151
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Cervetto V, Pfister R, Helbing J. Time-Resolved Infrared Spectroscopy of Thiopeptide Isomerization and Hydrogen-Bond Breaking. J Phys Chem B 2008; 112:3540-4. [DOI: 10.1021/jp710611n] [Citation(s) in RCA: 14] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Valentina Cervetto
- Physikalisch-Chemisches Institut, Winterthurerstrasse 190, CH-8057 Zürich, Switzerland
| | - Rolf Pfister
- Physikalisch-Chemisches Institut, Winterthurerstrasse 190, CH-8057 Zürich, Switzerland
| | - Jan Helbing
- Physikalisch-Chemisches Institut, Winterthurerstrasse 190, CH-8057 Zürich, Switzerland
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152
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Reichardt C, Schroeder J, Vöhringer P, Schwarzer D. Unravelling the ultrafast photodecomposition mechanism of dibenzoyl peroxide in solution by time-resolved IR spectroscopy. Phys Chem Chem Phys 2008; 10:1662-8. [DOI: 10.1039/b718501d] [Citation(s) in RCA: 13] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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153
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Reichardt C, Schroeder J, Schwarzer D. The photodecomposition mechanism of tert-butyl-9-methylfluorene-9-percarboxylate: new insight from femtosecond IR spectroscopy. Phys Chem Chem Phys 2008; 10:5218-24. [DOI: 10.1039/b806359a] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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154
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Van Tassle AJ, Prantil MA, Hiller RG, Fleming GR. Excited State Structural Dynamics of the Charge Transfer State of Peridinin. Isr J Chem 2007. [DOI: 10.1560/ijc.47.1.17] [Citation(s) in RCA: 25] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]
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155
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Cervetto V, Pfister R, Kolano C, Bregy H, Heimgartner H, Helbing J. Coexistence of Hydrogen-Bonded Loop and Extended Tetrapeptide Conformations. Chemistry 2007; 13:9004-11. [PMID: 17696185 DOI: 10.1002/chem.200700396] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Abstract
The conformations of a protected tetrathiopeptide have been analysed by isotope labelling and two-dimensional infrared spectroscopy (2D-IR). It has been found that Boc-Ala-Gly(=S)-Ala-Aib-OMe in acetonitrile, as well as its oxopeptide analogue, can adopt a hydrogen-bonded loop conformation in coexistence with less restricted structures. The two types of conformations interconvert too quickly to be resolved on the nuclear magnetic resonance (NMR) timescale, but give rise to different cross peaks in two-dimensional infrared spectra. The hydrogen bond between the Boc terminal group and the amide proton of Aib can be broken by photoisomerisation of the thioamide bond.
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Affiliation(s)
- Valentina Cervetto
- Physikalisch-Chemisches Institut Universität Zürich, Winterthurerstrasse 190, 8057 Zürich, Switzerland
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156
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Vibrational population relaxation of hydrogen-bonded phenol complexes in solution: Investigation by ultrafast infrared pump–probe spectroscopy. Chem Phys 2007. [DOI: 10.1016/j.chemphys.2007.07.025] [Citation(s) in RCA: 25] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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157
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Ultrafast vibrational excitation transfer and vibrational cooling of propionic acid dimers investigated with IR-pump IR-probe spectroscopy. Chem Phys 2007. [DOI: 10.1016/j.chemphys.2007.06.038] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
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158
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Reichardt C, Schroeder J, Schwarzer D. Femtosecond IR spectroscopy of peroxycarbonate photodecomposition: S1-lifetime determines decarboxylation rate. J Phys Chem A 2007; 111:10111-8. [PMID: 17867659 DOI: 10.1021/jp0742968] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
The ultrafast photofragmentation of arylperoxycarbonates R-O-C(O)O-O-tert-butyl (R = naphthyl, phenyl) is studied using femtosecond UV excitation at 266 nm and mid-infrared broadband probe pulses to elucidate the dissociation mechanism. Our experiments show that the rate of fragmentation is determined by the S1-lifetime of the peroxide, i.e., the time constants of S1 decay and of CO2 and R-O* formation are identical. The fragmentation times are solvent dependent and for tert-butyl-2-naphthylperoxycarbonate (TBNC) vary from 25 ps in CH2Cl2 to 52 ps in n-heptane. In the case of the tert-butylphenylperoxycarbonate (TBPC) the decomposition takes 5.5 ps in CD2Cl2 and 12 ps in n-heptane. The CO2 fragment is formed vibrationally hot with an excess energy of about 5000 cm(-1). The hot CO2 spectra at high energy can be modeled assuming Boltzmann distributions with initial vibrational temperatures of ca. 2500 K which relax to ambient temperature with time constants of 280 ps in CCl4 and 130 ps in n-heptane. In CCl4 the relaxed spectra at 1.5 ns show 3.5% residual excitation in the n = 1 level of the asymmetric stretch vibration.
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Affiliation(s)
- Christian Reichardt
- Abteilung Spektroskopie und Photochemische Kinetik, Max-Planck-Institut für Biophysikalische Chemie, 37070 Göttingen, Germany
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159
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Kolano C, Helbing J, Bucher G, Sander W, Hamm P. Intramolecular Disulfide Bridges as a Phototrigger To Monitor the Dynamics of Small Cyclic Peptides. J Phys Chem B 2007; 111:11297-302. [PMID: 17764169 DOI: 10.1021/jp074184g] [Citation(s) in RCA: 41] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Two cyclic disulfide-bridged tetrapeptides [cyclo(Boc-Cys-Pro-Aib-Cys-OMe) (1) and cyclo(Boc-Cys-Pro-Phe-Cys-OMe) (2)] have been monitored by time-resolved mid-IR spectroscopy in the C=O vibrational range. A conformational change is induced by cleavage of the intramolecular disulfide bridge upon UV excitation (lambda(exc) = 260 nm), giving rise to a pair of cysteinyl radicals (thiyl radicals), which diffuse apart allowing the peptide to change conformation before they undergo quenching. The amide I band reports on the dynamics of the peptide backbone, which evolves on a 100 ps time scale and then stays constant up to 10 micros at low enough concentrations ( approximately 100 mM). To probe specifically the lifetime of the free cysteinyl radicals, time-resolved UV laser flash photolysis has been applied. The concentration of the cysteinyl radical decays nonexponentially, but about 50% are still present after 1 ms. The photocleavable disulfide bridge hence may serve as an intrinsic, naturally occurring phototrigger to study peptide dynamics that opens a wide time-window from a few picoseconds to many hundreds of microseconds.
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Affiliation(s)
- Christoph Kolano
- Physikalisch-Chemisches Institut, Universität Zürich, Winterthurerstrasse 190, CH-8057 Zürich, Switzerland.
