Resonance Raman Investigation Research Articles

Excited-State Structural Dynamics of Propanil in the S2 State: Resonance Raman and First-Principle Investigation

Resonance Raman (RR) spectra and quantum chemical calculations were used to investigate the photodissociation dynamics of propanil in the S2 state. The RR spectra indicate that the photorelaxation dynamics for the S0 → S2 excited state of propanil is predominantly along nine motions: C═O stretch, ν51 (1659 cm(-1)), ring C═C stretch, ν50 (1590 cm(-1)), NH wag/ring C═C stretch, ν49 (1534 cm(-1)), ring CCH in-plane bend/NH wag, ν42 (1383 cm(-1)), NH wag/-CH2- rock, ν41 (1353 cm(-1)), ring C═C stretch/NH wag/-CH2- rock in-plane, ν40 (1299 cm(-1)), Ph-NH stretch/ring CCH in-plane bend, ν37 (1236 cm(-1)), ring CCH in-plane bend, ν35 (1150 cm(-1)), -CH2CH3 twist, ν33 (1080 cm(-1)), ring trigonal bend, ν31 (1029 cm(-1)), ring CCH bend out-of-plane, ν27 (899 cm(-1)), whole skeleton deformation in-plane, ν20(688 cm(-1)). Strong electron coupling between S1 and S2 of propanil is found by quantum chemistry calculations and depolarization spectra. The excited-state dynamics of the S2 state is discussed, and the results are compared with the previously reported results for formanilide to examine the Cl substitution effect.

UV resonance Raman investigations of peptide and protein structure and dynamics.

ADVERTISEMENT RETURN TO ISSUEPREVReviewNEXTUV Resonance Raman Investigations of Peptide and Protein Structure and DynamicsSulayman A. Oladepo†, Kan Xiong†, Zhenmin Hong†, Sanford A. Asher*†, Joseph Handen‡, and Igor K. Lednev‡View Author Information† Department of Chemistry, University of Pittsburgh, Pittsburgh, Pennsylvania 15260, United States ‡ Department of Chemistry, University at Albany, SUNY, 1400 Washington Avenue, Albany, New York 12222, United States*E-mail: [email protected]. Phone: 412-624-8570. Fax: 412-624-0588.Cite this: Chem. Rev. 2012, 112, 5, 2604–2628Publication Date (Web):February 15, 2012Publication History Received3 June 2011Published online15 February 2012Published inissue 9 May 2012https://doi.org/10.1021/cr200198aCopyright © 2012 American Chemical SocietyRIGHTS & PERMISSIONSArticle Views4593Altmetric-Citations156LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InReddit Read OnlinePDF (19 MB) Get e-AlertsSupporting Info (1)»Supporting Information Supporting Information SUBJECTS:Conformation,Melting,Nanofibers,Peptides and proteins,Protein structure Get e-Alerts

Time-Resolved Resonance Raman and Computational Investigation of the Influence of 4-Acetamido and 4-N-Methylacetamido Substituents on the Chemistry of Phenylnitrene

A time-resolved resonance Raman (TR(3)) and computational investigation of the photochemistry of 4-acetamidophenyl azide and 4-N-methylacetamidophenyl azide in acetonitrile is presented. Photolysis of 4-acetamidophenyl azide appears to initially produce singlet 4-acetamidophenylnitrene which undergoes fast intersystem crossing (ISC) to form triplet 4-acetamidophenylnitrene. The latter species formally produces 4,4'-bisacetamidoazobenzene. RI-CC2/TZVP and TD-B3LYP/TZVP calculations predict the formation of the singlet nitrene from the photogenerated S(1) surface of the azide excited state. The triplet 4-acetamidophenylnitrene and 4,4'-bisacetamidoazobenzene species are both clearly observed on the nanosecond to microsecond time-scale in TR(3) experiments. In contrast, only one species can be observed in analogous TR(3) experiments after photolysis of 4-N-methylacetamidophenyl azide in acetonitrile, and this species is tentatively assigned to the compound resulting from dimerization of a 1,2-didehydroazepine. The different photochemical reaction outcomes for the photolysis of 4-acetamidophenyl azide and 4-N-methylacetamidophenyl azide molecules indicate that the 4-acetamido group has a substantial influence on the ISC rate of the corresponding substituted singlet phenylnitrene, but the 4-N-methylacetamido group does not. CASSCF analyses predict that both singlet nitrenes have open-shell electronic configurations and concluded that the dissimilarity in the photochemistry is probably due to differential geometrical distortions between the states. We briefly discuss the probable implications of this intriguing substitution effect on the photochemistry of phenyl azides and the chemistry of the related nitrenes.

