Literature DB >> 20830379

Vibrational solvatochromism and electrochromism of cyanide, thiocyanate, and azide anions in water.

Hochan Lee1, Jun-Ho Choi, Minhaeng Cho.   

Abstract

Small IR probe molecules have been found to be useful to measure local electric fields in condensed phases and proteins and also to study nucleic acid and protein structure and dynamics by monitoring their vibrational couplings and frequency shifts. However, it is still difficult to accurately describe the vibrational solvatochromic frequency shifts of such IR probes, because the local electric fields produced by surrounding solvent molecules or by protein peptide and side groups are spatially non-uniform and highly inhomogeneous around a probe. We recently developed a distributed interaction site model to describe the vibrational solvatochromism and electrochromism of nitrile-, thiocyanato-, and azido-derivatized compounds and amino acids in solutions. Here, the nitrile or azido stretch is the maker mode. It was found that those interaction sites distributed over the IR probe molecule collectively act as an antenna sensing local electric field distributions around the IR probes. Once the vibrational solvatochromism of a given IR probe is understood, it becomes possible to quantitatively describe their vibrational Stark effects. Carrying out quantum chemistry calculations of cyanide, thiocyanate, and azide anions in water clusters, we extended the distributed site model for ionic IR probes and calculated the vibrational Stark tuning rates for direct comparisons with experimental results. It turns out that the charge transfers from an anionic solute to surrounding water molecules are significant, but their effects on vibrational solvatochromism and electrochromism of pseudohalide ionic IR probes are not. We anticipate that the present computational results will be of use to establish the relationship between vibrational frequency of an ionic IR probe and local electric field in condensed phases and protein matrices.

Entities:  

Year:  2010        PMID: 20830379     DOI: 10.1039/c0cp00214c

Source DB:  PubMed          Journal:  Phys Chem Chem Phys        ISSN: 1463-9076            Impact factor:   3.676


  11 in total

Review 1.  Vibrational Spectroscopic Map, Vibrational Spectroscopy, and Intermolecular Interaction.

Authors:  Carlos R Baiz; Bartosz Błasiak; Jens Bredenbeck; Minhaeng Cho; Jun-Ho Choi; Steven A Corcelli; Arend G Dijkstra; Chi-Jui Feng; Sean Garrett-Roe; Nien-Hui Ge; Magnus W D Hanson-Heine; Jonathan D Hirst; Thomas L C Jansen; Kijeong Kwac; Kevin J Kubarych; Casey H Londergan; Hiroaki Maekawa; Mike Reppert; Shinji Saito; Santanu Roy; James L Skinner; Gerhard Stock; John E Straub; Megan C Thielges; Keisuke Tominaga; Andrei Tokmakoff; Hajime Torii; Lu Wang; Lauren J Webb; Martin T Zanni
Journal:  Chem Rev       Date:  2020-06-29       Impact factor: 60.622

2.  Site-Specific Spectroscopic Reporters of the Local Electric Field, Hydration, Structure, and Dynamics of Biomolecules.

Authors:  Matthias M Waegele; Robert M Culik; Feng Gai
Journal:  J Phys Chem Lett       Date:  2011-09-23       Impact factor: 6.475

3.  Solvatochromism and the solvation structure of benzophenone.

Authors:  Justin E Elenewski; John C Hackett
Journal:  J Chem Phys       Date:  2013-06-14       Impact factor: 3.488

4.  Extended timescale 2D IR probes of proteins: p-cyanoselenophenylalanine.

Authors:  S Ramos; K J Scott; R E Horness; A L Le Sueur; M C Thielges
Journal:  Phys Chem Chem Phys       Date:  2017-04-12       Impact factor: 3.676

5.  Solute's perspective on how trimethylamine oxide, urea, and guanidine hydrochloride affect water's hydrogen bonding ability.

Authors:  Ileana M Pazos; Feng Gai
Journal:  J Phys Chem B       Date:  2012-10-09       Impact factor: 2.991

6.  Conformational dynamics and stability of HP35 studied with 2D IR vibrational echoes.

Authors:  Jean K Chung; Megan C Thielges; Michael D Fayer
Journal:  J Am Chem Soc       Date:  2012-07-16       Impact factor: 15.419

7.  A strongly absorbing class of non-natural labels for probing protein electrostatics and solvation with FTIR and 2D IR spectroscopies.

Authors:  Ann Marie Woys; Sudipta S Mukherjee; David R Skoff; Sean D Moran; Martin T Zanni
Journal:  J Phys Chem B       Date:  2013-04-15       Impact factor: 2.991

Review 8.  Equilibrium versus Nonequilibrium Peptide Dynamics: Insights into Transient 2D IR Spectroscopy.

Authors:  David G Hogle; Amy R Cunningham; Matthew J Tucker
Journal:  J Phys Chem B       Date:  2018-08-10       Impact factor: 2.991

9.  Environment Polarity in Proteins Mapped Noninvasively by FTIR Spectroscopy.

Authors:  Joshua Manor; Esther S Feldblum; Martin T Zanni; Isaiah T Arkin
Journal:  J Phys Chem Lett       Date:  2012-03-12       Impact factor: 6.475

10.  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

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