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160
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Le Caër S, Palmer DJ, Lima M, Renault JP, Vigneron G, Righini R, Pommeret S. Time-Resolved Studies of Water Dynamics and Proton Transfer at the Alumina−Air Interface. J Am Chem Soc 2007; 129:11720-9. [PMID: 17725350 DOI: 10.1021/ja0691730] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
The present study aims to understand the dynamical properties of water and OH groups layered on an alumina surface mainly by means of femtosecond IR-pump IR-probe transient absorption spectroscopy. The experimental results obtained demonstrate the existence of several kinds of O-H vibrators on the surface of alumina membranes, distinguishing them by their behavior on the femtosecond time scale and by the anisotropy of their spectral response. In the high-frequency region (>3400 cm-1), the absorption is due to well-packed aluminol groups and to physisorbed water patches on the surface. When pumping at 3200 cm-1, physisorbed water hydrogen-bonded to AlOH2+ groups is observed. The anisotropy measurements demonstrate the existence of an efficient energy-transfer mechanism among the water molecules characterized by a time constant of 400 +/- 100 fs. The persisting anisotropy at long times, especially in the case of AlOH groups and of the structured physisorbed water layer on top of them, proves the anisotropic structuring induced by the surface. The excitation at 3000 cm-1 enables the detection of a photon-induced proton-transfer reaction. The proton back-transfer reaction time constant is 350 +/- 50 fs. From anisotropy measurements, we estimate the proton hopping time to be 900 +/- 100 fs in a locally extended water network lying on the surface.
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Affiliation(s)
- Sophie Le Caër
- Laboratoire Claude Fréjacques, CEA/Saclay, DSM/DRECAM/SCM, URA 331 CNRS, F-91191 Gif-sur-Yvette Cedex, France.
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161
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Bredenbeck J, Helbing J, Kolano C, Hamm P. Ultrafast 2D–IR Spectroscopy of Transient Species. Chemphyschem 2007; 8:1747-56. [PMID: 17615613 DOI: 10.1002/cphc.200700148] [Citation(s) in RCA: 79] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
Abstract
Multidimensional spectroscopic experiments offer fascinating insights into molecular structure and dynamics in the field of NMR spectroscopy. With the introduction of ultrafast two-dimensional infrared spectroscopy (2D-IR), multidimensional concepts have entered the optical domain, measuring couplings and correlations between molecular vibrations with femtosecond time resolution. In the transient 2D-IR (T2D-IR) experiments described in this minireview we exploit the high time resolution of 2D-IR to study transient species during fast nonequilibrium processes in real time. Information on molecular structure and dynamics is obtained that is not available from one-dimensional spectroscopy. We discuss examples from chemistry, physics and biophysics.
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Affiliation(s)
- Jens Bredenbeck
- Physikalisch-Chemisches Institut, Universität Zürich, Winterthurerstrasse 190, 8057 Zürich, Switzerland.
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162
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Sul S, Karaiskaj D, Jiang Y, Ge NH. Conformations of N-acetyl-L-prolinamide by two-dimensional infrared spectroscopy. J Phys Chem B 2007; 110:19891-905. [PMID: 17020375 DOI: 10.1021/jp062039h] [Citation(s) in RCA: 46] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/01/2023]
Abstract
Femtosecond two-dimensional infrared (2D IR) spectroscopy has been applied to study the conformations of a model dipeptide, N-acetyl-L-prolinamide (AcProNH2) in deuterated chloroform (CDCl3). Spectral features in the amide-I and -II regions are obtained by rephasing (R), nonrephasing (NR), and reverse photon echo (RPE) pulse sequences with two polarization conditions. The 2D spectra obtained by the RPE and NR sequences with (0, 0, 0, 0) polarization reveal new spectral features associated with the multiple conformers of AcProNH2 that are difficult to discern using R sequence and linear-IR spectroscopy. The high resolving power of the RPE sequence comes from destructive interference between the positive and negative peaks of nearby vibrators, similar to the NR sequence. The RPE response functions that are useful for 2D spectral simulations are evaluated, including the effects of vibrational frequency correlations. The 2D spectra obtained with (45, -45, 90, 0) polarization exhibit clear cross-peak patterns in the off-diagonal region for the R and RPE sequences but in the diagonal region for the NR sequence. These patterns, free from strong diagonal contributions, are crucial for structure determination. DFT calculations, normal-mode analysis, Hessian matrix reconstruction, and vibrational exciton Hamiltonian diagonalization yield molecular parameters needed for quantitative simulations of 2D spectra: angles between transition dipoles, coupling constants, and off-diagonal anharmonicities of the amide-I and -II modes are obtained for solvated trans-C7 and cis structures and for gas-phase trans conformers in the region of phi = -120 degrees to 0 degrees and psi = -100 degrees to 180 degrees in the Ramachandran space. Systematic simulations based on a 4:1 population ratio of the solvated trans-C7 and cis structures reproduce well the 2D spectral features obtained at both polarization conditions. However, better agreement between the experimental and simulated cross-peak patterns can be reached if the dihedral angles of the major trans conformer are close to (phi, psi) = (-80 degrees , 100 degrees ). Our results suggest that the major conformer of AcProNH2 in CDCl3 deviates from the gas-phase global minimum, the trans-C7 form, to an extended intermediate between the C7 and polyproline-II structure. These results are discussed in relationship with earlier findings obtained by NMR, transient IR studies, and MD simulations.
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Affiliation(s)
- Soohwan Sul
- Department of Chemistry, University of California, Irvine, California 92697-2025, USA
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163
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Groot ML, van Wilderen LJGW, Di Donato M. Time-resolved methods in biophysics. 5. Femtosecond time-resolved and dispersed infrared spectroscopy on proteins. Photochem Photobiol Sci 2007; 6:501-7. [PMID: 17487299 DOI: 10.1039/b613023b] [Citation(s) in RCA: 49] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/16/2023]
Abstract
In this contribution we describe how femtosecond time-resolved infrared spectroscopy provides insight into the function and dynamics of pigment-protein complexes, and what the technical requirements are to perform such experiments. We further discuss a few examples of experiments performed on the photoactive yellow protein and photosynthetic complexes in more detail.
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Affiliation(s)
- Marie Louise Groot
- Department of Physics and Astronomy, Faculty of Sciences, Vrije Universiteit, De Boelelaan 1081, 1081 HV, Amsterdam, The Netherlands.