Highly Efficient Visible‐Light Driven Photochromism: Developments towards a Solid‐State Molecular Switch Operating through a Triplet‐Sensitised Pathway

We introduce a new highly efficient photochromic organometallic dithienylethene (DTE) complex, the first instance of a DTE core symmetrically modified by two Pt(II) chromophores [Pt(PEt(3))(2)(C≡C)(DTE)(C≡C)Pt(PEt(3))(2)Ph] (1), which undergoes ring-closure when activated by visible light in solvents of different polarity, in thin films and even in the solid state. Complex 1 has been synthesised and fully photophysically characterised by (resonance) Raman and transient absorption spectroscopy complemented by calculations. The ring-closing photoconversion in a single crystal of 1 has been followed by X-ray crystallography. This process occurs with the extremely high yield of 80%--considerably outperforming the other DTE derivatives. Remarkably, the photocyclisation of 1 occurs even under visible light (>400 nm), which is not absorbed by the non-metallated DTE core HC≡C(DTE)C≡CH (2) itself. This unusual behaviour and the high photocyclisation yields in solution are attributed to the presence of a heavy atom in 1 that enables a triplet-sensitised photocyclisation pathway, elucidated by transient absorption spectroscopy and DFT calculations. The results of resonance Raman investigation confirm the involvement of the alkynyl unit in the frontier orbitals of both closed and open forms of 1 in the photocyclisation process. The changes in the Raman spectra upon cyclisation have permitted the identification of Raman marker bands, which include the acetylide stretching vibration. Importantly, these bands occur in the spectral region unobstructed by other vibrations and can be used for non-destructive monitoring of photocyclisation/photoreversion processes and for optical readout in this type of efficiently photochromic thermally stable systems. This study indicates a strategy for generating efficient solid-state photoswitches in which modification of the Pt(II) units has the potential to tune absorption properties and hence operational wavelength across the visible range.

A study of inner process double-resonance Raman scattering in bilayer graphene

The dispersion of phonons and the electronic structure of graphene systems can be obtained experimentally from the double-resonance (DR) Raman features by varying the excitation laser energy. In a previous resonance Raman investigation of graphene, the electronic structure was analyzed in the framework of the Slonczewski–Weiss–McClure (SWM) model, considering the outer DR process. We analyze the data considering the inner DR process, and obtain SWM parameters that are in better agreement with those obtained from other experimental techniques.

Photofragmentation mechanisms of nickel methyl xanthate—resonance Raman and density functional theory investigation

AbstractThe C‐, D‐, and E‐band resonance Raman spectra were obtained for nickel methyl xanthate (NMX) in acetonitrile solution. Density functional calculations were carried out to help elucidate its ultraviolet electronic transitions and vibrational assignments of the resonance Raman spectra associated with the C‐, D‐, and E‐band absorptions. The Franck–Condon region photodissociation dynamics of NMX in C, D, and E‐band absorptions were revealed to have multidimensional characters and to be significantly different from one another in terms of the resonance Raman intensity patterns. The photofragmentation mechanism associated with C‐, D‐, and E‐band absorptions are briefly discussed. Copyright © 2010 John Wiley & Sons, Ltd.

UV resonance Raman investigation of the conformations and lowest energy allowed electronic excited states of tri- and tetraalanine: charge transfer transitions.

