Literature DB >> 20942545

Two-dimensional infrared study of 3-azidopyridine as a potential spectroscopic reporter of protonation state.

Michael W Nydegger1, Samrat Dutta, Christopher M Cheatum.   

Abstract

The lack of general spectroscopic probes that can be used in a range of systems to probe kinetics and dynamics is a major obstacle to the widespread application of two-dimensional infrared (2D IR) spectroscopy. We have studied 3-azidopyridine to characterize its potential as a probe of the protonation state of the pyridine ring. We find that the azido-stretching vibration is split by accidental Fermi resonance interactions with one or more overtones and combination states. Using 2D IR spectroscopy, we determine the state structure of the resulting eigenstates for complexes of 3-azidopyridine with formic acid and trifluoroacetic acid in which the pyridine ring is unprotonated and protonated, respectively. Based on the measurements, we develop a two-oscillator depurturbation model to determine the energies and couplings of the zeroth-order azido-stretching state and the perturbing dark state that couples to it. Based on these results, we conclude that the azido-stretching vibration is, in fact, sensitive to the protonation state of the pyridine shifting up in frequency by 8 cm(-1) in the complex with trifluoroacetic acid relative to the formic acid complex. These results suggest that, although 3-azidopyridine is not suitable as a spectroscopic probe, the approach of employing an organic azide as a remote probe of protonation state holds significant promise.

Entities:  

Year:  2010        PMID: 20942545     DOI: 10.1063/1.3483688

Source DB:  PubMed          Journal:  J Chem Phys        ISSN: 0021-9606            Impact factor:   3.488


  17 in total

1.  Site-Specific Spectroscopic Reporters of the Local Electric Field, Hydration, Structure, and Dynamics of Biomolecules.

Authors:  Matthias M Waegele; Robert M Culik; Feng Gai
Journal:  J Phys Chem Lett       Date:  2011-09-23       Impact factor: 6.475

2.  Line shape analysis of two-dimensional infrared spectra.

Authors:  Qi Guo; Philip Pagano; Yun-Liang Li; Amnon Kohen; Christopher M Cheatum
Journal:  J Chem Phys       Date:  2015-06-07       Impact factor: 3.488

3.  Synthesis and Protein Incorporation of Azido-Modified Unnatural Amino Acids.

Authors:  Elise M Tookmanian; Edward E Fenlon; Scott H Brewer
Journal:  RSC Adv       Date:  2014-12-02       Impact factor: 3.361

Review 4.  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

5.  Transparent window 2D IR spectroscopy of proteins.

Authors:  Megan C Thielges
Journal:  J Chem Phys       Date:  2021-07-28       Impact factor: 3.488

6.  Differential ordering of the protein backbone and side chains during protein folding revealed by site-specific recombinant infrared probes.

Authors:  Sureshbabu Nagarajan; Humeyra Taskent-Sezgin; Dzmitry Parul; Isaac Carrico; Daniel P Raleigh; R Brian Dyer
Journal:  J Am Chem Soc       Date:  2011-11-28       Impact factor: 15.419

7.  Modulating Accidental Fermi Resonance: What a Difference a Neutron Makes.

Authors:  Jacob S Lipkin; Rui Song; Edward E Fenlon; Scott H Brewer
Journal:  J Phys Chem Lett       Date:  2011-06-27       Impact factor: 6.475

8.  Tautomeric Effect of Histidine on β-Sheet Formation of Amyloid Beta 1-40: 2D-IR Simulations.

Authors:  Yeonsig Nam; Mahroof Kalathingal; Shinji Saito; Jin Yong Lee
Journal:  Biophys J       Date:  2020-07-18       Impact factor: 4.033

9.  Extending the vibrational lifetime of azides with heavy atoms.

Authors:  Farzaneh Chalyavi; Andrew J Schmitz; Natalie R Fetto; Matthew J Tucker; Scott H Brewer; Edward E Fenlon
Journal:  Phys Chem Chem Phys       Date:  2020-08-24       Impact factor: 3.676

10.  Sensitive, site-specific, and stable vibrational probe of local protein environments: 4-azidomethyl-L-phenylalanine.

Authors:  Christopher G Bazewicz; Melanie T Liskov; Kevin J Hines; Scott H Brewer
Journal:  J Phys Chem B       Date:  2013-07-18       Impact factor: 2.991

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