Literature DB >> 26588122

Size-Consistent Multipartitioning QM/MM: A Stable and Efficient Adaptive QM/MM Method.

Hiroshi C Watanabe1,2, Tomáš Kubař2, Marcus Elstner2.   

Abstract

We propose a new adaptive QM/MM method, the size-consistent multipartitioning (SCMP) QM/MM scheme, which enables stable and computationally efficient QM/MM simulations. A number of partitionings with identical size of the QM and the MM regions are considered with a new adaptive scheme in order to (1) realize smooth QM/MM switching, (2) introduce a conserved quantity (total energy, Hamiltonian), (3) avoid spurious artificial forces on the QM/MM border, and (4) allow for an efficient parallel implementation. Benchmark simulations performed for "QM water in MM water" show that energy conservation can be significantly improved and the computational efficiency allows treating also larger QM regions, for which previous methods had to face an intractable increase in computer time.

Entities:  

Year:  2014        PMID: 26588122     DOI: 10.1021/ct5005593

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


  9 in total

1.  Accelerated Computation of Free Energy Profile at Ab Initio Quantum Mechanical/Molecular Mechanics Accuracy via a Semiempirical Reference Potential. 4. Adaptive QM/MM.

Authors:  Jia-Ning Wang; Wei Liu; Pengfei Li; Yan Mo; Wenxin Hu; Jun Zheng; Xiaoliang Pan; Yihan Shao; Ye Mei
Journal:  J Chem Theory Comput       Date:  2021-02-16       Impact factor: 6.006

2.  A Many-Body, Fully Polarizable Approach to QM/MM Simulations.

Authors:  Eleftherios Lambros; Filippo Lipparini; Gerardo Andrés Cisneros; Francesco Paesani
Journal:  J Chem Theory Comput       Date:  2020-11-19       Impact factor: 6.006

3.  Symposium report: understanding biological systems with quantum science and technology.

Authors:  Taro Ichimura; Mutsuo Nuriya
Journal:  Biophys Rev       Date:  2020-02-28

4.  Adaptive-Partitioning Multilayer Dynamics Simulations: 1. On-the-Fly Switch between Two Quantum Levels of Theory.

Authors:  Joani Mato; Adam W Duster; Emilie B Guidez; Hai Lin
Journal:  J Chem Theory Comput       Date:  2021-08-27       Impact factor: 6.578

Review 5.  Implicit Solvation Methods for Catalysis at Electrified Interfaces.

Authors:  Stefan Ringe; Nicolas G Hörmann; Harald Oberhofer; Karsten Reuter
Journal:  Chem Rev       Date:  2021-12-20       Impact factor: 72.087

Review 6.  Review on the QM/MM Methodologies and Their Application to Metalloproteins.

Authors:  Christina Eleftheria Tzeliou; Markella Aliki Mermigki; Demeter Tzeli
Journal:  Molecules       Date:  2022-04-20       Impact factor: 4.927

7.  Explicit Solvation Matters: Performance of QM/MM Solvation Models in Nucleophilic Addition.

Authors:  Jelle M Boereboom; Paul Fleurat-Lessard; Rosa E Bulo
Journal:  J Chem Theory Comput       Date:  2018-03-16       Impact factor: 6.006

8.  Improvement of Performance, Stability and Continuity by Modified Size-Consistent Multipartitioning Quantum Mechanical/Molecular Mechanical Method.

Authors:  Hiroshi C Watanabe
Journal:  Molecules       Date:  2018-07-27       Impact factor: 4.411

9.  Adaptive QM/MM for Molecular Dynamics Simulations: 5. On the Energy-Conserved Permuted Adaptive-Partitioning Schemes.

Authors:  Adam W Duster; Chun-Hung Wang; Hai Lin
Journal:  Molecules       Date:  2018-08-28       Impact factor: 4.411

  9 in total

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