Five isomers of monomeric cytosine and their interconversions induced by tunable UV laser light

Photoisomerization processes involving five isomers of cytosine were induced by narrowband tunable UV irradiation of matrix-isolated monomers of the compound. Irradiation of an argon matrix containing cytosine monomers with UV λ = 313 nm laser light resulted in syn?anti photoisomerizations between the two imino-oxo forms, whereas the substantially more populated amino-hydroxy and amino-oxo forms stayed intact. Subsequent irradiation with shorter-wavelength UV λ = 311 nm laser light led to two concomitant phototautomeric processes consuming the amino-oxo isomer: (i) an oxo → hydroxy hydrogen-atom transfer photoprocess converting the amino-oxo form into the amino-hydroxy tautomer; (ii) amino → imino hydrogen-atom transfer converting the amino-oxo form into the imino-oxo isomers. The UV-induced phototransformations, together with mutual conversions of the two amino-hydroxy conformers induced by irradiation with narrowband NIR light, allowed positive detection and identification of the five isomeric forms of monomeric cytosine. This is the first experimental observation of all five low-energy isomers of cytosine.     

Photochemical syn-anti isomerization reactions in N2-hydroxyisocytosines--an experimental matrix isolation and theoretical study

N2-hydroxyisocytosine and 1-methyl-N2-hydroxyisocytosine were studied using a matrix isolation technique combined with infrared absorption spectroscopy. For N2-hydroxyisocytosine isolated in an Ar matrix (at 10 K), two imino-oxo isomers, one with the hydroxyimino =N-OH group directed toward the N1-H group (the form called further anti) and the second with the =N-OH group directed toward N3-H (syn), were observed in the ratio 1.4:1. The syn isomer is converted totally to the anti form after UV (lambda > 295 nm) irradiation of the matrix. A small amount of the N(3)H-hydroxy-amino tautomer of N2-hydroxyisocytosine was also detected in the matrix. This form did not react photochemically. For 1-methyl-N2-hydroxyisocytosine, only the syn form of the imino-oxo tautomer was observed after deposition of the matrix. UV (lambda > 295 nm) irradiation induced a photoreaction converting this isomer into the anti form. After 15% of the starting material had been converted into the product, a photostationary state was achieved, and no further progress of the reaction was observed. Subsequent UV irradiation (lambda > 335 nm) caused a back reaction, leading to a disappearance of the anti form and to the recovery of the initial syn isomer. All isomers were identified by comparing their experimental IR spectra with the spectra theoretically calculated at the DFT(B3LYP)/6-31G(d,p) level, where DFT is the density functional theory. Good agreement between the observed and predicted patterns of the spectral lines allowed for reliable identification. The experimental IR spectra were interpreted and discussed. The relative energies of the 12 isomers of N2-hydroxyisocytosine were calculated at the MP2/6-31G(d,p) and MP4//MP2/6-31G(d,p) levels. For six isomers of 1-methyl-N2-hydroxyisocytosine, the calculations were carried out at the MP2/6-31G(d,p) level. The anti form of the imino-oxo tautomer of N-hydroxyisocytosine and the syn form of the imino-oxo tautomer of 1-methyl-N2-hydroxyisocytosine were predicted to be the most stable.     

Photoinduced rotational isomerization mechanism of 2-chlorobenzaldehyde in low-temperature rare-gas matrices by vibrational and electronic spectroscopies

Rotational isomerization of 2-chlorobenzaldehyde in low-temperature rare-gas matrices has been investigated by vibrational and electronic spectroscopies with aids of the density functional theory (DFT) and configuration interaction single (CIS) calculations. Infrared spectrum of the less stable O-cis isomer, produced from the more stable O-trans isomer upon UV irradiation, is measured with an FT-IR spectrophotometer. The enthalpy difference between the O-cis and O-trans isomers is estimated to be 9.7±0.2 kJ mol⁻¹ from the temperature dependence of the infrared band intensities. Analyses of the infrared and electronic absorption spectral changes after UV irradiation and the phosphorescence spectra measured at various excitation wavelengths suggest that the rotational isomerization occurs via the intersystem crossing from S₁ to T₁.     