UV resonance Raman excitation profiles and Raman depolarization ratios were measured for trialanine and tetraalanine between 198 and 210 nm. Excitation within the pi --> pi* electronic transitions of the peptide bond results in UVRR spectra dominated by amide peptide bond vibrations. In addition to the resonance enhancement of the normal amide vibrations, we find enhancement of the symmetric terminal COO(-) vibration. The Ala(3) UVRR AmIII(3) band frequencies indicate that poly-proline II and 2.5(1) helix conformations and type II turns are present in solution. We also find that the conformation of the interior peptide bond of Ala(4) is predominantly poly-proline-II-like. The Raman excitation profiles of both Ala(3) and Ala(4) reveal a charge transfer electronic transition at 202 nm, where electron transfer occurs from the terminal nonbonding carboxylate orbital to the adjacent peptide bond pi* orbital. Raman depolarization ratio measurements support this assignment. An additional electronic transition is found in Ala(4) at 206 nm.

Time-Resolved Resonance Raman Study of the Effect of pH on the Photoreactions of 3-Benzoylpyridine in Aqueous Solution

A nanosecond time-resolved resonance Raman investigation of the photoreactions of 3-benzoylpyridine (3-BPy) in different pH aqueous solutions is reported. In neutral, basic, and pH = 5 aqueous solution conditions, the photoreduction reaction from the triplet 3-BPy species is observed to produce the corresponding 3-phenyl pyridyl ketyl radical that was also observed in a 2-propanol solvent. Under moderate acidic conditions (at pH = 3 for example), most of the 3-BPy triplet state species goes through two protonation steps at the nitrogen atom and the carbonyl oxygen atom after UV laser photolysis and then forms a short-lived hydration intermediate via a hydration reaction at the ortho position in the benzene ring. This new species is tentatively assigned to the o-3[3-BPyH+.H2O] hydration species. In acidic aqueous solutions with a pH < or = 1, the protonated triplet states of 3-BPy cations at the nitrogen atom are generated from photoexcitation of the protonated ground state and are subsequently further protonated at the carbonyl oxygen atom to form a 3-BPy-dication triplet state. This dication intermediate reacts with water molecules at the ortho position of the benzene ring to produce the o-3[3-BPyH+.H2O] hydration species. The mechanisms of photoreduction observed for 3-BPy in different pH aqueous solutions were investigated using density functional theory calculations, and these results were used to help assign the intermediates observed in the experiments. The structures and properties of these species are briefly discussed, and an overall photoreaction mechanism is proposed based on the results from the time-resolved resonance Raman experiments and the density functional theory calculations.

Probing antiaromaticity: resonance Raman investigation of a series of differently substituted boroles

AbstractWe report an investigation of four differently substituted boroles by resonance Raman (RR) spectroscopy with the aim of gaining insight into the structural changes that occur upon electronic π–π* excitation in the five‐membered BC4 ring. Such boroles are prototypes for the theory of antiaromaticity, because the empty pz orbital at the boron interacts with the π system of the carbon backbone to delocalize the four π electrons. The magnitude of this interaction depends on the substituents at the boron atom. In all compounds, an intense band appears around 1600 cm−1, which can be assigned to a CC stretching vibration. The selective amplification of this mode indicates an expansion of the borole ring upon electronic excitation. The resonant enhancement of another mode at around 1300 cm−1, which can be assigned to a vibration between the boron and the substituent, gives evidence that the degree of antiaromaticity in the borole depends strongly on the interaction between the substituent at the boron atom with the empty pz orbital of the boron. When the boron is connected to a ferrocene, this band appears with high intensity, indicating a strong interaction between B and Fe. Furthermore, we studied the dependence of the excitation wavelength on the Raman intensities. In addition, we used DFT calculations to determine the vibrational wavenumbers. Copyright © 2009 John Wiley &amp; Sons, Ltd.

