PHOTOREACTIVATING ENZYME FROM Streptomyces griseus—VI. ACTION SPECTRUM AND KINETICS OF PHOTOREACTIVATION

Abstract— A high resolution action spectrum for photoreactivation was determined using purified photoreactivating enzyme from Streptomyces griseus. Conversion of pyrimidine dimers in UV-irradiated DNA, the substrate for photoreactivating enzyme, was measured with a Haemophilus influenzae transformation assay. A high similarity was found between action spectrum (max. at 445 nm) and the long wavelength absorption band (max. at 443 nm)of photoreactivating enzyme. In addition to the400–470 nm region considerable photoreactivation was found with wavelengths between 280 and 320 nm. No evidence was obtained for the presence of nonenzymatic photoreactivation. Comparison of in vitro and in vivo action spectra revealed that the sharp peak at 313 nm found in vivo is probably the result of counteracting photoreactivation and inactivation effects. Comparison of the action spectrum with the absorption spectrum of 8-hydroxy-10-methyl-5-deazaisoalloxazine in an aprotic dipolar solvent (which serves as a model for the 8-hydroxy-5-deazaflavin chromophore in photoreactivating enzyme) indicates the possible presence of other chromophore(s) involved in the photorepair process. From kinetic measurements and flash experiments values were obtained for the rate constants of the photoreactivation reaction. The quantum yield of photoreactivation was estimated to be approximately 1.     

ACTION SPECTRA AND CHROMOPHORES FOR LETHAL PHOTOSENSITIZATION OF Candida albicans BY DNA MONOADDUCTS FORMED BY 8-METHOXYPSORALEN AND MONOFUNCTIONAL FUROCOUMARINS

The red-shift of furocoumarin action spectra, compared with their absorption spectra, has been investigated. An action spectrum for 8-methoxypsoralen (8-MOP) monoadduct formation in the yeast Candida albicans has been determined. The yeast cells were initially exposed to sublethal doses of monochromatic UVA at different wavelengths. Monoadduct formation was monitored by growth inhibition induced, after washing out any unbound 8-MOP, by re-irradiation with a constant second (non-lethal) dose of 330 nm radiation. A comparison between this action spectrum and the absorption spectrum of the dark complex of 8-MOP and DNA was made. In addition, the action spectra of monoadduct formation of five monofunctional compounds including a coumarin derivative have been determined. These action spectra were compared with their respective DNA dark complex absorption spectra. In general, the peaks of the furocoumarin DNA dark complexes show a red-shift when compared with the free furocoumarin molecule and the action spectra show peaks which correspond with the peaks of the dark complexes. Such data indicate that the DNA dark complex is the chromophore for growth inhibition in yeast rather than the free furocoumarin. The similarity of the 8-MOP monoadduct formation action spectrum and 8-MOP action spectra suggests that spectral dependence for the photobiological effects (including the red-shift) is dependent on monoadduct formation rather than, as previously suggested by several authors, crosslink formation. The action spectrum for the coumarin derivative 4-methyl N-ethylpyrrolo (3,2-g) coumarin (PCNEt) correlated well with the free molecule absorption spectrum rather than DNA dark complex indicating that the free molecule is the chromophore.(ABSTRACT TRUNCATED AT 250 WORDS)     

THE SUBUNIT STRUCTURE OF YEAST DNA PHOTOLYASE AND THE PURIFICATION OF A FLUORESCENT ACTIVATOR OF THE ENZYME

Abstract— Yeast DNA photolyase purified twice by affinity chromatography was analyzed by electrophoresis on polyacrylamide gradient gels or by sedimentation velocity through 5–200/, sucrose gradients containing 0.4MKC1. Its molecular weight estimated by both these methods was 130 ,000 and 136 ,000, respectively. However, the enzyme dissociated into two bands having molecular weights of 60 ,000 and 85 ,000 when it was examined by electrophoresis on SDS polyacrylamide gradient gels. The subunit structure of the enzyme was confirmed when two absorption maxima corresponding to polypeptides of 54 ,000 and 82 ,500 daltons were observed in sucrose gradients run in 1.0 M KCI. Upon mixing these two fractions, a time-dependent increase in activity occurred, demonstrating that active enzyme could be reconstituted from these subunits.
The activity of photolyase purified by affinity chromatography is enhanced by a compound (activator III) obtained from yeast by acidification, neutralization, ion exchange chromatography and gel filtration. Activator III emits at 350 and 440 nm when excited at 290 nm, and emits at 440 nm when excited at 358 nm. After acid hydrolysis, emission at 440 nm is produced only by excitation at 358 nm, indicating that it contains two separate chromophoric moieties. The chromophore excited by 358 nm light has a pK of 9–11, while the other has a pK of 4–5. Enhancement of photolyase activity by activator III at a concentration equimolar with that of the enzyme and the similarity of the fluorescent spectra of the activator and heat-denatured photolyase suggest that the activator may be the chromophore associated with the enzyme.     

