Literature DB >> 12709595

Dual-frequency 2D-IR spectroscopy heterodyned photon echo of the peptide bond.

Igor V Rubtsov1, Jianping Wang, Robin M Hochstrasser.   

Abstract

The structure fluctuations of the peptide bond interacting with solvent are examined through the coupling and correlations of the frequency distributions of amide I and amide II transitions. The fluctuations of the two modes are anticorrelated as a result of the solvent-induced changes in the mixing of the dominant valence-bond structures of the peptide. Significant anharmonic coupling of the two modes is seen. The results are the application of a new approach to two-dimensional infrared (2D-IR) spectroscopy in which the pulse sequences used to produce the vibrational echoes incorporate two frequencies. This dual-frequency arrangement greatly extends the capabilities of 2D-IR spectroscopy by allowing the coupling between widely separated modes to be characterized in analogy with heteronuclear NMR. The experiment exposes the cross peaks, representing the mode coupling, free of the interference of the strong diagonal peaks that typically dominate 2D-IR spectroscopy. The alignment and dephasing of coupled transitions, in this example the amide I and amide II transition dipoles, is also determined by these experiments.

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Year:  2003        PMID: 12709595      PMCID: PMC156247          DOI: 10.1073/pnas.0931292100

Source DB:  PubMed          Journal:  Proc Natl Acad Sci U S A        ISSN: 0027-8424            Impact factor:   11.205


  9 in total

1.  Vibrational anharmonicities revealed by coherent two-dimensional infrared spectroscopy.

Authors:  O Golonzka; M Khalil; N Demirdöven; A Tokmakoff
Journal:  Phys Rev Lett       Date:  2001-03-05       Impact factor: 9.161

2.  Two-dimensional infrared spectroscopy of peptides by phase-controlled femtosecond vibrational photon echoes.

Authors:  M C Asplund; M T Zanni; R M Hochstrasser
Journal:  Proc Natl Acad Sci U S A       Date:  2000-07-18       Impact factor: 11.205

Review 3.  Two-dimensional infrared spectroscopy: a promising new method for the time resolution of structures.

Authors:  M T Zanni; R M Hochstrasser
Journal:  Curr Opin Struct Biol       Date:  2001-10       Impact factor: 6.809

4.  Signatures of beta-peptide unfolding in two-dimensional vibrational echo spectroscopy: a simulation study.

Authors:  C Scheurer; A Piryatinski; S Mukamel
Journal:  J Am Chem Soc       Date:  2001-04-04       Impact factor: 15.419

5.  Two-dimensional IR spectroscopy can be designed to eliminate the diagonal peaks and expose only the crosspeaks needed for structure determination.

Authors:  M T Zanni; N H Ge; Y S Kim; R M Hochstrasser
Journal:  Proc Natl Acad Sci U S A       Date:  2001-09-18       Impact factor: 11.205

6.  Obtaining absorptive line shapes in two-dimensional infrared vibrational correlation spectra.

Authors:  M Khalil; N Demirdöven; A Tokmakoff
Journal:  Phys Rev Lett       Date:  2003-01-30       Impact factor: 9.161

Review 7.  Vibrational spectroscopy and conformation of peptides, polypeptides, and proteins.

Authors:  S Krimm; J Bandekar
Journal:  Adv Protein Chem       Date:  1986

8.  Conformational preferences and vibrational frequency distributions of short peptides in relation to multidimensional infrared spectroscopy.

Authors:  S Gnanakaran; R M Hochstrasser
Journal:  J Am Chem Soc       Date:  2001-12-26       Impact factor: 15.419

9.  The two-dimensional IR nonlinear spectroscopy of a cyclic penta-peptide in relation to its three-dimensional structure.

Authors:  P Hamm; M Lim; W F DeGrado; R M Hochstrasser
Journal:  Proc Natl Acad Sci U S A       Date:  1999-03-02       Impact factor: 11.205

  9 in total
  22 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.  Time-resolved vibrational spectroscopy detects protein-based intermediates in the photosynthetic oxygen-evolving cycle.

Authors:  Bridgette A Barry; Ian B Cooper; Antonio De Riso; Scott H Brewer; Dung M Vu; R Brian Dyer
Journal:  Proc Natl Acad Sci U S A       Date:  2006-04-21       Impact factor: 11.205

3.  Constant-speed vibrational signaling along polyethyleneglycol chain up to 60-Å distance.

Authors:  Zhiwei Lin; Igor V Rubtsov
Journal:  Proc Natl Acad Sci U S A       Date:  2012-01-17       Impact factor: 11.205

4.  Chemical exchange 2D IR of hydrogen-bond making and breaking.

Authors:  Yung Sam Kim; Robin M Hochstrasser
Journal:  Proc Natl Acad Sci U S A       Date:  2005-07-22       Impact factor: 11.205

5.  Local structure of beta-hairpin isotopomers by FTIR, 2D IR, and ab initio theory.

Authors:  Jianping Wang; Jianxin Chen; Robin M Hochstrasser
Journal:  J Phys Chem B       Date:  2006-04-13       Impact factor: 2.991

6.  Two-dimensional infrared population transfer spectroscopy for enhancing structural markers of proteins.

Authors:  Thomas la Cour Jansen; Jasper Knoester
Journal:  Biophys J       Date:  2007-11-02       Impact factor: 4.033

7.  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

8.  2D IR cross peaks reveal hydrogen-deuterium exchange with single residue specificity.

Authors:  Emily B Dunkelberger; Ann Marie Woys; Martin T Zanni
Journal:  J Phys Chem B       Date:  2013-05-23       Impact factor: 2.991

9.  Exciton delocalization and transport in photosystem I of cyanobacteria Synechococcus elongates: simulation study of coherent two-dimensional optical signals.

Authors:  Darius Abramavicius; Shaul Mukamel
Journal:  J Phys Chem B       Date:  2009-04-30       Impact factor: 2.991

10.  Applications of 2D IR spectroscopy to peptides, proteins, and hydrogen-bond dynamics.

Authors:  Yung Sam Kim; Robin M Hochstrasser
Journal:  J Phys Chem B       Date:  2009-06-18       Impact factor: 2.991

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