Time-Resolved Resonance Raman and Density Functional Theory Investigation of the Photochemistry of (S)-Ketoprofen

Ketoprofen is known to induce photosensitivity due to its specific structure and electronic features, and this limits its use in medical applications. In this Article, the photochemistry of (S)-ketoprofen has been investigated by time-resolved resonance Raman spectroscopy to gain additional information so as to better elucidate the possible photochemical reaction mechanism of ketoprofen in different solvents. In nonaqueous solvents like neat acetonitrile and isopropyl alcohol, and 1:1 acetonitrile:water and 1:1 acetonitrile:acidic water aqueous solvents, (S)-ketoprofen exhibits benzophenone-like photochemistry to produce a triplet state, which in turn produces a ketyl radical-like species that then undergoes a cross-coupling reaction with either a dimethyl radical (which is generated by hydrogen abstraction of isopropyl alcohol) or a water molecule, respectively, at the para-position to form a transient species that has a lifetime up to the microsecond time scale. However, photolysis of (S)-ketoprofen in a 1:1 acetonitrile:alkaline water solution and 3:7 acetonitrile:phosphate buffered solution appears to undergo a prompt decarboxylation reaction. Only one species was observed in the nanosecond time-resolved resonance Raman experiments under these conditions, and this species was tentatively assigned to be a triplet protonated biradical carbanion.

Time-Resolved Resonance Raman and Density Functional Theory Investigation of the Photoreactions of Benzophenone in Aqueous Solution

A time-resolved resonance Raman study of the photoreactions of benzophenone (BP) in neutral, alkaline, and acidic aqueous solutions is reported. Under neutral and alkaline conditions, a hydrogen abstraction reaction is observed to form the corresponding diphenyl ketyl (DPK) radical with different reaction rates while under acidic condition the protonation of triplet benzophenone occurs simultaneously, which is followed by a faster hydration reaction to produce the corresponding photohydration short-lived intermediates that were observed during experiments and that were tentatively assigned to the m-(3)BP x H(2)O and the o-(1)BP x H(2)O species. The dynamics, structures, and properties of these species are briefly discussed.

Resonance Raman Investigation of the R481 Mutants of Cytochrome c Oxidase from R. sphaeroides

The enzymes of the heme-copper oxidase superfamily have a highly conserved arginine residue (R438, R481, and R473 of the bovine, R. sphaeroides, and P. denitrificans cytochrome c oxidases, respectively), which is located close to the heme-propionate substituents of the heme a and heme a3 moieties. To explore the structural and functional implications of this conserved arginine, we used resonance Raman spectroscopy to study the heme vibrational spectra of the R481 mutant proteins (R481H, R481Q, and R481L) of cytochrome c oxidase from R. sphaeroides. All the mutants showed significant down-shifts in the C=O stretching vibrational frequencies of the heme a and a3 formyl substituent groups in the fully oxidized state, while they showed up- and down-shifts of the a and a3 formyl C=O stretching modes, respectively, in the fully reduced state. On the basis of these observations, the role of the conserved arginine will be discussed.

Density Functional Theory and Time-Resolved Resonance Raman Investigation of the Photocyclization of 2-Pyridyl Phenyl Ketone in Acid Solution

Density functional theory computations and nanosecond time-resolved resonance Raman (ns-TR(3)) spectroscopy experiments were done to study the photocyclization of 2-pyridyl phenyl ketone in acid solution. The most probable cyclization pathway was assigned to the reaction RX1, which had the lowest free-energy barrier. The factors that determine the free-energy barriers among the different reactions examined were discussed. Solvent effects on these reactions were also explored by calculations that included a polarizable continuum model for the bulk solvent effect.

Structure and Conformation of Photosynthetic Pigments and Related Compounds. 13. Identification of Localized Vibrational Modes in Chlorophyll A Derivatives

A Resonance Raman investigation of chlorophyll a and meso-chlorinated and ring V hydroxylated derivatives and pheophytins reveals localized vibrational modes in the chlorophyll series. Both chlorination and hydroxylation give rise to changes in both band intensity and frequency the spectrum. Chlorination affects mainly the core sensitive bands with CaCm and CaN character. Hydroxylation leads to changes in the carbonyl and ring V associated bands. Small, but real spectral differences were found between the 10-epimers.

