Literature DB >> 17122853

Watching hydrogen-bond dynamics in a beta-turn by transient two-dimensional infrared spectroscopy.

Christoph Kolano1, Jan Helbing, Mariusz Kozinski, Wolfram Sander, Peter Hamm.   

Abstract

X-ray crystallography and nuclear magnetic resonance measurements provide us with atomically resolved structures of an ever-growing number of biomolecules. These static structural snapshots are important to our understanding of biomolecular function, but real biomolecules are dynamic entities that often exploit conformational changes and transient molecular interactions to perform their tasks. Nuclear magnetic resonance methods can follow such structural changes, but only on millisecond timescales under non-equilibrium conditions. Time-resolved X-ray crystallography has recently been used to monitor the photodissociation of CO from myoglobin on a subnanosecond timescale, yet remains challenging to apply more widely. In contrast, two-dimensional infrared spectroscopy, which maps vibrational coupling between molecular groups and hence their relative positions and orientations, is now routinely used to study equilibrium processes on picosecond timescales. Here we show that the extension of this method into the non-equilibrium regime allows us to observe in real time in a short peptide the weakening of an intramolecular hydrogen bond and concomitant opening of a beta-turn. We find that the rate of this process is two orders of magnitude faster than the 'folding speed limit' established for contact formation between protein side chains.

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Year:  2006        PMID: 17122853     DOI: 10.1038/nature05352

Source DB:  PubMed          Journal:  Nature        ISSN: 0028-0836            Impact factor:   49.962


  53 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.  Design, synthesis, and photochemical validation of peptide linchpins containing the S,S-tetrazine phototrigger.

Authors:  Mohannad Abdo; Stephen P Brown; Joel R Courter; Matthew J Tucker; Robin M Hochstrasser; Amos B Smith
Journal:  Org Lett       Date:  2012-06-26       Impact factor: 6.005

3.  Protein dynamics investigated by inherent structure analysis.

Authors:  Francesco Rao; Martin Karplus
Journal:  Proc Natl Acad Sci U S A       Date:  2010-04-30       Impact factor: 11.205

4.  Discriminating early stage A{beta}42 monomer structures using chirality-induced 2DIR spectroscopy in a simulation study.

Authors:  Wei Zhuang; Nikolaos G Sgourakis; Zhenyu Li; Angel E Garcia; Shaul Mukamel
Journal:  Proc Natl Acad Sci U S A       Date:  2010-08-23       Impact factor: 11.205

5.  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

6.  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

7.  Two-dimensional spectroscopy at infrared and optical frequencies.

Authors:  Robin M Hochstrasser
Journal:  Proc Natl Acad Sci U S A       Date:  2007-07-30       Impact factor: 11.205

8.  Automated 2D IR spectroscopy using a mid-IR pulse shaper and application of this technology to the human islet amyloid polypeptide.

Authors:  Sang-Hee Shim; David B Strasfeld; Yun L Ling; Martin T Zanni
Journal:  Proc Natl Acad Sci U S A       Date:  2007-05-14       Impact factor: 11.205

9.  Nonlinear response of vibrational excitons: simulating the two-dimensional infrared spectrum of liquid water.

Authors:  A Paarmann; T Hayashi; S Mukamel; R J D Miller
Journal:  J Chem Phys       Date:  2009-05-28       Impact factor: 3.488

Review 10.  How to turn your pump-probe instrument into a multidimensional spectrometer: 2D IR and Vis spectroscopies via pulse shaping.

Authors:  Sang-Hee Shim; Martin T Zanni
Journal:  Phys Chem Chem Phys       Date:  2008-12-10       Impact factor: 3.676

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