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164
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Ihalainen JA, Bredenbeck J, Pfister R, Helbing J, Chi L, van Stokkum IHM, Woolley GA, Hamm P. Folding and unfolding of a photoswitchable peptide from picoseconds to microseconds. Proc Natl Acad Sci U S A 2007; 104:5383-8. [PMID: 17372213 PMCID: PMC1838511 DOI: 10.1073/pnas.0607748104] [Citation(s) in RCA: 74] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/06/2006] [Indexed: 11/18/2022] Open
Abstract
Using time-resolved IR spectroscopy, we monitored the kinetics of folding and unfolding processes of a photoswitchable 16-residue alanine-based alpha-helical peptide on a timescale from few picoseconds to almost 40 micros and over a large temperature range (279-318 K). The folding and unfolding processes were triggered by an ultrafast laser pulse that isomerized the cross linker within a few picoseconds. The main folding and unfolding times (700 ns and 150 ns, respectively, at room temperature) are in line with previous T-jump experiments obtained from similar peptides. However, both processes show complex, strongly temperature-dependent spectral kinetics that deviate clearly from a single-exponential behavior. Whereas in the unfolding experiment the ensemble starts from a well defined folded state, the starting ensemble in the folding experiment is more heterogeneous, which leads to distinctly different kinetics of the experiments, because they are sensitive to different regions of the energy surface. A qualitative agreement with the experimental data-set can be obtained by a model where the unfolded states act as a hub connected to several separated "misfolded" states with a distribution of rates. We conclude that a rather large spread of rates (k(1) : k(n) approximately 9) is needed to explain the experimentally observed stretched exponential response with stretching factor beta = 0.8 at 279 K.
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Affiliation(s)
- Janne A. Ihalainen
- *Physikalisch-Chemisches Institut, Universität Zürich, Winterthurerstrasse 190, CH-8057 Zürich, Switzerland
| | - Jens Bredenbeck
- *Physikalisch-Chemisches Institut, Universität Zürich, Winterthurerstrasse 190, CH-8057 Zürich, Switzerland
| | - Rolf Pfister
- *Physikalisch-Chemisches Institut, Universität Zürich, Winterthurerstrasse 190, CH-8057 Zürich, Switzerland
| | - Jan Helbing
- *Physikalisch-Chemisches Institut, Universität Zürich, Winterthurerstrasse 190, CH-8057 Zürich, Switzerland
| | - Lei Chi
- Department of Chemistry, University of Toronto, 80 Saint George Street, Toronto M5S 3H6, Canada
| | - Ivo H. M. van Stokkum
- Faculty of Sciences, Department of Physics and Astronomy, Vrije Universiteit, De Boelelaan 1081, 1081 HV Amsterdam, The Netherlands
| | - G. Andrew Woolley
- Department of Chemistry, University of Toronto, 80 Saint George Street, Toronto M5S 3H6, Canada
| | - Peter Hamm
- *Physikalisch-Chemisches Institut, Universität Zürich, Winterthurerstrasse 190, CH-8057 Zürich, Switzerland
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165
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Conformational Dynamics of Heme-pocket in Myoglobin Encapsulated in Silica Sol-gel Glasses. B KOREAN CHEM SOC 2007. [DOI: 10.5012/bkcs.2007.28.2.339] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
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166
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Maçôas EMS, Kananavicius R, Myllyperkiö P, Pettersson M, Kunttu H. Ultrafast Electronic and Vibrational Energy Relaxation of Fe(acetylacetonate)3 in Solution. J Phys Chem A 2007; 111:2054-61. [PMID: 17295455 DOI: 10.1021/jp066271z] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Transient mid-infrared spectroscopy is used to probe the dynamics initiated by excitation of ligand-to-metal (400 nm) and metal-to-ligand (345 nm) charge transfer states of FeIII complexed with acetylacetonate (Fe(acac)3, where acac stands for deprotonated anion of acetylacetone) in solution. Transient spectra in the 1500-1600 cm-1 range show two broad absorptions red-shifted from the bleach of the nu(CO) (approximately 1575 cm-1) and nu(C=C) (approximately 1525 cm-1) ground state absorptions. Bleach recovery kinetics has a time constant of 12-19 ps in chloroform and tetrachloroethylene and it decreases by 30-40% in a 10% mixture of methanol in tetrachloroethylene. The transient absorptions experience band narrowing simultaneously with blue-shifting of the absorption maxima. Both phenomena have time constants of 3-9 ps with no evident dependence on the solvent. The experimental observations are ascribed to fast conversion of the initially excited charge transfer states to the ligand field manifold, and subsequent vibrational cooling on the lowest ligand field excited state prior to electronic conversion to the ground state. The analysis of time dependent bandwidths and positions of the transient absorptions provides some evidence of mode specific vibrational cooling.
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Affiliation(s)
- Ermelinda M S Maçôas
- Nanoscience Center, Department of Chemistry, P.O. Box 35, FI-40014 University of Jyväskylä, Finland
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167
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Bredenbeck J, Helbing J, Nienhaus K, Nienhaus GU, Hamm P. Protein ligand migration mapped by nonequilibrium 2D-IR exchange spectroscopy. Proc Natl Acad Sci U S A 2007; 104:14243-8. [PMID: 17261808 PMCID: PMC1964829 DOI: 10.1073/pnas.0607758104] [Citation(s) in RCA: 80] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
2D-IR exchange spectroscopy has been introduced recently to map chemical exchange networks in equilibrium with subpicosecond time resolution. Here, we demonstrate the generalization of 2D-IR exchange spectroscopy to nonequilibrium systems and its application to map light-triggered migration of ligands between different sites in a protein. Within picoseconds after a photodissociating laser pulse, carbon monoxide ligands relocate from their binding site A at the heme prosthetic group of myoglobin to a primary docking site B in the distal heme pocket. Multiple CO stretching bands are observed for the CO ligand in sites A and B, indicating that several distinct conformational substates of the myoglobin:ligand complex coexist in solution. Exchange cross-peaks between the bands associated with substates of heme-bound CO and photodissociated CO in the primary docking site reveal the substate connectivity at physiological temperature.
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Affiliation(s)
- Jens Bredenbeck
- Physikalisch-Chemisches Institut, Universität Zürich, Winterthurerstrasse 190, CH-8057 Zürich, Switzerland.
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168
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Volkov VV, Palmer DJ, Righini R. Heterogeneity of Water at the Phospholipid Membrane Interface. J Phys Chem B 2007; 111:1377-83. [PMID: 17249718 DOI: 10.1021/jp065886t] [Citation(s) in RCA: 67] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
Femtosecond infrared (IR) two-color pump-probe experiments were used to investigate the nonlinear response of the D2O stretching vibration in weakly hydrated dimyristoyl-phosphatidylcholine (DMPC) membrane fragments. The vibrational lifetime is comparable to or longer than that in bulk D2O and is frequency dependent, as it decreases with increasing probe frequency. Also, the lifetime increases when the water content of the sample is lowered. The measured lifetimes range between 903 and 390 fs. A long-lived spectral feature grows in following the excitation and is attributed to photoinduced D-bond breaking. The photoproduct spectrum differs from the steady state difference Fourier transform infrared (FTIR) spectrum, showing that the full thermalization of the excitation energy happens on a much longer time scale than the time interval considered (12 ps). Further evidence of the inhomogeneous character of the water residing in the polar region of the bilayer comes from the spectral anisotropy. The water molecules absorbing on the low frequency side of the absorption band show no decay at all of the anisotropy, while an ultrafast partial decay appears when the high frequency side of the spectrum is probed. The overall behavior differs remarkably from that observed with similar experiments in bulk water and in water segregated in inverse micelles. In weakly hydrated phospholipid membranes, water molecules are present mostly as isolated species, prevalently involved in strong, rigid, and persistent hydrogen bonds with the polar groups of the bilayer molecules. This specific character appears to have a direct effect on the structural stability and thermal properties of the membrane.