Role of Ribose in the Initial Excited State Structural Dynamics of Thymidine in Water Solution: A Resonance Raman and Density Functional Theory Investigation

Resonance Raman spectra were obtained for thymidine and thymine with excitation wavelengths in resonance with the approximately 260 nm band absorption spectrum. The spectra indicate that the Franck-Condon (FC) region photodissociation dynamics of thymidine have multidimensional character with motion predominantly along the nominal C5=C6 stretch + C6-H bend nu17 (delta = 0.75, lambda = 468 cm(-1)), the nominal thymine ring stretch + C6-H bend + N1-C1, stretch nu29 (delta = 0.73, lambda = 363 cm(-1)), the nominal thymine ring stretch + C5-CH3/ N1-C1, stretch nu37 (delta = 0.69, lambda = 292 cm(-1)), and accompanied by the moderate and minor changes in the nu40, nu20 and nu23, nu55, nu60, nu61, nu63 modes. A preliminary resonance Raman intensity analysis was done, and these results for thymidine and thymine were compared to each other. The roles of ribose in the FC structure dynamics of thymidine were explored and the results were used to correlate to its lifetime constants tau1 and tau2 for two nonradiative decay channels. Spi/Sn conical intersection versus a distorted structure of Spi,min in the FC region was briefly discussed.

UV resonance raman investigation of electronic transitions in alpha-helical and polyproline II-like conformations.

UV resonance Raman (UVRR) excitation profiles and Raman depolarization ratios were measured for a 21-residue predominantly alanine peptide, AAAAA(AAARA) 3A (AP), excited between 194 and 218 nm. Excitation within the pi-->pi* electronic transitions of the amide group results in UVRR spectra dominated by amide vibrations. The Raman cross sections and excitation profiles provide information about the nature of the electronic transitions of the alpha-helix and polyproline II (PPII)-like peptide conformations. AP is known to be predominantly alpha-helical at low temperatures and to take on a PPII helix-like conformation at high temperatures. The PPII-like and alpha-helix conformations show distinctly different Raman excitation profiles. The PPII-like conformation cross sections are approximately twice those of the alpha-helix. This is due to hypochromism that results from excitonic interactions between the NV 1 transition of one amide group with higher energy electronic transitions of other amide groups, which decreases the alpha-helical NV 1 (pi-->pi*) oscillator strengths. Excitation profiles of the alpha-helix and PPII-like conformations indicate that the highest signal-to-noise Raman spectra of alpha-helix and PPII-like conformations are obtained at excitation wavelengths of 194 and 198 nm, respectively. We also see evidence of at least two electronic transitions underlying the Raman excitation profiles of both the alpha-helical and the PPII-like conformations. In addition to the well-known approximately 190 nm pi-->pi* transitions, the Raman excitation profiles and Raman depolarization ratio measurements show features between 205-207 nm, which in the alpha-helix likely results from the parallel excitonic component. The PPII-like helix appears to also undergo excitonic splitting of its pi-->pi* transition which leads to a 207 nm feature.

Resonance Raman and theoretical investigation of the photodissociation dynamics of benzamide in S3 state

Resonance Raman spectra were obtained for benzamide in methanol and acetonitrile solutions with excitation wavelengths in resonance with the S(3) state. These spectra indicate that the Franck-Condon region photodissociation dynamics have multidimensional character with the motions mainly along the benzene ring C[Double Bond]C stretch nu(9), the Ph-CO-NH(2) and ring benzene stretch nu(14), the CCH in plane bend nu(17), the Ph-CO-NH(2) stretch and NH(2) rock nu(19), the ring trigonal bend nu(23), and the ring deformation and Ph-CO-NH(2) stretch nu(29). A preliminary resonance Raman intensity analysis was done, and the results were compared to those previously reported for acetophenone to examine the substituent effect. Solvent effect on the short-time photodissociation dynamics of benzamide was also examined. A conical intersection point S(2)S(3) between S(3) and S(2) potential energy surfaces of benzamide was determined by using a complete active space self-consistent field theory computations. The structural differences and similarities between S(3)S(2) point and S(0) were examined, and the results were used to correlate to the Franck-Condon photodissociation dynamics of benzamide in S(3) state.

