Literature DB >> 16852970

Energy ranking of molecular crystals using density functional theory calculations and an empirical van der waals correction.

Marcus A Neumann1, Marc-Antoine Perrin.   

Abstract

By combination of high level density functional theory (DFT) calculations with an empirical van der Waals correction, a hybrid method has been designed and parametrized that provides unprecedented accuracy for the structure optimization and the energy ranking of molecular crystals. All DFT calculations are carried out using the VASP program. The van der Waals correction is expressed as the sum over atom-atom pair potentials with each pair potential for two atoms A and B being the product of an asymptotic C(6,A,B)/r(6) term and a damping function d(A,B)(r). Empirical parameters are provided for the elements H, C, N, O, F, Cl, and S. Following Wu and Yang, the C(6) coefficients have been determined by least-squares fitting to molecular C(6) coefficients derived by Meath and co-workers from dipole oscillator strength distributions. The damping functions d(A,B)(r) guarantee the crossover from the asymptotic C(6,A,B)/r(6) behavior at large interatomic distances to a constant interaction energy at short distances. The careful parametrization of the damping functions is of crucial importance to obtain the correct balance between the DFT part of the lattice energy and the contribution from the empirical van der Waals correction. The damping functions have been adjusted to yield the best possible agreement between the unit cells of a set of experimental low temperature crystal structures and their counterparts obtained by lattice energy optimization using the hybrid method. On average, the experimental and the calculated unit cell lengths deviate by 1%. To assess the performance of the hybrid method with respect to the lattice energy ranking of molecular crystals, various crystal packings of ethane, ethylene, acetylene, methanol, acetic acid, and urea have been generated with Accelrys' Polymorph Predictor in a first step and optimized with the hybrid method in a second step. In five out of six cases, the experimentally observed low-temperature crystal structure corresponds to the most stable calculated structure.

Entities:  

Year:  2005        PMID: 16852970     DOI: 10.1021/jp050121r

Source DB:  PubMed          Journal:  J Phys Chem B        ISSN: 1520-5207            Impact factor:   2.991


  18 in total

1.  Crystal Structure Prediction from First Principles: The Crystal Structures of Glycine.

Authors:  Albert M Lund; Gabriel I Pagola; Anita M Orendt; Marta B Ferraro; Julio C Facelli
Journal:  Chem Phys Lett       Date:  2015-04-17       Impact factor: 2.328

2.  Close intramolecular sulfur-oxygen contacts: modified force field parameters for improved conformation generation.

Authors:  Dmitry Lupyan; Yuriy A Abramov; Woody Sherman
Journal:  J Comput Aided Mol Des       Date:  2012-10-06       Impact factor: 3.686

3.  Ambiguous structure determination from powder data: four different structural models of 4,11-di-fluoro-quinacridone with similar X-ray powder patterns, fit to the PDF, SSNMR and DFT-D.

Authors:  Carina Schlesinger; Arnd Fitterer; Christian Buchsbaum; Stefan Habermehl; Michele R Chierotti; Carlo Nervi; Martin U Schmidt
Journal:  IUCrJ       Date:  2022-05-14       Impact factor: 5.588

4.  Easy methods to study the smart energetic TNT/CL-20 co-crystal.

Authors:  Huarong Li; Yuanjie Shu; Shijie Gao; Ling Chen; Qing Ma; Xuehai Ju
Journal:  J Mol Model       Date:  2013-09-17       Impact factor: 1.810

5.  Validation of experimental molecular crystal structures with dispersion-corrected density functional theory calculations.

Authors:  Jacco van de Streek; Marcus A Neumann
Journal:  Acta Crystallogr B       Date:  2010-09-11

6.  Crystal structure prediction of flexible molecules using parallel genetic algorithms with a standard force field.

Authors:  Seonah Kim; Anita M Orendt; Marta B Ferraro; Julio C Facelli
Journal:  J Comput Chem       Date:  2009-10       Impact factor: 3.376

7.  Towards crystal structure prediction of complex organic compounds--a report on the fifth blind test.

Authors:  David A Bardwell; Claire S Adjiman; Yelena A Arnautova; Ekaterina Bartashevich; Stephan X M Boerrigter; Doris E Braun; Aurora J Cruz-Cabeza; Graeme M Day; Raffaele G Della Valle; Gautam R Desiraju; Bouke P van Eijck; Julio C Facelli; Marta B Ferraro; Damian Grillo; Matthew Habgood; Detlef W M Hofmann; Fridolin Hofmann; K V Jovan Jose; Panagiotis G Karamertzanis; Andrei V Kazantsev; John Kendrick; Liudmila N Kuleshova; Frank J J Leusen; Andrey V Maleev; Alston J Misquitta; Sharmarke Mohamed; Richard J Needs; Marcus A Neumann; Denis Nikylov; Anita M Orendt; Rumpa Pal; Constantinos C Pantelides; Chris J Pickard; Louise S Price; Sarah L Price; Harold A Scheraga; Jacco van de Streek; Tejender S Thakur; Siddharth Tiwari; Elisabetta Venuti; Ilia K Zhitkov
Journal:  Acta Crystallogr B       Date:  2011-11-17

8.  Validation of molecular crystal structures from powder diffraction data with dispersion-corrected density functional theory (DFT-D).

Authors:  Jacco van de Streek; Marcus A Neumann
Journal:  Acta Crystallogr B Struct Sci Cryst Eng Mater       Date:  2014-12-01

9.  Combined crystal structure prediction and high-pressure crystallization in rational pharmaceutical polymorph screening.

Authors:  M A Neumann; J van de Streek; F P A Fabbiani; P Hidber; O Grassmann
Journal:  Nat Commun       Date:  2015-07-22       Impact factor: 14.919

10.  Computational pharmaceutical materials science.

Authors:  Jacco van de Streek
Journal:  J Cheminform       Date:  2014-03-11       Impact factor: 5.514

View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.