Literature DB >> 26125542

Anharmonic Backbone Vibrations in Ultrafast Processes at the DNA-Water Interface.

Torsten Siebert1, Biswajit Guchhait1, Yingliang Liu1, Rene Costard1, Thomas Elsaesser1.   

Abstract

The vibrational modes of the deoxyribose-phosphodiester backbone moiety of DNA and their interactions with the interfacial aqueous environment are addressed with two-dimensional (2D) infrared spectroscopy on a femto- to picosecond time scale. Beyond the current understanding in the harmonic approximation, the anharmonic character and delocalization of the backbone modes in the frequency range from 900 to 1300 cm(-1) are determined with both diagonal anharmonicities and intermode couplings on the order of 10 cm(-1). Mediated by the intermode couplings, energy transfer between the backbone modes takes place on a picosecond time scale, parallel to vibrational relaxation and energy dissipation into the environment. Probing structural dynamics noninvasively via the time evolution of the 2D lineshapes, limited structural fluctuations are observed on a 300 fs time scale of low-frequency motions of the helix, counterions, and water shell. Structural disorder of the DNA-water interface and DNA-water hydrogen bonds are, however, preserved for times beyond 10 ps. The different interactions of limited strength ensure ultrafast vibrational relaxation and dissipation of excess energy in the backbone structure, processes that are important for the structural integrity of hydrated DNA.

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Year:  2015        PMID: 26125542     DOI: 10.1021/acs.jpcb.5b04499

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


  14 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

Review 2.  Watching Proteins Wiggle: Mapping Structures with Two-Dimensional Infrared Spectroscopy.

Authors:  Ayanjeet Ghosh; Joshua S Ostrander; Martin T Zanni
Journal:  Chem Rev       Date:  2017-01-06       Impact factor: 60.622

3.  First-principles calculations of Raman vibrational modes in the fingerprint region for connective tissue.

Authors:  E T Sato; H Martinho
Journal:  Biomed Opt Express       Date:  2018-03-15       Impact factor: 3.732

4.  Contact pairs of RNA with magnesium ions-electrostatics beyond the Poisson-Boltzmann equation.

Authors:  Benjamin Philipp Fingerhut; Jakob Schauss; Achintya Kundu; Thomas Elsaesser
Journal:  Biophys J       Date:  2021-10-27       Impact factor: 4.033

5.  Ultrafast Vibrational Response of Activated C-D Bonds in a Chloroform-Platinum(II) Complex.

Authors:  Jia Zhang; Achintya Kundu; Thomas Elsaesser; Piero Macchi; Marcel Kalter; Georg Eickerling; Wolfgang Scherer
Journal:  J Phys Chem Lett       Date:  2022-05-13       Impact factor: 6.888

6.  2D-IR studies of cyanamides (NCN) as spectroscopic reporters of dynamics in biomolecules: Uncovering the origin of mysterious peaks.

Authors:  Farzaneh Chalyavi; Olajumoke Adeyiga; Julia M Weiner; Judith N Monzy; Andrew J Schmitz; Justin K Nguyen; Edward E Fenlon; Scott H Brewer; Samuel O Odoh; Matthew J Tucker
Journal:  J Chem Phys       Date:  2020-02-21       Impact factor: 3.488

Review 7.  Water Dynamics in the Hydration Shells of Biomolecules.

Authors:  Damien Laage; Thomas Elsaesser; James T Hynes
Journal:  Chem Rev       Date:  2017-03-01       Impact factor: 60.622

8.  Perspective: Structure and ultrafast dynamics of biomolecular hydration shells.

Authors:  Damien Laage; Thomas Elsaesser; James T Hynes
Journal:  Struct Dyn       Date:  2017-04-20       Impact factor: 2.920

9.  Molecular couplings and energy exchange between DNA and water mapped by femtosecond infrared spectroscopy of backbone vibrations.

Authors:  Yingliang Liu; Biswajit Guchhait; Torsten Siebert; Benjamin P Fingerhut; Thomas Elsaesser
Journal:  Struct Dyn       Date:  2017-04-07       Impact factor: 2.920

10.  Ultrafast vibrational dynamics of the DNA backbone at different hydration levels mapped by two-dimensional infrared spectroscopy.

Authors:  Biswajit Guchhait; Yingliang Liu; Torsten Siebert; Thomas Elsaesser
Journal:  Struct Dyn       Date:  2015-12-08       Impact factor: 2.920

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