STUDIES ON THE PROTEIN CONFORMATION OF PHYTOCHROME

Abstract— The extinction coefficients for large rye phytochrome were found to be: Fluorescence and circular dichroism spectra of large- and small-molecular-weight rye phytochrome give no evidence for a protein conformational change on phototransformation of phytochrome. The large molecule has a fluorescence emission peak at 331 nm when excited at 290 nm, and an excitation peak for this emission at 288 nm. The circular dichroism spectra indicate that large rye phytochrome has about 17–20% a-helix content, 30%β-structure and 50% random coil, and that the small rye phytochrome has about 10–13%α-helix content. The ultraviolet difference spectra for large and small rye phytochrome are similar and differ from the difference spectrum of the small oat phytochrome in the relative size of the 296–298 nm peak. The difference spectra may reflect changes in chromophore absorbance and in the environment of amino acid residues near the chromophore, particularly of tyrosine, and perhaps of tryptophan and cysteine.     

PHOTOREACTIVATING ENZYME FROM STREPTOMYCES GRISEUS—III. EVIDENCE FOR THE PRESENCE OF AN INTRINSIC CHROMOPHORE

Evidence is presented that DNA photoreactivating enzyme from Streptomyces griseus consists of a high molecular protein part and a low molecular chromophore which is released by denaturation. The free chromophore is highly fluorescent and has an absorption maximum at 420 nm. In native photoreactivating enzyme the chromophore fluorescence is almost completely quenched and there is an additional absorption band at 445 nm. Native photoreactivating enzyme spontaneously looses its chromophore following first order kinetics as measured by the increase of fluorescence intensity. A good correlation was found between the increase of fluorescence intensity and the decrease of biological activity, stressing the importance of the chromophore-protein bond. The presence of DNA greatly retards the spontaneous release of chromophore, and with UV-irradiated DNA the photoreactivating enzyme is almost completely stable. In five different chromatographic systems, cochromatography of biological activity and enzyme-bound chromophore was found, thus ruling out the possibility that the observed chromophore belongs to a contamination in the enzyme preparation. Photoreactivating enzyme binds very strongly to Blue-Sepharose indicating the presence of a positive charge in the polynucleotide binding site.     

SUBSTRATE DEPENDENCE OF THE ACTION SPECTRUM FOR PHOTOENZYMATIC REPAIR OF DNA

Abstract— The absolute action spectrum has been determined for photoenzymatic splitting of cyclobutadipyrimidines ("pyrimidine dimers") from natural DNA, and from the synthetic polydeoxyribonucleotides poly(dA)·poly(dT) (forming only cyclobutadithymine) and poly(dG)·poly(dC) (forming only cyclobutadicytosine). These action spectra differ strikingly from each other, even when using the same enzyme preparations. On the other hand, the action spectrum for splitting cyclobutadithymine in natural DNA containing "dimers" of only this one type closely resembles the action spectrum for splitting the total mixture of "dimer" types in natural DNA, and is entirely different from the spectrum for splitting of the same photoproduct from poly(dA)·poly(dT). These results mean that the action spectrum is not simply the absorption spectrum of a chromophore carried by the photoreactivating enzyme, nor is it solely determined by the nature of the substrate photoproduct. It is at least partly determined by the over-all polynueleotide structure (viz. exact helical dimensions, pattern of neighboring bases to the "dimers," or both), affecting a ground state interaction between the enzyme and substrate in the enzyme-substrate complex.     