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Affiliation(s)
- Victor V Volkov
- European Laboratory for Nonlinear Spectroscopy (LENS), University of Florence, Via Nello Carrara 1, 50019 Sesto Fiorentino, Italy
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169
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Effects of Solvent Viscosity on Conformational Dynamics of Heme-pocket in Myoglobin and Hemoglobin. B KOREAN CHEM SOC 2006. [DOI: 10.5012/bkcs.2006.27.11.1825] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
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170
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Cervetto V, Bregy H, Hamm P, Helbing J. Time-Resolved IR Spectroscopy of N-Methylthioacetamide: Trans → Cis Isomerization upon n−π* and π−π* Excitation and Cis → Trans Photoreaction. J Phys Chem A 2006; 110:11473-8. [PMID: 17020259 DOI: 10.1021/jp062856h] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Time-resolved infrared spectroscopy was used to study the photoisomerization of N-Methylthioacetamide (NMTAA) in D2O in both the cis-->trans and the trans-->cis direction upon selective excitation of the n-pi (S1) and pi-pi (S2) electronic transitions. While isomerization and the return to the ground state takes place on two distinct time scales (<or=8 ps, approximately 250 ps) upon pi-pi excitation of both cis- and trans-NMTAA in D2O, ground state recovery is only observed on the slower time scale upon n-pi excitation. The quantum efficiency for trans-->cis isomerization is 30-40%, independent of the electronic state excited, while the cis-->trans isomerization proceeds with a 60-70% quantum efficiency. These results support a mechanism by which isomerization takes place via one common intermediate state independent of electronic excitation energy and initial conformation.
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Affiliation(s)
- Valentina Cervetto
- Physikalisch-Chemisches Institut, Winterthurerstrasse 190, CH-8057 Zürich, Switzerland
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171
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Fulmer EC, Mukherjee P, Krummel AT, Zanni MT. A pulse sequence for directly measuring the anharmonicities of coupled vibrations: Two-quantum two-dimensional infrared spectroscopy. J Chem Phys 2006; 120:8067-78. [PMID: 15267726 DOI: 10.1063/1.1649725] [Citation(s) in RCA: 74] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
We have experimentally demonstrated a pulse sequence for the acquisition of heterodyned two-dimensional infrared (2D IR) spectra that correlates the overtone and combination bands to the fundamental frequencies. The spectra are generated by Fourier transforming the time domain signal that is allowed to evolve during one- and two-quantum coherence times. In this manner, the overtone and combination bands appear along the two-quantum axis, resulting in a direct determination of the diagonal and off-diagonal anharmonicities. To demonstrate this pulse sequence, we have collected two-quantum 2D IR spectra of a ruthenium dicarbonyl complex, extracted the diagonal and off-diagonal anharmonicities, and simulated the spectra using an exciton model. Several polarization conditions are presented that suppress the diagonal or cross peaks and we have used them to improve the accuracy of the measurement.
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Affiliation(s)
- Eric C Fulmer
- Department of Chemistry, University of Wisconsin-Madison, Madison Wisconsin 53706, USA
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172
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Van Tassle AJ, Prantil MA, Fleming GR. Investigation of the Excited State Structure of DCM via Ultrafast Electronic Pump/Vibrational Probe. J Phys Chem B 2006; 110:18989-95. [PMID: 16986894 DOI: 10.1021/jp0603738] [Citation(s) in RCA: 39] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
Time resolved visible pump, infrared probe transient absorption measurements of the solutes 4-dicyanomethylene-2-methyl-6-(p-(dimethylamino)styryl)-4H-pyran (DCM) and its isotopomer DCM-d6 are employed to probe the dynamics of charge transfer state formation in dimethyl sulfoxide (DMSO) and acetonitrile (MeCN). We observe a two stage charge transfer (CT): the first step is an instrument-response-limited charge separation to the dicyanomethylene group, and the second involves a structural evolution of the dimethylamino group. Theoretical calculations and isotopic substitution indicate that the observed vibration is due to the dimethylamino group twisting out of plane, stabilizing the charge separation.
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Affiliation(s)
- Aaron J Van Tassle
- Department of Chemistry, University of California, Berkeley, and Physical Biosciences Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720, USA
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173
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Schanz R, Boţan V, Hamm P. A femtosecond study of the infrared-driven cis-trans isomerization of nitrous acid (HONO). J Chem Phys 2006; 122:44509. [PMID: 15740269 DOI: 10.1063/1.1834567] [Citation(s) in RCA: 39] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
We investigate the dynamics and mechanism of the IR-driven cis-trans isomerization of nitrous acid (HONO) in a low-temperature krypton matrix applying ultrafast time resolved IR spectroscopy. After excitation of the OH-stretching mode the trans HONO state decays biexponentially on a 8 and 260 ps time scale. The initially excited cis HONO state decays on a 20 ps time scale. Cis HONO isomerizes with 10% quantum yield on a 20 ps time scale to trans HONO. The quantum yield we observe is significantly smaller than the previously reported 100%, which could imply that additional, much slower reaction channels exist. We furthermore developed a four-dimensional model of the system, which includes the three proton intramolecular degrees of freedom of HONO fully quantum mechanically and one intermolecular translational degree of freedom of the molecule in the crystal cage. We find that cis-trans isomerization necessarily is accompanied by a translation of the molecule as a whole in the crystal cage. The translational degree of freedom tunes the intramolecular proton states of HONO with respect to each other. When resonances occur, the proton states might couple and transfer population. We suggest a possible reaction pathway, where the cis OH-stretch excited state first couples to a high cis torsional mode, which then may transfer almost instantaneously to the trans side. The model qualitatively explains all experimental observations.
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Affiliation(s)
- Roland Schanz
- Physikalisch-Chemisches Institut, Universität Zürich, Winterthurerstrasse 190, CH-8057 Zürich, Switzerland
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174
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Volkov V, Schanz R, Hamm P. Active phase stabilization in Fourier-transform two-dimensional infrared spectroscopy. OPTICS LETTERS 2005; 30:2010-2. [PMID: 16092249 DOI: 10.1364/ol.30.002010] [Citation(s) in RCA: 33] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/03/2023]
Abstract
A scheme for active phase stabilization and absolute positioning in Fourier-transform two-dimensional (2D) IR spectroscopy is presented. The position accuracy is better than 20 nm(rms) corresponding to lambda/250 at 5 microm, which significantly improves the quality of Fourier-transform 2D IR spectra. Phase stabilization is added to a standard photon echo setup in a way that does not impair the flexibility of the experiment and the control over IR pulse parameters.
