Literature DB >> 17614599

Transient two-dimensional IR spectrometer for probing nanosecond temperature-jump kinetics.

Hoi Sung Chung1, Munira Khalil, Adam W Smith, Andrei Tokmakoff.   

Abstract

We have developed a Fourier transform two-dimensional infrared (2D IR) spectrometer to probe chemical reactions and biophysical processes triggered by a nanosecond temperature jump (T jump). The technical challenges for such a spectrometer involve (1) synchronization of a nanosecond T-jump laser and femtosecond laser system, (2) overcoming the decreased signal-to-noise ratio from low repetition rate data acquisition, and (3) performing an interferometric measurement through a sample with a density and index of refraction that varies with time delay after the T jump. The first challenge was overcome by synchronizing the two lasers to a clock derived from the Ti:sapphire oscillator, leading to timing accuracy of 2 ns for delays up to 50 ms. The data collection time is reduced by using undersampling with the improved signal-to-noise ratio obtained from a balanced detection scheme with a dual stripe array detector. Transient dispersed vibrational echo and 2D IR spectroscopy are applied to N-methylacetamide and ubiquitin, as examples, and the spectral responses by a temperature elevation and by structural changes of the protein are compared. The synchronization of 2D IR spectroscopy with a nanosecond temperature jump without losing its sensitivity at a low repetition rate opens a new applicability of the nonlinear spectroscopy to probe a variety of molecular structure changes induced by a nanosecond perturbation.

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Year:  2007        PMID: 17614599     DOI: 10.1063/1.2743168

Source DB:  PubMed          Journal:  Rev Sci Instrum        ISSN: 0034-6748            Impact factor:   1.523


  20 in total

Review 1.  Spectroscopic studies of protein folding: linear and nonlinear methods.

Authors:  Arnaldo L Serrano; Matthias M Waegele; Feng Gai
Journal:  Protein Sci       Date:  2011-12-28       Impact factor: 6.725

2.  Transient 2D IR spectroscopy of ubiquitin unfolding dynamics.

Authors:  Hoi Sung Chung; Ziad Ganim; Kevin C Jones; Andrei Tokmakoff
Journal:  Proc Natl Acad Sci U S A       Date:  2007-06-05       Impact factor: 11.205

3.  Oxidized Derivatives of 5-Methylcytosine Alter the Stability and Dehybridization Dynamics of Duplex DNA.

Authors:  Paul J Sanstead; Brennan Ashwood; Qing Dai; Chuan He; Andrei Tokmakoff
Journal:  J Phys Chem B       Date:  2020-02-05       Impact factor: 2.991

4.  Dual time-resolved temperature-jump fluorescence and infrared spectroscopy for the study of fast protein dynamics.

Authors:  Caitlin M Davis; Michael J Reddish; R Brian Dyer
Journal:  Spectrochim Acta A Mol Biomol Spectrosc       Date:  2017-02-02       Impact factor: 4.098

5.  Folding of a heterogeneous β-hairpin peptide from temperature-jump 2D IR spectroscopy.

Authors:  Kevin C Jones; Chunte Sam Peng; Andrei Tokmakoff
Journal:  Proc Natl Acad Sci U S A       Date:  2013-02-04       Impact factor: 11.205

6.  Tautomerism provides a molecular explanation for the mutagenic properties of the anti-HIV nucleoside 5-aza-5,6-dihydro-2'-deoxycytidine.

Authors:  Deyu Li; Bogdan I Fedeles; Vipender Singh; Chunte Sam Peng; Katherine J Silvestre; Allison K Simi; Jeffrey H Simpson; Andrei Tokmakoff; John M Essigmann
Journal:  Proc Natl Acad Sci U S A       Date:  2014-07-28       Impact factor: 11.205

7.  A molecular interpretation of 2D IR protein folding experiments with Markov state models.

Authors:  Carlos R Baiz; Yu-Shan Lin; Chunte Sam Peng; Kyle A Beauchamp; Vincent A Voelz; Vijay S Pande; Andrei Tokmakoff
Journal:  Biophys J       Date:  2014-03-18       Impact factor: 4.033

Review 8.  Meandering Down the Energy Landscape of Protein Folding: Are We There Yet?

Authors:  Rachel M Abaskharon; Feng Gai
Journal:  Biophys J       Date:  2016-05-10       Impact factor: 4.033

9.  Identification of Lactam-Lactim Tautomers of Aromatic Heterocycles in Aqueous Solution Using 2D IR Spectroscopy.

Authors:  Chunte Sam Peng; Andrei Tokmakoff
Journal:  J Phys Chem Lett       Date:  2012-10-24       Impact factor: 6.475

10.  Probing the folding transition state of ubiquitin mutants by temperature-jump-induced downhill unfolding.

Authors:  Hoi Sung Chung; Ali Shandiz; Tobin R Sosnick; Andrei Tokmakoff
Journal:  Biochemistry       Date:  2008-12-30       Impact factor: 3.162

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