Different molecular constituents in pheomelanin are responsible for emission, transient absorption and oxygen photoconsumption

Steady-state absorption and emission spectroscopies, oxygen activation and transient spectroscopy on a single sample of synthetic pheomelanin are compared. The absorption, emission and excitation spectra of pheomelanin depend on the molecular weight (MW) of the dissolved pigment constituents. While weakly-depending on MW, the maximum of the emission excitation spectrum is approximately 400 nm. The electron paramagnetic resonance oximetry measurements show a clear increase in oxygen uptake between 338 and 323 nm, and also reveal a local enhancement around approximately 370 nm. Pump-probe absorption spectroscopy reveals that photoexcitation of pheomelanin by UVA light generates a transient absorption peak in the visible and UV regions within the instrument response. The action spectrum for the formation of the 780 nm transient species peaks at approximately 360 nm. While both transient absorption bands show the same ultrafast decay component, the 780 nm peak completely vanishes on the 10s of picosecond time scale, but the UV band shows a kinetic evolution to a subsequent intermediate. While in a similar wavelength range, the maximum of the action spectrum derived from the transient data, the emission excitation spectrum and the action spectrum for photoconsumption all differ from one another, suggesting that the chromophore responsible for each is not that same. This raises concern about comparing the results from different photochemical methodologies for melanin, which is a specific case of comparing data on systems where molecular constituents are not well defined.     

INDUCTION OF DNA STRAND BREAKS IN NORMAL HUMAN FIBROBLASTS EXPOSED TO MONOCHROMATIC ULTRAVIOLET AND VISIBLE WAVELENGTHS IN THE 240–546 nm RANGE

Abstract— The induction of DNA single-strand breaks in normal human fibroblasts exposed to monochromatic wavelengths from 240–546 nm was measured by the alkaline elution assay. The cells were irradiated at 1°C to prevent both repair of induced breaks and formation of enzymatically induced breaks through excision repair. The cultures were also washed with and irradiated while suspended in phosphate buffered saline to prevent the formation of DNA damaging photoproducts from medium components. The action spectrum for DNA strand breakage was found to exhibit one peak at 265 nm, consistent with DNA absorption, and a second peak at 450 nm. The normalized action spectrum in the visible is similar to the normalized absorption spectrum for riboflavin, a known photosensitizing agent, implicating this molecule as the absorbing chromophore.     

Polymerizable benzophenone derivatives for labeling vinyl acetate‐butylacrylate latex particles

We describe the synthesis and characterization of three new polymerizable benzophenone derivatives [2‐acryloxy‐5‐methyl benzophenone ( 8 ), 4′‐dimethylamino‐2‐acryloxy‐5‐methyl benzophenone ( 9 ), and 4′‐dimethylamino‐2‐(β‐acryloxyethyl)oxy‐5‐methyl benzophenone ( 10 )]. We show that these monomers can successfully be incorporated into vinyl acetate (VAc) copolymer latex particles. These particles were prepared by semicontinuous emulsion polymerization and mini‐emulsion polymerization of VAc with butylacrylate (BA) for VAc/BA = 4/1 by weight. The two monomers 9 and 10 bearing the 4′‐dimethylamino group satisfy the important spectroscopic criteria required of a dye to serve as an acceptor chromophore for nonradiative energy transfer from phenanthrene (Phe) as the donor. Their UV absorption spectra suggest significant overlap with the emission spectrum of Phe, which can be incorporated into P(VAc‐co‐BA) latex through copolymerization with 9‐acryloxymethyl Phe ( 2 ). In addition, these chromophores provide a window in their absorption spectra for excitation of the Phe chromophore at 300 nm. © 2002 Wiley Periodicals, Inc. J Polym Sci Part A: Polym Chem 40: 3001–3011, 2002     

ON THE LUMINESCENCE OF ESTROGENS

Abstract —The absorption, fluorescence, and phosphorescence of a series of estrogens is reported. The behavior of estrogens without a keto-group is compared with that of the isolated phenylic, phenolic and naphtholic chromophores. In the latter two, attachment to the steroidal frame is inconsequential as regards their luminescent behavior. In all keto-estrogens with the exception of equilenin there is a very strong transfer of excitation energy from the A ring chromophore to the keto group. The fluorescence of 6-keto-estradiol, which has a conjugated aromatic carbonyl chromophore, is apparently due to the rigidity of the steroid frame and exhibits a rather perculiar excitation spectrum.     