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Affiliation(s)
- Victor Volkov
- Physikalisch-Chemisches Institut, Universität Zürich, Winterthurerstrasse 190, CH-8057 Zürich, Switzerland
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175
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Bodis P, Larsen OFA, Woutersen S. Vibrational Relaxation of the Bending Mode of HDO in Liquid D2O. J Phys Chem A 2005; 109:5303-6. [PMID: 16839053 DOI: 10.1021/jp050409g] [Citation(s) in RCA: 37] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
The vibrational relaxation of the bending mode of HDO in liquid D2O has been studied using time-resolved mid-infrared pump-probe spectroscopy. At short delays, the transient spectrum clearly shows the v = 1 --> 2 induced absorption and v = 1 --> 0 bleaching and stimulated emission, whereas at long delays, the transient spectrum is dominated by the spectral changes caused by the temperature increase in the sample after vibrational relaxation. From the decay of the v = 1 --> 2 induced absorption, we obtain an estimate of 390 +/- 50 fs for the vibrational lifetime, in surprisingly good agreement with recent theoretical predictions. In the v = 0 --> 1 frequency region, the decay of the absorption change involves a second, slower component, which suggests that after vibrational relaxation the system is not yet in thermal equilibrium.
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Affiliation(s)
- Pavol Bodis
- FOM Institute for Atomic and Molecular Physics, Kruislaan 407, 1098 SJ Amsterdam, The Netherlands
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176
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Towrie M, Gabrielsson A, Matousek P, Parker AW, Rodriguez AMB, Vlcek A. A high-sensitivity femtosecond to microsecond time-resolved infrared vibrational spectrometer. APPLIED SPECTROSCOPY 2005; 59:467-73. [PMID: 15901332 DOI: 10.1366/0003702053641397] [Citation(s) in RCA: 34] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/02/2023]
Abstract
We describe an apparatus that provides, for the first time, a seamless bridge between femtosecond and microsecond time-resolved Raman and infrared vibrational spectroscopy. The laser system comprises an actively Q-switched sub-nanosecond pulsed kilohertz laser electronically synchronized to an ultrafast titanium sapphire regenerative amplifier to within 0.2 ns. The ultrafast amplifier provides the stable probe light source enabling high-sensitivity infrared vibrational spectroscopy of transients. Time-resolved infrared spectra of the excited-state relaxation dynamics of metal carbonyl compounds are presented to illustrate the capability of the apparatus, and transient data is resolved from 1 picosecond to over 100 microseconds. The results are compared to conventional nanosecond Fourier transform infrared (FT-IR) and laser based flash photolysis time-resolved infrared technology.
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Affiliation(s)
- Michael Towrie
- Central Laser Facility, CCLRC, Rutherford Appleton Laboratory, Chilton, Didcot, Oxfordshire OX11 0QX, United Kingdom.
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177
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Shanoski JE, Payne CK, Kling MF, Glascoe EA, Harris CB. Ultrafast Infrared Mechanistic Studies of the Interaction of 1-Hexyne with Group 6 Hexacarbonyl Complexes. Organometallics 2005. [DOI: 10.1021/om049101m] [Citation(s) in RCA: 27] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Jennifer E. Shanoski
- Department of Chemistry, University of California, Berkeley, California 94720, and Chemical Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720
| | - Christine K. Payne
- Department of Chemistry, University of California, Berkeley, California 94720, and Chemical Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720
| | - Matthias F. Kling
- Department of Chemistry, University of California, Berkeley, California 94720, and Chemical Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720
| | - Elizabeth A. Glascoe
- Department of Chemistry, University of California, Berkeley, California 94720, and Chemical Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720
| | - Charles B. Harris
- Department of Chemistry, University of California, Berkeley, California 94720, and Chemical Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720
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178
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Bredenbeck J, Helbing J, Kumita JR, Woolley GA, Hamm P. Alpha-helix formation in a photoswitchable peptide tracked from picoseconds to microseconds by time-resolved IR spectroscopy. Proc Natl Acad Sci U S A 2005; 102:2379-84. [PMID: 15699340 PMCID: PMC548979 DOI: 10.1073/pnas.0406948102] [Citation(s) in RCA: 156] [Impact Index Per Article: 7.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/18/2004] [Accepted: 01/03/2005] [Indexed: 11/18/2022] Open
Abstract
Photo-triggered alpha-helix formation of a 16-residue peptide featuring a built-in conformational photoswitch is monitored by time-resolved IR spectroscopy. An experimental approach with 2-ps time resolution and a scanning range up to 30 micros is used to cover all time scales of the peptide dynamics. Experiments are carried out at different temperatures between 281 and 322 K. We observe single-exponential kinetics of the amide I' band at 322 K on a time scale comparable to a recent temperature-jump folding experiment. When lowering the temperature, the kinetics become slower and nonexponential. The transition is strongly activated. Spectrally dispersed IR measurements provide multiple spectroscopic probes simultaneously in one experiment by resolving the amide I' band, isotope-labeled amino acid residues, and side chains. We find differing relaxation dynamics at different spectral positions.
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Affiliation(s)
- Jens Bredenbeck
- Physikalisch-Chemisches Institut, Universität Zürich, Winterthurerstrasse 190, CH-8057 Zürich, Switzerland
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179
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180
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Abstract
Time-resolved mid-IR spectroscopy combines molecular sensitivity with ultrafast capability to incisively probe protein-ligand interactions in model heme proteins. Highly conserved residues near the heme binding site fashion a ligand-docking site that mediates the transport of ligands to and from the binding site. We employ polarization anisotropy measurements to probe the orientation and orientational distribution of CO when bound to and docked near the active binding site, as well as the dynamics of ligand trapping in the primary docking site. In addition, we use more conventional transient absorption methods to probe the dynamics of ligand escape from this site, as well as the ultrafast dynamics of NO geminate recombination with the active binding site. The systems investigated include myoglobin, hemoglobin, and microperoxidase.
