal:  Proc Natl Acad Sci U S A       Date:  2005-04-14       Impact factor: 11.205

2.  Calcium block of single sodium channels: role of a pore-lining aromatic residue.

Authors:  Vincent P Santarelli; Amy L Eastwood; Dennis A Dougherty; Christopher A Ahern; Richard Horn
Journal:  Biophys J       Date:  2007-06-01       Impact factor: 4.033

3.  Ab initio molecular dynamics calculations of ion hydration free energies.

Authors:  Kevin Leung; Susan B Rempe; O Anatole von Lilienfeld
Journal:  J Chem Phys       Date:  2009-05-28       Impact factor: 3.488

4.  Distinguishing thermodynamic and kinetic views of the preferential hydration of protein surfaces.

Authors:  M Hamsa Priya; J K Shah; D Asthagiri; M E Paulaitis
Journal:  Biophys J       Date:  2008-05-30       Impact factor: 4.033

5.  Probing the thermodynamics of competitive ion binding using minimum energy structures.

Authors:  David M Rogers; Susan B Rempe
Journal:  J Phys Chem B       Date:  2011-07-01       Impact factor: 2.991

Review 6.  Biomolecular electrostatics and solvation: a computational perspective.

Authors:  Pengyu Ren; Jaehun Chun; Dennis G Thomas; Michael J Schnieders; Marcelo Marucho; Jiajing Zhang; Nathan A Baker
Journal:  Q Rev Biophys       Date:  2012-11       Impact factor: 5.318

7.  Separating the role of protein restraints and local metal-site interaction chemistry in the thermodynamics of a zinc finger protein.

Authors:  Purushottam D Dixit; D Asthagiri
Journal:  Biophys J       Date:  2011-09-20       Impact factor: 4.033

8.  Molecular dynamics approaches estimate the binding energy of HIV-1 integrase inhibitors and correlate with in vitro activity.

Authors:  Barry C Johnson; Mathieu Métifiot; Yves Pommier; Stephen H Hughes
Journal:  Antimicrob Agents Chemother       Date:  2011-10-28       Impact factor: 5.191

9.  Taking into Account the Ion-induced Dipole Interaction in the Nonbonded Model of Ions.

Authors:  Pengfei Li; Kenneth M Merz
Journal:  J Chem Theory Comput       Date:  2014-01-14       Impact factor: 6.006

10.  Explicitly representing the solvation shell in continuum solvent calculations.

Authors:  Eirik F da Silva; Hallvard F Svendsen; Kenneth M Merz
Journal:  J Phys Chem A       Date:  2009-06-04       Impact factor: 2.781

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