Literature DB >> 16986886

Vibrational spectral diffusion of azide in water.

Shuzhou Li1, J R Schmidt, A Piryatinski, C P Lawrence, J L Skinner.   

Abstract

Vibrational spectral diffusion denotes the time-dependent fluctuations of a solute's vibrational frequencies due to local environmental dynamics. Vibrational line shapes are weakly sensitive to spectral diffusion, whereas three-pulse vibrational echoes are much more sensitive. We report here on theoretical studies of spectral diffusion of the asymmetric stretch of the azide anion in heavy water. We run a classical molecular dynamics simulation of rigid azide in rigid water, and at every time step we calculate the azide's anharmonic asymmetric stretch frequency using an optimized quantum mechanics/molecular mechanics method developed earlier. This generates a frequency trajectory, which we use to calculate the absorption line shape and integrated three-pulse echo intensity. Our results for both the line width and the integrated echo intensity are in excellent agreement with experiment. Our calculated frequency time-correlation function is in excellent agreement with experiment for long times (greater than 250 fs) but differs considerably from experiment at short times; our theoretical correlation function has a very pronounced oscillation, presumably due to intermolecular azide-water hydrogen-bond stretching dynamics.

Entities:  

Mesh:

Substances:

Year:  2006        PMID: 16986886     DOI: 10.1021/jp057568k

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


  10 in total

1.  Characterizing the dynamics of functionally relevant complexes of formate dehydrogenase.

Authors:  Jigar N Bandaria; Samrat Dutta; Michael W Nydegger; William Rock; Amnon Kohen; Christopher M Cheatum
Journal:  Proc Natl Acad Sci U S A       Date:  2010-09-27       Impact factor: 11.205

2.  Two-dimensional infrared spectra reveal relaxation of the nonnucleoside inhibitor TMC278 complexed with HIV-1 reverse transcriptase.

Authors:  Chong Fang; Joseph D Bauman; Kalyan Das; Amanda Remorino; Eddy Arnold; Robin M Hochstrasser
Journal:  Proc Natl Acad Sci U S A       Date:  2007-11-26       Impact factor: 11.205

3.  Fast enzyme dynamics at the active site of formate dehydrogenase.

Authors:  Jigar N Bandaria; Samrat Dutta; Sarah E Hill; Amnon Kohen; Christopher M Cheatum
Journal:  J Am Chem Soc       Date:  2007-12-08       Impact factor: 15.419

4.  Two-dimensional infrared spectroscopy of azido-nicotinamide adenine dinucleotide in water.

Authors:  Samrat Dutta; William Rock; Richard J Cook; Amnon Kohen; Christopher M Cheatum
Journal:  J Chem Phys       Date:  2011-08-07       Impact factor: 3.488

5.  2D IR photon echo of azido-probes for biomolecular dynamics.

Authors:  Matthew J Tucker; Xin Sonia Gai; Edward E Fenlon; Scott H Brewer; Robin M Hochstrasser
Journal:  Phys Chem Chem Phys       Date:  2010-12-02       Impact factor: 3.676

6.  Calculation of vibrational shifts of nitrile probes in the active site of ketosteroid isomerase upon ligand binding.

Authors:  Joshua P Layfield; Sharon Hammes-Schiffer
Journal:  J Am Chem Soc       Date:  2012-12-31       Impact factor: 15.419

7.  Two-dimensional infrared spectroscopy as a probe of the solvent electrostatic field for a twelve residue peptide.

Authors:  Jianping Wang; Wei Zhuang; Shaul Mukamel; Robin Hochstrasser
Journal:  J Phys Chem B       Date:  2007-12-14       Impact factor: 2.991

8.  Kinetic Isotope Effect Provides Insight into the Vibrational Relaxation Mechanism of Aromatic Molecules: Application to Cyano-phenylalanine.

Authors:  Jeffrey M Rodgers; Wenkai Zhang; Christopher G Bazewicz; Jianxin Chen; Scott H Brewer; Feng Gai
Journal:  J Phys Chem Lett       Date:  2016-03-22       Impact factor: 6.475

9.  Exploring the molecular origins of protein dynamics in the active site of human carbonic anhydrase II.

Authors:  Sarah E Hill; Jigar N Bandaria; Michelle Fox; Elizabeth Vanderah; Amnon Kohen; Christopher M Cheatum
Journal:  J Phys Chem B       Date:  2009-08-20       Impact factor: 2.991

10.  2D IR photon echo spectroscopy reveals hydrogen bond dynamics of aromatic nitriles.

Authors:  Ayanjeet Ghosh; Amanda Remorino; Matthew J Tucker; Robin M Hochstrasser
Journal:  Chem Phys Lett       Date:  2009-02-17       Impact factor: 2.328

  10 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.