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Affiliation(s)
- Manho Lim
- Department of Chemistry, Pusan National University, Busan, South Korea
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181
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Kim S, Jin G, Lim M. Dynamics of Geminate Recombination of NO with Myoglobin in Aqueous Solution Probed by Femtosecond Mid-IR Spectroscopy. J Phys Chem B 2004. [DOI: 10.1021/jp0489020] [Citation(s) in RCA: 75] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Seongheun Kim
- Department of Chemistry and Chemistry Institute for Functional Materials, Pusan National University, Busan 609-735, Korea
| | - Geunyeong Jin
- Department of Chemistry and Chemistry Institute for Functional Materials, Pusan National University, Busan 609-735, Korea
| | - Manho Lim
- Department of Chemistry and Chemistry Institute for Functional Materials, Pusan National University, Busan 609-735, Korea
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182
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Bredenbeck J, Helbing J, Hamm P. Transient two-dimensional infrared spectroscopy: Exploring the polarization dependence. J Chem Phys 2004; 121:5943-57. [PMID: 15367023 DOI: 10.1063/1.1779575] [Citation(s) in RCA: 53] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
We present a general expression for the polarization dependence of transient two-dimensional IR spectroscopy (T2D-IR), a technique designed to measure 2D-IR spectra of transient species. T2D-IR is a UV pump narrowband-IR-pump broadband-IR-probe experiment of fifth order in the laser field which involves up to three different transition dipole moments. The UV pulse adds an additional degree of freedom in polarization as compared to 2D-IR spectroscopy and increases the versatility of signal manipulation and the potential structural information content of the signals. The polarization conditions leading to a maximum of structural information are discussed. Important special cases of polarization conditions are formulated. The application of polarization selectivity is demonstrated for different types of T2D-IR experiments on photo triggered metal-to-ligand charge transfer in the model system [Re(CO)(3)(dmbpy)Cl].
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Affiliation(s)
- Jens Bredenbeck
- Physikalisch-Chemisches Institut, Universität Zürich, Winterthurerstrasse 190, CH-8057 Zürich, Switzerland
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183
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Cervetto V, Helbing J, Bredenbeck J, Hamm P. Double-resonance versus pulsed Fourier transform two-dimensional infrared spectroscopy: An experimental and theoretical comparison. J Chem Phys 2004; 121:5935-42. [PMID: 15367022 DOI: 10.1063/1.1778163] [Citation(s) in RCA: 95] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
In this study we focus on the differences and analogies of two experimental implementations of two-dimensional infrared (2D-IR) spectroscopy: double-resonance or dynamic hole burning 2D-IR spectroscopy and pulsed Fourier transform or heterodyne detected photon echo spectroscopy. A comparison is done theoretically as well as experimentally by contrasting data obtained from both methods. As an example we have studied the strongly coupled asymmetric and symmetric carbonyl stretching vibrations of dicarbonylacetylacetonato rhodium dissolved in hexane. Both methods yield the same peaks in a 2D-IR spectrum. Within certain approximations we derive an analytic expression which shows that the 2D-IR spectra are broadened in one frequency dimension in the double-resonance experiment by convolution with the pump pulse spectral width, while the spectral resolution in the other frequency direction is the same in both cases.
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Affiliation(s)
- Valentina Cervetto
- Physikalisch Chemisches Institut, Universität Zürich, Winterthurerstrasse, 190, 8057 Zürich, Switzerland
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184
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Helbing J, Bonacina L, Pietri R, Bredenbeck J, Hamm P, van Mourik F, Chaussard F, Gonzalez-Gonzalez A, Chergui M, Ramos-Alvarez C, Ruiz C, López-Garriga J. Time-resolved visible and infrared study of the cyano complexes of myoglobin and of hemoglobin I from Lucina pectinata. Biophys J 2004; 87:1881-91. [PMID: 15345566 PMCID: PMC1304592 DOI: 10.1529/biophysj.103.036236] [Citation(s) in RCA: 63] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/24/2003] [Accepted: 06/14/2004] [Indexed: 11/18/2022] Open
Abstract
The dynamics of the ferric CN complexes of the heme proteins Myoglobin and Hemoglobin I from the clam Lucina pectinata upon Soret band excitation is monitored using infrared and broad band visible pump-probe spectroscopy. The transient response in the UV-vis spectral region does not depend on the heme pocket environment and is very similar to that known for ferrous proteins. The main feature is an instantaneous, broad, short-lived absorption signal that develops into a narrower red-shifted Soret band. Significant transient absorption is also observed in the 360-390 nm range. At all probe wavelengths the signal decays to zero with a longest time constant of 3.6 ps. The infrared data on MbCN reveal a bleaching of the C triple bond N stretch vibration of the heme-bound ligand, and the formation of a five-times weaker transient absorption band, 28 cm(-1) lower in energy, within the time resolution of the experiment. The MbC triple bond N stretch vibration provides a direct measure for the return of population to the ligated electronic (and vibrational) ground state with a 3-4 ps time constant. In addition, the CN-stretch frequency is sensitive to the excitation of low frequency heme modes, and yields independent information about vibrational cooling, which occurs on the same timescale.
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Affiliation(s)
- Jan Helbing
- Physikalisch-Chemisches Institut, Universität Zürich, 8057 Zürich, Switzerland.
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185
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Schrader T, Sieg A, Koller F, Schreier W, An Q, Zinth W, Gilch P. Vibrational relaxation following ultrafast internal conversion: comparing IR and Raman probing. Chem Phys Lett 2004. [DOI: 10.1016/j.cplett.2004.05.090] [Citation(s) in RCA: 81] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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186
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Helbing J, Bregy H, Bredenbeck J, Pfister R, Hamm P, Huber R, Wachtveitl J, De Vico L, Olivucci M. A Fast Photoswitch for Minimally Perturbed Peptides: Investigation of the trans → cis Photoisomerization of N-Methylthioacetamide. J Am Chem Soc 2004; 126:8823-34. [PMID: 15250736 DOI: 10.1021/ja049227a] [Citation(s) in RCA: 67] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
Thio amino acids can be integrated into the backbone of peptides without significantly perturbing their structure. In this contribution we use ultrafast infrared and visible spectroscopy as well as state-of-the-art ab initio computations to investigate the photoisomerization of the trans form of N-methylthioacetamide (NMTAA) as a model conformational photoswitch. Following the S2 excitation of trans-NMTAA in water, the return of the molecule into the trans ground state and the formation of the cis isomer is observed on a dual time scale, with a fast component of 8-9 ps and a slow time constant of approximately 250 ps. On both time scales the probability of isomerization to the cis form is found to be 30-40%, independently of excitation wavelength. Ab initio CASPT2//CASSCF photochemical reaction path calculations indicate that, in vacuo, the trans-->cis isomerization event takes place on the S1 and/or T1 triplet potential energy surfaces and is controlled by very small energy barriers, in agreement with the experimentally observed picosecond time scale. Furthermore, the calculations identify one S2/S1 and four nearly isoenergetic S1/S0 conical intersection decay channels. In line with the observed isomerization probability, only one of the S1/S0 conical intersections yields the cis conformation upon S1-->S0 decay. A substantially equivalent excited-state relaxation results from four T1/S0 intersystem crossing points.
