Literature DB >> 21423871

Calculation of the Vibrational Stark Effect Using a First-Principles QM/MM Approach.

Ashley L Ringer1, Alexander D Mackerell.   

Abstract

The proper description of the electric environment of condensed phases is a critical challenge for force field methods. To test and validate the ability of the CHARMM additive force field to describe the electric environment in aqueous solution combined QM/MM calculations have been used to calculate the vibrational Stark effect (VSE). We utilized a first principles methodology using correlated electronic structure techniques to compute the Stark shift between the gas phase and solvent environments and between two different solvent environments of three VSE probes containing acetonitrile or fluorine functionalities which have been well-characterized experimentally. Reasonable agreement with the experimentally determined Stark shifts is obtained when the MM atoms are described by the CHARMM additive force field, though it is essential to employ an anharmonic correction in the frequency calculation. In addition, the electric field created by the solvent is computed along the CN bond and a theoretical Stark tuning rate is determined for acetonitrile and shown to be in satisfactory agreement with experiment.

Entities:  

Year:  2011        PMID: 21423871      PMCID: PMC3058488          DOI: 10.1021/jz101657s

Source DB:  PubMed          Journal:  J Phys Chem Lett        ISSN: 1948-7185            Impact factor:   6.475


  14 in total

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Authors:  D J Lockhart; P S Kim
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2.  Anharmonic vibrational properties by a fully automated second-order perturbative approach.

Authors:  Vincenzo Barone
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Review 3.  CHARMM: the biomolecular simulation program.

Authors:  B R Brooks; C L Brooks; A D Mackerell; L Nilsson; R J Petrella; B Roux; Y Won; G Archontis; C Bartels; S Boresch; A Caflisch; L Caves; Q Cui; A R Dinner; M Feig; S Fischer; J Gao; M Hodoscek; W Im; K Kuczera; T Lazaridis; J Ma; V Ovchinnikov; E Paci; R W Pastor; C B Post; J Z Pu; M Schaefer; B Tidor; R M Venable; H L Woodcock; X Wu; W Yang; D M York; M Karplus
Journal:  J Comput Chem       Date:  2009-07-30       Impact factor: 3.376

4.  Optimized quantum mechanics/molecular mechanics strategies for nitrile vibrational probes: acetonitrile and para-tolunitrile in water and tetrahydrofuran.

Authors:  Beth A Lindquist; Ryan T Haws; Steven A Corcelli
Journal:  J Phys Chem B       Date:  2008-10-15       Impact factor: 2.991

Review 5.  Stark spectroscopy: applications in chemistry, biology, and materials science.

Authors:  G U Bublitz; S G Boxer
Journal:  Annu Rev Phys Chem       Date:  1997       Impact factor: 12.703

6.  Interfacing Q-Chem and CHARMM to perform QM/MM reaction path calculations.

Authors:  H Lee Woodcock; Milan Hodošček; Andrew T B Gilbert; Peter M W Gill; Henry F Schaefer; Bernard R Brooks
Journal:  J Comput Chem       Date:  2007-07-15       Impact factor: 3.376

7.  Vibrational Stark effects calibrate the sensitivity of vibrational probes for electric fields in proteins.

Authors:  Ian T Suydam; Steven G Boxer
Journal:  Biochemistry       Date:  2003-10-21       Impact factor: 3.162

8.  CHARMM general force field: A force field for drug-like molecules compatible with the CHARMM all-atom additive biological force fields.

Authors:  K Vanommeslaeghe; E Hatcher; C Acharya; S Kundu; S Zhong; J Shim; E Darian; O Guvench; P Lopes; I Vorobyov; A D Mackerell
Journal:  J Comput Chem       Date:  2010-03       Impact factor: 3.376

9.  Using nitrile-derivatized amino acids as infrared probes of local environment.

Authors:  Zelleka Getahun; Cheng-Yen Huang; Ting Wang; Brenda De León; William F DeGrado; Feng Gai
Journal:  J Am Chem Soc       Date:  2003-01-15       Impact factor: 15.419

10.  Nitrile groups as vibrational probes: calculations of the CN infrared absorption line shape of acetonitrile in water and tetrahydrofuran.

Authors:  Beth A Lindquist; Steven A Corcelli
Journal:  J Phys Chem B       Date:  2008-04-26       Impact factor: 2.991

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  3 in total

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Authors:  Stephen D Fried; Steven G Boxer
Journal:  Acc Chem Res       Date:  2015-03-23       Impact factor: 22.384

2.  Calculations of the electric fields in liquid solutions.

Authors:  Stephen D Fried; Lee-Ping Wang; Steven G Boxer; Pengyu Ren; Vijay S Pande
Journal:  J Phys Chem B       Date:  2013-12-10       Impact factor: 2.991

3.  Anharmonic Vibrational Analysis of Biomolecules and Solvated Molecules Using Hybrid QM/MM Computations.

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Journal:  J Chem Theory Comput       Date:  2019-02-21       Impact factor: 6.006

  3 in total

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