INTRAMOLECULAR ENERGY TRANSFER IN NATIVE tRNA AT ROOM TEMPERATURE

Abstract— The odd nucleoside 4-thiouridine, which is present in position 8 of 70% of E. coli tRNAs, possesses unusual spectroscopic properties which make it suitable for intramolecular energy transfer studies. Both its luminescence excitation spectrum and the action spectrum (230–380 nm) for the 8–13 link formation have been established in native E. coli tRNA at room temperature. The spectra are identical and present a new unexpected peak around 260 nm. At this wavelength, they are amplified by a factor of nine as compared with the absorption and excitation spectra of the free nucleoside in aqueous solution.
The origin of this new peak is discussed and it is concluded that energy transfer does occur from the common nucleosides to the 4-thiouridine residue. Using the values of the nucleosides to 4-thiouridine distances inferred from the sets of atomic coordinates obtained on yeast tRNA^phe crystals, a satisfactory account of our finding can be obtained assuming singlet-singlet energy transfer. The efficiency of the mechanism is probably favoured by a good overlap between the emission spectra of the common nucleosides and the absorption spectrum of 4-thiouridine.     

The Fluorescence of native DNA at room temperature

The fluorescence spectra (300–500nm) quantum yields (φ_f) and excitation spectra (240–285 nm) are reported for neutral aqueous sloutions of purified native DNA from calf thymus, E. coli bacterium, and hen erythrocyte near 20°C. The same properties were also measured for a reference solution of mononucleotides, and direct comparisons were made. Whether purified or not, the DNA spectra all closely resemble that from the monomer mixture between 300 and 360 nm but shows a broad, low level shoulder at λ_max ≈ 450nm which is absent in the monomer spectrum. The φ_f for the purified DNA is (4 = 1) x 10^-5, about half that of the monomer reference solution and unpurified DNA. The excitation spectrum is slightly red-shifted from the absorption for both the DNA and the monomer mixture, but not for the individual monomers. The fluorescence exhibits abrupt changes associated with the denaturation of DNA at ≈ 80°C and pII) <4 or > 11.     

Purification and Partial Characterization of (6-4) Photoproduct DNA Photolyase from Xenopus laevis

Abstract— The (6-4) photoproduct DNA photolyase was detected in two vertebrate animals Crotalus atrox (rattlesnake) and Xenopus laevis (South African clawed toad). The enzyme was extensively purified from X. laevis and characterized. The highly purified enzyme is fluorescent with an excitation maximum at 420-440 nm and emission maximum at 460-480 nm. The photorepair action spectrum matches the fluoresoence excitation spectrum with a 430 nm maximum.     

Photoconversion in the red fluorescent protein from the sea anemone Entacmaea quadricolor: is cis-trans isomerization involved?

Proteins from the family of the green fluorescent protein (GFP) are presently extensively used in molecular and cellular biology. Recent studies suggest that isomerization of the chromophore occurs upon excitation and is involved in nonradiative deactivation. Using Raman spectroscopy, we report on photoinduced cis-trans isomerization in the red fluorescent protein eqFP611 from the sea anemone Entacmaea quadricolor. The crystal structure of eqFP611 shows that the chemical structure of the chromophore, p-hydroxybenzylidene-imidazolinone with an extended -conjugated system, is nearly identical to the chromophore of other red fluorescent proteins such as DsRed and HcRed. However, the chromophore of eqFP611 has a trans configuration whereas the chromophore of DsRed has a cis configuration. Upon irradiation with 532-nm light, the absorption of eqFP611 peaking at 559 nm diminished, and concomitantly a drastic decrease in the quantum yield of fluorescence as well as more complex decay kinetics was observed. Upon irradiation, changes in the Raman spectrum of eqFP611 were observed, and the relative intensities and peak positions of the irradiated eqFP611 showed striking similarity with the peaks in the Raman spectrum of DsRed. These observations are tentatively interpreted as trans-to-cis isomerization of the chromophore taking place upon irradiation together with the opening of new, nonradiative pathways.     

RESONANCE RAMAN SPECTRA OF THE Pr-FORM OF PHYTOCHROME

Abstract— Resonance Raman spectra of the P_r-form of oat phytochrome have been obtained at 77 K. Interference from phytochrome fluorescence is avoided by employing far-red 752 nm excitation. Vibrational assignments are suggested for the tetrapyrrole chromophore in phytochrome by comparison with previously published model compound spectra and by examining the characteristic shifts induced by deuteration of the pyrrole nitrogens. The lack of carbonyl intensity, the frequencies of the 1626 and 1644 cm^-1 C=C stretching modes, and the presence of an intense mode at 1326 cm^-1 are all consistent with a protonated structure for the tetrapyrrole chromophore in P_r. This suggests that the -50 nm red-shift of the protein-bound chromophore absorption compared to the chromophore in vitro is caused by protonation of the pyrrole nitrogen.     