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Affiliation(s)
- Jan Helbing
- Physikalisch-Chemisches Institut, Winterthurerstrasse 190, Universität Zürich, CH-8057 Zürich, Switzerland
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187
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Nibbering ETJ, Elsaesser T. Ultrafast Vibrational Dynamics of Hydrogen Bonds in the Condensed Phase. Chem Rev 2004; 104:1887-914. [PMID: 15080715 DOI: 10.1021/cr020694p] [Citation(s) in RCA: 422] [Impact Index Per Article: 20.1] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Affiliation(s)
- Erik T J Nibbering
- Max-Born-Institut für Nichtlineare Optik und Kurzzeitspektroskopie, Max-Born-Strasse 2 A, D-12489 Berlin, Germany
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188
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Lehtovuori V, Aumanen J, Myllyperkiö P, Rini M, Nibbering ETJ, Korppi-Tommola J. Transient Midinfrared Study of Light Induced Dissociation Reaction of Ru(dcbpy)(CO)2I2 in Solution. J Phys Chem A 2004. [DOI: 10.1021/jp036492u] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Viivi Lehtovuori
- Department of Chemistry, P.O. Box 35, FIN-40014, University of Jyväskylä, Finland, and Max-Born Institut für Nichtlineare Optik und Kurzzeitspektroskopie, Max Born Strasse 2A, D-12489 Berlin, Germany
| | - Jukka Aumanen
- Department of Chemistry, P.O. Box 35, FIN-40014, University of Jyväskylä, Finland, and Max-Born Institut für Nichtlineare Optik und Kurzzeitspektroskopie, Max Born Strasse 2A, D-12489 Berlin, Germany
| | - Pasi Myllyperkiö
- Department of Chemistry, P.O. Box 35, FIN-40014, University of Jyväskylä, Finland, and Max-Born Institut für Nichtlineare Optik und Kurzzeitspektroskopie, Max Born Strasse 2A, D-12489 Berlin, Germany
| | - Matteo Rini
- Department of Chemistry, P.O. Box 35, FIN-40014, University of Jyväskylä, Finland, and Max-Born Institut für Nichtlineare Optik und Kurzzeitspektroskopie, Max Born Strasse 2A, D-12489 Berlin, Germany
| | - Erik T. J. Nibbering
- Department of Chemistry, P.O. Box 35, FIN-40014, University of Jyväskylä, Finland, and Max-Born Institut für Nichtlineare Optik und Kurzzeitspektroskopie, Max Born Strasse 2A, D-12489 Berlin, Germany
| | - Jouko Korppi-Tommola
- Department of Chemistry, P.O. Box 35, FIN-40014, University of Jyväskylä, Finland, and Max-Born Institut für Nichtlineare Optik und Kurzzeitspektroskopie, Max Born Strasse 2A, D-12489 Berlin, Germany
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189
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Structural Dynamics of Myoglobin Probed by Femtosecond Infrared Spectroscopy of the Amide Band. B KOREAN CHEM SOC 2003. [DOI: 10.5012/bkcs.2003.24.10.1470] [Citation(s) in RCA: 14] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
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190
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Edler J, Hamm P. Two-dimensional vibrational spectroscopy of the amide I band of crystalline acetanilide: Fermi resonance, conformational substates, or vibrational self-trapping? J Chem Phys 2003. [DOI: 10.1063/1.1586694] [Citation(s) in RCA: 55] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022] Open
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191
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Bredenbeck J, Helbing J, Behrendt R, Renner C, Moroder L, Wachtveitl J, Hamm P. Transient 2D-IR Spectroscopy: Snapshots of the Nonequilibrium Ensemble during the Picosecond Conformational Transition of a Small Peptide. J Phys Chem B 2003. [DOI: 10.1021/jp034552q] [Citation(s) in RCA: 148] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Jens Bredenbeck
- Universität Zürich, Physikalisch Chemisches Institut, Winterthurer Strasse 190, CH-8057 Zürich, Switzerland, Max-Planck-Institut für Biochemie, Am Klopferspitz 18A, D-82152 Martinsried, Germany, and Johann Wolfgang Goethe Universität Frankfurt am Main, Institut für Physikalische und Theoretische Chemie, Marie-Curie-Strasse 11, D-60439 Frankfurt am Main, Germany
| | - Jan Helbing
- Universität Zürich, Physikalisch Chemisches Institut, Winterthurer Strasse 190, CH-8057 Zürich, Switzerland, Max-Planck-Institut für Biochemie, Am Klopferspitz 18A, D-82152 Martinsried, Germany, and Johann Wolfgang Goethe Universität Frankfurt am Main, Institut für Physikalische und Theoretische Chemie, Marie-Curie-Strasse 11, D-60439 Frankfurt am Main, Germany
| | - Raymond Behrendt
- Universität Zürich, Physikalisch Chemisches Institut, Winterthurer Strasse 190, CH-8057 Zürich, Switzerland, Max-Planck-Institut für Biochemie, Am Klopferspitz 18A, D-82152 Martinsried, Germany, and Johann Wolfgang Goethe Universität Frankfurt am Main, Institut für Physikalische und Theoretische Chemie, Marie-Curie-Strasse 11, D-60439 Frankfurt am Main, Germany
| | - Christian Renner
- Universität Zürich, Physikalisch Chemisches Institut, Winterthurer Strasse 190, CH-8057 Zürich, Switzerland, Max-Planck-Institut für Biochemie, Am Klopferspitz 18A, D-82152 Martinsried, Germany, and Johann Wolfgang Goethe Universität Frankfurt am Main, Institut für Physikalische und Theoretische Chemie, Marie-Curie-Strasse 11, D-60439 Frankfurt am Main, Germany
| | - Luis Moroder
- Universität Zürich, Physikalisch Chemisches Institut, Winterthurer Strasse 190, CH-8057 Zürich, Switzerland, Max-Planck-Institut für Biochemie, Am Klopferspitz 18A, D-82152 Martinsried, Germany, and Johann Wolfgang Goethe Universität Frankfurt am Main, Institut für Physikalische und Theoretische Chemie, Marie-Curie-Strasse 11, D-60439 Frankfurt am Main, Germany
| | - Josef Wachtveitl
- Universität Zürich, Physikalisch Chemisches Institut, Winterthurer Strasse 190, CH-8057 Zürich, Switzerland, Max-Planck-Institut für Biochemie, Am Klopferspitz 18A, D-82152 Martinsried, Germany, and Johann Wolfgang Goethe Universität Frankfurt am Main, Institut für Physikalische und Theoretische Chemie, Marie-Curie-Strasse 11, D-60439 Frankfurt am Main, Germany
| | - Peter Hamm
- Universität Zürich, Physikalisch Chemisches Institut, Winterthurer Strasse 190, CH-8057 Zürich, Switzerland, Max-Planck-Institut für Biochemie, Am Klopferspitz 18A, D-82152 Martinsried, Germany, and Johann Wolfgang Goethe Universität Frankfurt am Main, Institut für Physikalische und Theoretische Chemie, Marie-Curie-Strasse 11, D-60439 Frankfurt am Main, Germany
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192
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Bredenbeck J, Helbing J, Sieg A, Schrader T, Zinth W, Renner C, Behrendt R, Moroder L, Wachtveitl J, Hamm P. Picosecond conformational transition and equilibration of a cyclic peptide. Proc Natl Acad Sci U S A 2003; 100:6452-7. [PMID: 12736378 PMCID: PMC164467 DOI: 10.1073/pnas.1036583100] [Citation(s) in RCA: 128] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Ultrafast IR spectroscopy is used to monitor the nonequilibrium backbone dynamics of a cyclic peptide in the amide I vibrational range with picosecond time resolution. A conformational change is induced by means of a photoswitch integrated into the peptide backbone. Although the main conformational change of the backbone is completed after only 20 ps, the subsequent equilibration in the new region of conformational space continues for times >16 ns. Relaxation and equilibration processes of the peptide backbone occur on a discrete hierarchy of time scales. Albeit possessing only a few conformational degrees of freedom compared with a protein, the peptide behaves highly nontrivially and provides insights into the complexity of fast protein folding.