Resonance Raman investigation of redox‐induced structural changes of protein and heme in the sensor domain of Ec DOS protein

AbstractThe direct oxygen‐sensor protein from Escherichia coli (Ec DOS) is a heme‐based signal transducer protein responsible for phosphodiesterase (PDE) activity. We investigated the redox‐dependent conformational changes of the sensor domain (Ec DOSH) of Ec DOS by using ultraviolet resonance Raman (UVRR) spectroscopy excited at 229 and 244 nm in combination with site‐directed mutagenesis. The UVRR‐difference spectra (reduced–oxidized) of the wild‐type (WT) revealed several features for the Trp and Tyr bands, indicating that these residues undergo environmental changes. Some of these features were assigned to Trp53, Tyr126, and Tyr80, which are located near the 2‐vinyl, 4‐vinyl, and propionate side chains of heme, respectively. Other changes of UVRR spectra were assigned to Tyr55, Trp110, and Tyr125, which are located near the surface of Ec DOSH, implying that this protein undergoes global conformational changes upon redox change of heme. Furthermore, the mutation of Tyr55 in the full‐length protein (Ec DOS), which is located in heme proximal side near Trp53, perturbed the PDE activity compared with WT, demonstrating the importance of Tyr55 for the catalytic reaction. Finally, visible RR spectra of Ec DOSH showed significant changes in vibrations of heme peripheral groups upon a redox change. Thus, our results strongly suggest that heme redox changes induce structural changes of the heme side chains, and then are communicated to the surface of the sensor domain through Trp53, Tyr126, and Tyr80, resulting in global changes of the protein conformation. Copyright © 2008 John Wiley &amp; Sons, Ltd.

Structural chemistry involved in information detection and transmission by gas sensor heme proteins: Resonance Raman investigation

Abstract A variety of heme-containing gas sensor proteins have been discovered by gene analysis from bacteria to mammals. In general, these proteins are composed of an N-terminal heme-containing sensor domain and a C-terminal catalytic domain. Binding of O2, CO, or NO to the heme causes a change in the structure of heme, which alters the protein conformation in the vicinity of the heme, and the conformational change is propagated to the catalytic domain, leading to regulation of the protein activity. This mini-review summarizes the recent resonance Raman studies obtained with both visible and UV excitation sources for two O2 sensor proteins, EcDOS and HemAT-Bs. These investigations have shown the role of heme propionate hydrogen-bonding interactions in communicating the heme structural changes, which occur upon ligand binding, from heme to the protein moiety. Furthermore, it is deduced that the contact interactions between the heme 2-vinyl group and the surrounding residues are also important for signal transmission from heme to protein in EcDOS.

Time-Resolved Resonance Raman Investigation of the 2-Fluorenylnitrenium Ion Reactions with C8 Guanosine Derivatives

A nanosecond time-resolved resonance Raman (ns-TR3) spectroscopic study of the reactions of the 2-fluorenylnitrenium ion with several C8-substituted guanosine derivatives is reported. The TR3 spectra show that the 2-fluorenylnitrenium ion reacts with the C8-substituted guanosine derivatives (C8-methylguanosine and C8-bromoguanosine) to produce C8 intermediates with the methyl and bromine moieties still attached to the intermediate species at the C8 position. The C8-bromoguanosine species was observed to be less reactive toward the 2-fluorenylnitrenium ion compared to the guanosine and C8-methylguanosine species. Comparison of the TR3 spectra to the results obtained from density functional theory calculations was used to characterize the C8 intermediates observed to learn more about their structure and properties. The implications of these results for the chemical reactivity of arylnitrenium ions toward substituted guanosine derivatives are briefly discussed.