Literature DB >> 26626662

An Analytical Electrostatic Model for Salt Screened Interactions between Multiple Proteins.

Itay Lotan1, Teresa Head-Gordon1.   

Abstract

We present a new general analytical solution for computing the screened electrostatic interaction between multiple macromolecules of arbitrarily complex charge distributions, assuming they are well described by spherical low dielectric cavities in a higher dielectric medium in the presence of a Debye-Hückel treatment of salt. The benefits to this approach are 3-fold. First, by exploiting multipole expansion theory for the screened Coulomb potential, we can describe direct charge-charge interactions and all significant higher-order cavity polarization effects between low dielectric spherical cavities containing their charges, while treating these higher order terms correctly at all separation distances. Second, our analytical solution is general to arbitrary numbers of macromolecules, is efficient to compute, and can therefore simultaneously provide on-the-fly updates to changes in charge distributions due to protein conformational changes. Third, we can change spatial resolutions of charge description as a function of separation distance without compromising the desired accuracy. While the current formulation describes solutions based on simple spherical geometries, it appears possible to reformulate these electrostatic expressions to smoothly increase spatial resolution back to greater molecular detail of the dielectric boundaries.

Entities:  

Year:  2006        PMID: 26626662     DOI: 10.1021/ct050263p

Source DB:  PubMed          Journal:  J Chem Theory Comput        ISSN: 1549-9618            Impact factor:   6.006


  7 in total

Review 1.  Biomolecular simulation and modelling: status, progress and prospects.

Authors:  Marc W van der Kamp; Katherine E Shaw; Christopher J Woods; Adrian J Mulholland
Journal:  J R Soc Interface       Date:  2008-12-06       Impact factor: 4.118

2.  Improvements to the APBS biomolecular solvation software suite.

Authors:  Elizabeth Jurrus; Dave Engel; Keith Star; Kyle Monson; Juan Brandi; Lisa E Felberg; David H Brookes; Leighton Wilson; Jiahui Chen; Karina Liles; Minju Chun; Peter Li; David W Gohara; Todd Dolinsky; Robert Konecny; David R Koes; Jens Erik Nielsen; Teresa Head-Gordon; Weihua Geng; Robert Krasny; Guo-Wei Wei; Michael J Holst; J Andrew McCammon; Nathan A Baker
Journal:  Protein Sci       Date:  2017-10-24       Impact factor: 6.725

3.  Fast Analytical Methods for Macroscopic Electrostatic Models in Biomolecular Simulations.

Authors:  Zhenli Xu; Wei Cai
Journal:  SIAM Rev Soc Ind Appl Math       Date:  2011-11-07       Impact factor: 10.780

4.  PB-AM: An open-source, fully analytical linear poisson-boltzmann solver.

Authors:  Lisa E Felberg; David H Brookes; Eng-Hui Yap; Elizabeth Jurrus; Nathan A Baker; Teresa Head-Gordon
Journal:  J Comput Chem       Date:  2016-11-02       Impact factor: 3.376

5.  A New and Efficient Poisson-Boltzmann Solver for Interaction of Multiple Proteins.

Authors:  Eng-Hui Yap; Teresa Head-Gordon
Journal:  J Chem Theory Comput       Date:  2010-06-17       Impact factor: 6.006

6.  Rigorous treatment of pairwise and many-body electrostatic interactions among dielectric spheres at the Debye-Hückel level.

Authors:  O I Obolensky; T P Doerr; Yi-Kuo Yu
Journal:  Eur Phys J E Soft Matter       Date:  2021-10-18       Impact factor: 1.890

7.  Manipulating Interactions between Dielectric Particles with Electric Fields: A General Electrostatic Many-Body Framework.

Authors:  Muhammad Hassan; Connor Williamson; Joshua Baptiste; Stefanie Braun; Anthony J Stace; Elena Besley; Benjamin Stamm
Journal:  J Chem Theory Comput       Date:  2022-09-08       Impact factor: 6.578

  7 in total

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