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Affiliation(s)
- Jens Bredenbeck
- Universität Zürich, Physikalisch Chemisches Institut, Winterthurer Strasse 190, Switzerland
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193
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Rini M, Holm AK, Nibbering ETJ, Fidder H. Ultrafast UV-mid-IR investigation of the ring opening reaction of a photochromic spiropyran. J Am Chem Soc 2003; 125:3028-34. [PMID: 12617669 DOI: 10.1021/ja028262j] [Citation(s) in RCA: 87] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
We present a femtosecond UV-mid-IR pump-probe study of the photochemical ring-opening reaction of the spiropyran 1',3',3',-trimethylspiro-[-2H-1-benzopyran-2,2'-indoline] (also known as BIPS) in tetrachloroethene, using 70 fs UV excitation pulses and probing with 100 fs mid-IR pulses. The time evolution of the transient IR absorption spectrum was monitored over the first 100 ps after UV excitation. We conclude that the merocyanine product is formed with a 28 ps time constant, contrasting with a 0.9 ps time constant obtained in previous investigations where the rise of absorption bands at visible wavelengths were associated with product formation. We deduce from the observed strong recovery of the spiropyran IR absorption bleaches that, in tetrachloroethene, the main decay channel for the S(1) excited state of the spiropyran BIPS, is internal conversion to the spiropyran S(0) state with a quantum yield of > or = 0.9. This puts an upper limit of 0.1 to the quantum yield of the photochemical ring-opening reaction.
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Affiliation(s)
- Matteo Rini
- Max-Born-Institut für Nichtlineare Optik und Kurzzeitspektroskopie, Max Born Strasse 2A, D-12489, Berlin, Germany
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194
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Krikunova M, Kummrow A, Voigt B, Rini M, Lokstein H, Moskalenko A, Scheer H, Razjivin A, Leupold D. Fluorescence of native and carotenoid-depleted LH2 from Chromatium minutissimum, originating from simultaneous two-photon absorption in the spectral range of the presumed (optically 'dark') S(1) state of carotenoids. FEBS Lett 2002; 528:227-9. [PMID: 12297310 DOI: 10.1016/s0014-5793(02)03315-x] [Citation(s) in RCA: 26] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
Abstract
Native and carotenoid-depleted peripheral purple bacterial light-harvesting complex (LH2) were investigated by simultaneous two-photon excited (between 1300-1500 nm) fluorescence (TPF). TPF results from direct bacteriochlorophyll excitation in both samples. The spectral position of the 2A(g)(-) state of rhodopin [corrected] is indicated by a diminuition of the bacteriochlorophyll TPF in native LH2. In conclusion, comparison to carotenoid-depleted samples is a conditio sine qua non for unambiguous interpretation of similar experiments.
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Affiliation(s)
- M Krikunova
- Max-Born-Institut für Nichtlineare Optik und Kurzzeitspektroskopie, Max-Born-Strasse 2a, D-12489 Berlin, Germany
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Woutersen S, Pfister R, Hamm P, Mu Y, Kosov DS, Stock G. Peptide conformational heterogeneity revealed from nonlinear vibrational spectroscopy and molecular-dynamics simulations. J Chem Phys 2002. [DOI: 10.1063/1.1506151] [Citation(s) in RCA: 205] [Impact Index Per Article: 8.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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Madsen D, Stenger J, Dreyer J, Hamm P, Nibbering ETJ, Elsaesser T. Femtosecond Mid-Infrared Pump–Probe Study of Wave Packet Motion in a Medium-Strong Intramolecular Hydrogen Bond. BULLETIN OF THE CHEMICAL SOCIETY OF JAPAN 2002. [DOI: 10.1246/bcsj.75.909] [Citation(s) in RCA: 25] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
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198
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Demirdöven N, Khalil M, Golonzka O, Tokmakoff A. Dispersion compensation with optical materials for compression of intense sub-100-fs mid-infrared pulses. OPTICS LETTERS 2002; 27:433-435. [PMID: 18007825 DOI: 10.1364/ol.27.000433] [Citation(s) in RCA: 21] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/25/2023]
Abstract
We report on the generation of essentially transform-limited mid-infrared pulses as short as 75 fs centered at 5mum with 6muJ of energy. Infrared materials with group-velocity dispersion values of opposite sign are used in combination to null second-order dispersion and compress the mid-infrared pulses.
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Edler J, Hamm P, Scott AC. Femtosecond study of self-trapped vibrational excitons in crystalline acetanilide. PHYSICAL REVIEW LETTERS 2002; 88:067403. [PMID: 11863850 DOI: 10.1103/physrevlett.88.067403] [Citation(s) in RCA: 30] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/21/2001] [Indexed: 05/23/2023]
Abstract
Femtosecond IR spectroscopy of delocalized NH excitations of crystalline acetanilide confirms that self-trapping in hydrogen-bonded peptide units exists and does stabilize the excitation. Two phonons with frequencies of 48 and 76 cm (-1) are identified as the major degrees of freedom that mediate self-trapping. After selective excitation of the free exciton, self-trapping occurs within a few 100 fs. Excitation of the self-trapped states disappears from the spectral window of this investigation on a 1 ps time scale, followed by a slow ground state recovery of the hot ground state within 18 ps.
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Affiliation(s)
- J Edler
- Max Born Institut für Nichtlineare Optik und Kurzzeitspektroskopie, Max Bornstrasse 2a, 12489 Berlin, Germany
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