Control of the Orientation and Photoinduced Phase Transitions of Macrocyclic Azobenzene

Photoinduced phase transitions caused by photochromic reactions bring about a change in the state of matter at constant temperature. Herein, we report the photoinduced phase transitions of crystals of a photoresponsive macrocyclic compound bearing two azobenzene groups ( 1 ) at room temperature on irradiation with UV (365 nm) and visible (436 nm) light. The trans/trans isomer undergoes photoinduced phase transitions (crystal–isotropic phase–crystal) on UV light irradiation. The photochemically generated crystal exhibited reversible phase transitions between the crystal and the mesophase on UV and visible light irradiation. The molecular order of the randomly oriented crystals could be increased by irradiating with linearly polarized visible light, and the value of the order parameter was determined to be ?0.84. Heating enhances the thermal cis‐to‐trans isomerization and subsequent cooling returned crystals of the trans/trans isomer.     

Matrix-isolation infrared spectroscopy of the rotational isomers of 1,2-, 1,3-, and 1,4-benzenedicarboxaldehyde

Rotational isomers (rotamers) of the three structural isomers of benzenedicarboxaldehydes (1,2-, 1,3-, and 1,4-derivatives) have been investigated in detail using matrix-isolation infrared spectroscopy in the 600-4000 cm-1 region, combined with UV photoexcitation and density-functional theory (DFT) calculations. Two rotamers were identified for 1,2- and 1,4-benzenedicarboxaldehyde (1,2- and 1,4-BDA, respectively), while three rotamers were identified for 1,3-benzenedicarboxaldehyde (1,3-BDA) in infrared spectra upon UV-irradiation. Most of the observed infrared bands of each rotamer have been assigned. The energetic relationships among the rotamers were revealed based on the infrared data and the DFT calculations. It is shown that the intramolecular C-H...H-C interaction in the H-syn rotamer or the C-H...O=C hydrogen bonding in the anti rotamer of 1,2-BDA results in the blue-shift of the aldehyde C-H stretching band and the shortening of the aldehyde C-H bond length. Both photoinduced rotational isomerization and rearrangement were observed upon UV irradiation for 1,2-BDA. The structure of the major enol isomer formed as the result of the photochemical rearrangement of 1,2-BDA is determined.     

IR laser manipulation of cis<-->trans isomerization of 2-naphthol and its hydrogen-bonded clusters

The cis<-->trans isomerization reaction has been carried out for 2-naphthol and its hydrogen (H) bonded clusters by infrared (IR) laser in the electronic excited state (S1) in supersonic jets. A specific isomer in the jet was pumped to the X-H stretching vibration in the S1 state, where X refers to C, O, or N atom, by using a stepwise UV-IR excitation, and the dispersed emission spectra of the excited species or generated fragments were observed. It was found that the isomerization occurs only in the H-bonded clusters but a bare molecule does not exhibit the isomerization in the examined energy region of Ev< or =3610 cm(-1), indicating a reduction of the isomerization barrier height upon the H bonding. The relative yield of the isomerization was observed as a function of internal energy. The isomerization yield was found to be very high at the low IR frequency excitation, and was rapidly reduced with the IR frequency due to the competition of the dissociation of the H bond within the isomer. Density-functional theory (DFT) and time-dependent DFT calculations were performed for estimating the barrier height of the isomerization for bare 2-naphthol and its cluster for electronic ground and excited states. The calculation showed that the isomerization barrier height is highly dependent on the electronic states. However, the reduction of the height upon the hydrogen bonding was not suggested at the level of our calculation.     

PHOTOCYCLOADDITION REACTION OF 5,7-DIMETHOXYCOUMARIN TO THYMIDINE

Abstract— The photocycloaddition reaction of 5,7-dimethoxycoumarin to thymidine on direct irradiation (λ > 300 nm) is studied as a model for photosensitization reaction of furocoumarins. The major photoadducts were isolated by silica gel column and gel permeation chromatography. Each component of the photoadducts was further separated by reverse phase, paired-ion high performance liquid chromatography. The structure of these photoproducts isolated is consistent with 1:1 C₄-cycloadducts in accordance with characteristics of their UV, IR, NMR and mass spectra and elemental analysis data. The stereochemistry of each isomer was studied by Fourier transform NMR, UV and IR spectra. The fraction C has the anti head-to-tail configuration and the fraction D has the configuration of anti head-to-head. The fractions A and B probably have the syn configuration.     

