Literature DB >> 26596459

Efficient Handling of Molecular Flexibility in Lattice Energy Minimization of Organic Crystals.

A V Kazantsev1, P G Karamertzanis1, C S Adjiman1, C C Pantelides1.   

Abstract

This paper presents a novel algorithm, CrystalOptimizer, for the minimization of the lattice energy of crystals formed by flexible molecules. The algorithm employs isolated-molecule quantum mechanical (QM) calculations of the intramolecular energy and conformation-dependent atomic multipoles in the course of the lattice energy minimization. The algorithm eliminates the need to perform QM calculations at each iteration of the minimization by using Local Approximate Models (LAMs), with a minimal impact on accuracy. Additional computational efficiencies are achieved by storing QM-derived components of the lattice energy model in a database and reusing them in subsequent calculations whenever possible. This makes the approach particularly well suited to applications that involve a sequence of lattice energy evaluations, such as crystal structure prediction. The algorithm is capable of handling efficiently complex systems with considerable conformational flexibility. The paper presents examples of the algorithm's application ranging from single-component crystals to cocrystals and salts of flexible molecules with tens of intramolecular degrees of freedom whose optimal values are determined by the interplay of conformational strain and packing forces. For any given molecule, the degree of flexibility to be considered can vary from a few torsional angles to relaxation of the entire set of torsion angles, bond angles, and bond lengths present in the molecule.

Year:  2011        PMID: 26596459     DOI: 10.1021/ct100597e

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


  22 in total

1.  A Hybrid Machine Learning Approach for Structure Stability Prediction in Molecular Co-crystal Screenings.

Authors:  Simon Wengert; Gábor Csányi; Karsten Reuter; Johannes T Margraf
Journal:  J Chem Theory Comput       Date:  2022-06-16       Impact factor: 6.578

2.  4-Aminoquinaldine monohydrate polymorphism: Prediction and impurity aided discovery of a difficult to access stable form.

Authors:  Doris E Braun; Herbert Oberacher; Kathrin Arnhard; Maria Orlova; Ulrich J Griesser
Journal:  CrystEngComm       Date:  2015-10-15       Impact factor: 3.545

3.  Computational and Experimental Characterization of Five Crystal Forms of Thymine: Packing Polymorphism, Polytypism/Disorder and Stoichiometric 0.8-Hydrate.

Authors:  Doris E Braun; Thomas Gelbrich; Klaus Wurst; Ulrich J Griesser
Journal:  Cryst Growth Des       Date:  2016-06-01       Impact factor: 4.076

4.  Solid state forms of 4-aminoquinaldine - From void structures with and without solvent inclusion to close packing.

Authors:  Doris E Braun; Thomas Gelbrich; Volker Kahlenberg; Ulrich J Griesser
Journal:  CrystEngComm       Date:  2015-03-28       Impact factor: 3.545

5.  Absorbing a Little Water: The Structural, Thermodynamic, and Kinetic Relationship between Pyrogallol and Its Tetarto-Hydrate.

Authors:  Doris E Braun; Rajni M Bhardwaj; Jean-Baptiste Arlin; Alastair J Florence; Volker Kahlenberg; Ulrich J Griesser; Derek A Tocher; Sarah L Price
Journal:  Cryst Growth Des       Date:  2013-07-24       Impact factor: 4.076

6.  Experimental and Computational Hydrate Screening: Cytosine, 5-Flucytosine and Their Solid Solution.

Authors:  Doris E Braun; Volker Kahlenberg; Ulrich J Griesser
Journal:  Cryst Growth Des       Date:  2017-06-13       Impact factor: 4.076

7.  Why do Hydrates (Solvates) Form in Small Neutral Organic Molecules? Exploring the Crystal Form Landscapes of the Alkaloids Brucine and Strychnine.

Authors:  Doris E Braun; Ulrich J Griesser
Journal:  Cryst Growth Des       Date:  2016-11-02       Impact factor: 4.076

8.  Synergy of Solid-State NMR, Single-Crystal X-ray Diffraction, and Crystal Structure Prediction Methods: A Case Study of Teriflunomide (TFM).

Authors:  Tomasz Pawlak; Isaac Sudgen; Grzegorz Bujacz; Dinu Iuga; Steven P Brown; Marek J Potrzebowski
Journal:  Cryst Growth Des       Date:  2021-05-10       Impact factor: 4.076

9.  Complex Polymorphic System of Gallic Acid-Five Monohydrates, Three Anhydrates, and over 20 Solvates.

Authors:  Doris E Braun; Rajni M Bhardwaj; Alastair J Florence; Derek A Tocher; Sarah L Price
Journal:  Cryst Growth Des       Date:  2012-11-27       Impact factor: 4.076

10.  Four Polymorphs of Methyl Paraben: Structural Relationships and Relative Energy Differences.

Authors:  Thomas Gelbrich; Doris E Braun; Arkady Ellern; Ulrich J Griesser
Journal:  Cryst Growth Des       Date:  2013-01-28       Impact factor: 4.076

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