Literature DB >> 17381178

Quantum mechanical energy-based screening of combinatorially generated library of tautomers. TauTGen: a tautomer generator program.

Maciej Harańczyk1, Maciej Gutowski.   

Abstract

We describe a procedure of finding low-energy tautomers of a molecule. The procedure consists of (i) combinatorial generation of a library of tautomers, (ii) screening based on the results of geometry optimization of initial structures performed at the density functional level of theory, and (iii) final refinement of geometry for the top hits at the second-order Möller-Plesset level of theory followed by single-point energy calculations at the coupled cluster level of theory with single, double, and perturbative triple excitations. The library of initial structures of various tautomers is generated with TauTGen, a tautomer generator program. The procedure proved to be successful for these molecular systems for which common chemical knowledge had not been sufficient to predict the most stable structures.

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Year:  2007        PMID: 17381178     DOI: 10.1021/ci6002703

Source DB:  PubMed          Journal:  J Chem Inf Model        ISSN: 1549-9596            Impact factor:   4.956


  7 in total

1.  Towards the comprehensive, rapid, and accurate prediction of the favorable tautomeric states of drug-like molecules in aqueous solution.

Authors:  Jeremy R Greenwood; David Calkins; Arron P Sullivan; John C Shelley
Journal:  J Comput Aided Mol Des       Date:  2010-03-31       Impact factor: 3.686

2.  Solvation free energies of molecules. The most stable anionic tautomers of uracil.

Authors:  Maciej Haranczyk; Maciej Gutowski; Arieh Warshel
Journal:  Phys Chem Chem Phys       Date:  2008-06-11       Impact factor: 3.676

3.  Accelerating QM/MM free energy calculations: representing the surroundings by an updated mean charge distribution.

Authors:  Edina Rosta; Maciej Haranczyk; Zhen T Chu; Arieh Warshel
Journal:  J Phys Chem B       Date:  2008-04-16       Impact factor: 2.991

4.  Combinatorial-computational-chemoinformatics (C3) approach to finding and analyzing low-energy tautomers.

Authors:  Maciej Haranczyk; Maciej Gutowski
Journal:  J Comput Aided Mol Des       Date:  2010-04-02       Impact factor: 3.686

5.  Assessment of tautomer distribution using the condensed reaction graph approach.

Authors:  T R Gimadiev; T I Madzhidov; R I Nugmanov; I I Baskin; I S Antipin; A Varnek
Journal:  J Comput Aided Mol Des       Date:  2018-01-29       Impact factor: 3.686

Review 6.  Progress in ab initio QM/MM free-energy simulations of electrostatic energies in proteins: accelerated QM/MM studies of pKa, redox reactions and solvation free energies.

Authors:  Shina C L Kamerlin; Maciej Haranczyk; Arieh Warshel
Journal:  J Phys Chem B       Date:  2009-02-05       Impact factor: 2.991

7.  Bound anionic states of adenine.

Authors:  Maciej Harańczyk; Maciej Gutowski; Xiang Li; Kit H Bowen
Journal:  Proc Natl Acad Sci U S A       Date:  2007-03-12       Impact factor: 11.205

  7 in total

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