Excited-state dynamics of spiropyran-derived merocyanine isomers

Merocyanine (MC) isomers that are formed after absorption of a UV photon by 1',3'-dihydro-1',3'-3'-trimethyl-6-nitrospiro[2H-1-benzopyran-2',2'-(2H)-indole] were studied. Several, predominantly TTC and TTT, merocyanine isomers are present in toluene solution ("T" and "C" indicate trans and cis conformations of the C-C bonds in the methine bridge). Excitation in the MC visible absorption band (at 490, 550, and 630 nm) with 100 fs laser pulses was used to study MC excited-state dynamics. Internal conversion on the picosecond time scale was found to be the dominant relaxation pathway. Excited-state isomerization reactions were also observed. Excitation at 630 nm (assigned to TTC isomer excitation) leads to formation of a third isomer (either CTC or CTT). Excitation at 490 nm (assigned to TTT isomer excitation) leads to more complex excited-state relaxation, including formation of two isomers: TTC (absorption at 600 nm) and CTC or CTT (absorption at 650 nm).     

Photoinduced amino-imino tautomerism: an infrared study of 2-amino-5-methylpyridine in a low-temperature argon matrix

The photoreaction of 2-amino-5-methylpyridine was investigated by matrix-isolation infrared spectroscopy and DFT calculation. Photoinduced reversible amino (N=C-NH(2))-imino (NH-C=NH) tautomerism was found between 2-amino-5-methylpyridine and 5-methyl-2(1H)-pyridinimine; the amino tautomer changes to the imino tautomer by UV irradiation (340>lambda>or= 300 nm) and the reverse change occurs by longer-wavelength light irradiation (420>lambda>or= 340 nm). The results of the CASSCF calculation revealed that the amino-imino tautomerism proceeds in vibrational relaxation process from electronic excited state to the ground state. The IR spectra of 2-amino-5-methylpyridine in the T(1) state and 5-methyl-2-pyridinamino radical were also obtained by UV irradiation (lambda>or= 300 nm).     

A combined spectroscopic and theoretical study of propofol[middle dot](H(2)O)(3)

Propofol (2,6-di-isopropylphenol) is probably the most widely used general anesthetic. Previous studies focused on its complexes containing 1 and 2 water molecules. In this work, propofol clusters containing three water molecules were formed using supersonic expansions and probed by means of a number of mass-resolved laser spectroscopic techniques. The 2-color REMPI spectrum of propofol[middle dot](H(2)O)(3) contains contributions from at least two conformational isomers, as demonstrated by UV/UV hole burning. Using the infrared IR/UV double resonance technique, the IR spectrum of each isomer was obtained both in ground and first excited electronic states and interpreted in the light of density functional theory (DFT) calculations at M06-2X/6-311++G(d,p) and B3LYP/6-311++G(d,p) levels. The spectral analysis reveals that in both isomers the water molecules are forming cyclic hydrogen bond networks around propofol's OH moiety. Furthermore, some evidences point to the existence of isomerization processes, due to a complicated conformational landscape and the existence of multiple paths with low energy barriers connecting the different conformers. Such processes are discussed with the aid of DFT calculations.     

UV-, VIS- and IR-light-induced isomerization of HSNO in a low-temperature matrix

An infrared spectroscopic investigation has been performed on the trans and cis isomers of thionitrous acid (HSNO) and their D- and ¹⁵NO-isotopic modifications in argon matrices at 12 K. The substances were prepared photolytically from thionylimide (HNSO) isotopes in the matrix. With UV (250 nm), VIS (585 nm), and IR irradiation the cis → trans or the trans → cis isomerization of HSNO was induced, allowing an unequivocal distinction between the closely resembling IR spectra of the trans and cis isomers. Complete sets of fundamental frequencies of both rotamers were obtained and assigned by normal coordinate analysis using the transferable valence force field (TVFF) approach. Parallel to this analysis ab initio calculations on the SCF- and CI-levels were performed to predict energy, geometry, and barrier of internal rotation for the two HSNO rotamers.     

Non-coherent visible and infrared radiation increase survival to UV (254 nm) in Escherichia coli K12

Interactions between visible or infrared (IR) and ultraviolet (UV, 254 nm) radiation have been studied in E. coli. Pre-illumination with non-coherent monochromatic 446, 466, 570 and 685 nm radiation, as well as with polychromatic red and IR radiation at room temperature, leads to increased cell survival after a subsequent irradiation with UV light. In the thermic range of the spectrum (red and IR), IR but not red light pre-treatment is able to increase cell survival to a subsequent lethal heat (51 degrees C) challenge, suggesting that increased UV survival may be due to IR-induced heat-shock response. On the other hand, visible-light-induced resistance may be due to a different mechanism, possibly involved with unknown bacterial light receptors.     

Structural studies and photochromism of mercury(II)-iodo complexes of (arylazo)imidazoles

Neat reaction between HgI2 and 1-methyl-2-(phenylazo)imidazole (Pai-Me) under microwave irradiation has isolated a novel compound whose structure shows intercalated HgI2 in the layers of Pai-Me. They exist independently in interpenetrated arrays. In a solution phase study, the same reaction has synthesized an iodo-bridged azoimidazole-Hg(II) complex, [Hg(RaaiR')(mu-I)(I)]2 (RaaiR' = 1-alkyl-2-(arylazo)imidazole). The structures have been characterized by X-ray diffraction studies. Chloro-bridged Hg(II) complexes of azoimidazoles, [Hg(RaaiR')(mu-Cl)(Cl)]2, are also known. These complexes upon irradiation with UV light show trans-to-cis isomerization. The reverse transformation, cis-to-trans isomerization, is very slow with visible light irradiation. Quantum yields (phi t-->c) of trans-to-cis isomerization are calculated, and the free ligand shows higher phi than their Hg(II) complexes. The cis-to-trans isomerization is a thermally induced process. The activation energy (Ea) of cis-to-trans isomerization is calculated by controlled temperature reaction. The Ea's of free ligands are much higher than that of halo-bridged Hg(II)-azoimidazole complexes. Chloro-bridged Hg(II) complexes show lower Ea's than those of iodo-bridged complexes. DFT calculation has been adopted to rationalize the experimental results.     

Spectroscopic and electrical studies for the influence of ion beam and X-ray irradiation on poly-2-(N-propenamido-2-methylpropanesulfonic acid) and its polymer complex with cobalt chloride

The influence of argon ion beam and X-ray irradiations on poly-2-(N-propenamido-2-methylpropanesulfonic acid) (PPMPS) and its polymer complex with Co (II), (PPMPS-Co (II)), were studied using IR, UV/visible and d.c. electrical conductivity. After irradiation the polymer changed in color and become less soluble. The IR spectrum of irradiated PPMPS shows broadened bands at 3400 and 3550 cm^-1 which are assigned to stretch bands of NH and OH, respectively, as a consequence of intramolecular cyclization. Furthermore, a comparison of IR and UV/visible spectra of irradiated and non-irradiated PPMPS-Co(II), reveals that the main effect of irradiation was the degradation effect. Measurements of d.c. electrical conductivity for irradiated and non-irradiated polymers showed an increase of conductivity for the coordinated polymers compared to PPMPS. A relatively higher resistivity for the ion beam irradiated polymers and lower resistivity in case of X-ray irradiation have been observed. The increases of conductivity for the coordinated polymers compared to PPMPS were explained by the changes in glass transition temperatures (T_g) and activation energies for the different polymers.     

Wavelength-dependent photochemistry of Diazo Meldrum's acid and its spirocyclic isomer,Diazirino Meldrum's acid: Wolff rearrangement versus isomerization

Photoreaction of diazo Meldrum's acid (1) shows a unique wavelength selectivity. At 254 nm it results in efficient (phi(254) = 0.34) Wolff rearrangement, while irradiation with 355 nm light leads to a completely different process, isomerization into corresponding cyclic alpha,alpha"-dicarbonyl diazirine 2 (phi(350) = 0.024). UV photolysis of diazirine 2 is accompanied by two competing processes: loss of nitrogen followed by the Wolff rearrangement and isomerization into diazo compound 1. Thermal decomposition of 1 leads to clean Wolff rearrangement, while heating of 2 causes quantitative conversion into diazo isomer 1.     

New ferrocenyl-chalcones and bichalcones: Synthesis and characterization

Ferrocenyl-chalcones and their bichalcone analogues were characterized by IR and NMR spectroscopy, as well as electrochemically. Their UV–visible spectra were recorded, and the electronic transitions were assigned by time-dependent DFT calculations. The single-crystal X-ray structures were determined for two ferrocenyl bichalcones.     

The gas-phase dipeptide analogue acetyl-phenylalanyl-amide: a model for the study of side chain/backbone interactions in proteins

The issue of the influence of the side chain/backbone interaction on the local conformational preferences of a phenylalanine residue in a peptide chain is addressed. A synergetic approach is used, which combines gas-phase UV spectroscopy as well as gas-phase IR/UV double-resonance experiments with DFT and post Hartree-Fock calculations. N-Acetyl-Phe-amide was chosen as a model system for which three different conformers were observed. The most stable conformer has been identified as an extended beta(L) conformation of the peptide backbone. It is stabilized by a weak but significant NH-pi interaction bridging the aromatic ring on the residue (i) with the NH group on residue (i+1), with the aromatic side chain being in an anti conformation. This stable conformation corresponds to the common NH(i+1)-aromatic(i) interaction encountered in proteins for the three aromatic residues (phenylalanine, tyrosine, and tryptophan), which illustrates the relevance of gas-phase investigations to structural biology issues. The two other less abundant conformers have been assigned to two gamma-folded backbone conformations that differ by the orientation of the side chain. In all cases, the IR data provided spectroscopic fingerprints of these interactions. Finally, the strong conformational dependence of the fluorescence yield found for N-acetyl-Phe-amide illustrates the role of the environment on the excited-state dynamics of these species, which is often exploited by biochemists to monitor protein structural changes from tryptophan lifetime measurements.     

Photochemical syn-anti isomerization reaction in N4-hydroxycytosine. An experimental matrix isolation and theoretical study

Infrared spectra of N4-hydroxycytosine isolated in argon and nitrogen low-temperature matrixes are reported. The compound was found to adopt the syn structure of the imino-oxo tautomeric form exclusively. A photoreaction (lambda > 250 nm) converting this form into the anti isomer was observed. The reaction is reversible and leads to a photostationary point. The initial infrared spectrum and the spectrum of the photoproduct were assigned to the syn and anti isomers, respectively. This assignment is based on a close agreement between the experimental spectra and the spectra theoretically simulated at the DFT(B3LYP)/6-31++G** level of theory.     

NMR kinetic investigations of the photochemical and thermal reactions of a photochromic chromene

The photochromic behavior of 2,2-di(4-fluorophenyl)-6-methoxy-2H-1-chromene has been investigated by 19F NMR spectroscopy. Photocoloration under UV irradiation at low temperature led to the formation of three interconverting photoisomers including two merocyanines and an unprecedented allenyl-phenol isomer. Photobleaching with visible light, which was known to lead to reversion to the initial closed chromene, was shown to increase allenyl-phenol concentration. Thermal relaxation of the preirradiated system was also studied at various temperatures. In each case (UV and visible irradiations, thermal isomerization), the kinetics of each of the four species was monitored. Numerical analysis of concentration vs time profiles enabled us to unequivocally establish the global mechanism occurring in each of the experimental conditions and to interpret the specific reactivity of each photoisomer. It has been shown that, among the 12 possible isomerization processes, only some paths were active. For the first time, it has been possible to determine their corresponding thermal activation parameters and photochemical quantum yield ratios.     

Structural characterization of anti- and syn-allyltricarbonyliron bromide: rotational spectra, quadrupole coupling, and density functional calculations

Rotational transitions for two distinct structural isomers of allyltricarbonyliron bromide have been clearly observed in the cold molecular beam of a pulsed-beam Fourier transform microwave spectrometer. Rotational transitions exhibiting quadrupole splitting patterns for each isomer were measured for the 79Br and 81Br isotopomers. Both isomers are accidental near-prolate symmetric tops. The measured rotational constants for the 79Br isotopomer are A(anti) = 920.6148(2) MHz, B(anti) = 582.8866(12) MHz, C(anti) = 581.3027(12) MHz, A(syn) = 919.5055(1) MHz, B(syn) = 584.1865(1) MHz, and C(syn) = 581.6392(1) MHz. Analysis of the isotopic substitution data and possible transition assignments indicates that these molecules have Cs symmetry. Both isomers are found to have a dipole component along the a axis. However, the anti isomer has a "c" type dipole component, whereas a "b" dipole component is found for the syn isomer. It was found necessary to carefully analyze both rotational constants and the quadrupole coupling data in order to determine the correct assignment of dipole moment components for each isomer. This change in dipole assignments implies that there is a switch of inertial axes upon isomerization resulting from a subtle shift of the allyl center of mass coordinates, upon reorientation of the allyl ligand. The X-ray and DFT calculated structures for the anti isomer are in excellent agreement with the present data. No previous structural data for the syn isomer were available, and the present analysis strongly supports the expected conformation.