Raman spectra of flavins: avoidance of interference from fluorescence

Raman spectra of flavin mononucleotide (FMN) and flavin adenine dinucleotide (FAD) in neutral aqueous solutions have been observed with excitations at 600.0, 363.8, 351.1, 337.1, and 257.3 nm. It has been suggested that, in general, an excitation in the absorption band of the second or the third longest waveleng (instead of the first) is an effective means for observing a resonance Raman spectrum of a chromophore without fluorescence disturbance.     

Solvent effects on the resonance Raman and hyper-Raman spectra and first hyperpolarizability of N,N-dipropyl-p-nitroaniline

Linear absorption spectra, resonance Raman spectra and excitation profiles, and two-photon-resonant hyper-Rayleigh and hyper-Raman scattering hyperpolarizability profiles are reported for the push-pull chromophore N,N-dipropyl-p-nitroaniline in seven solvents spanning a wide range of polarities. The absorption spectral maximum red shifts by about 2700 cm(-1), and the symmetric -NO2 stretch shifts to lower frequencies by about 11 cm(-1) from hexane to acetonitrile, indicative of significant solvent effects on both the ground and excited electronic states. The intensity patterns in the resonance Raman and hyper-Raman spectra are similar and show only a small solvent dependence except in acetonitrile, where both the Raman and hyper-Raman intensities are considerably reduced. Quantitative modeling of all four spectroscopic observables in all seven solvents reveals that the origin of this effect is an increased solvent-induced homogeneous broadening in acetonitrile. The linear absorption oscillator strength is nearly solvent-independent, and the peak resonant hyperpolarizability, beta(-2omega;omega,omega), varies by only about 15% across the wide range of solvents examined. These results suggest that the resonant two-photon absorption cross sections in this chromophore should exhibit only a weak solvent dependence.     

Concomitant synthesis of polyaniline and highly branched gold nanoparticles in the presence of DNA

The reduction of chloroauric acid using aniline adsorbed on DNA produces highly branched dendritic gold nanoparticles with concomitant formation of polyaniline (PANI) in contrast to the formation of spherical Au nanoparticles in the absence of DNA. The conformation of DNA remains intact in the process as evident from circular dichroism (CD) spectra. The UV-Vis spectrum exhibits a broad absorption peak at 520-900 nm, for a combined effect of the gold surface plasmon and π band to localized polaron band transition of DNA-doped PANI. Both the dendritic Au-PANI-DNA and the spherical Au-PANI systems emit two peaks for excitation with radiation of 300 nm and the intensity ratio of the emission and FRET peak is higher in the dendritic Au-PANI than that in the spherical Au-PANI system. The dc-conductivity values of spherical Au-PANI and dendritic Au-PANI-DNA systems are 1.2×10(-10) and 1.7×10(-8) S/cm at 30°C, respectively.     

SITE-DIRECTED MUTAGENESIS OF THE LH2 LIGHT-HARVESTING COMPLEX OF Rhodobacter sphaeroides: CHANGING βLys23 TO Gin RESULTS IN A SHIFT IN THE 850 nm ABSORPTION PEAK

The present study describes the construction of a Rhodobacter sphaeroides light-harvesting (LH2) mutant in which the charged residue βSLys23 is changed by site-directed mutagenesis to a Gin residue, and the characterization of the resulting mutant complex by a range of spectroscopic techniques. In the 77 K absorption spectrum of the mutant, the peak equivalent to the 850 nm peak in the wild-type membrane is blue-shifted by approximately 18 nm to 837 nm; except for this blue-shift, the 77 K. fluorescence excitation and emission spectra and the circular dichroism spectrum of the mutant are very similar to the equivalent spectra from the wild-type membranes, suggesting that the mutation βLys23 → Gin probably does not cause any major changes in the conformation or aggregation state of these membranes. Possible causes of the 18 nm blue-shift in the absorption spectrum are discussed.     

Luminescence spectral properties of dendritic oligothiophenesilane macromolecules

The luminescence spectral properties of oligothiophenesilane dendrite macromolecules were studied. It was found that the chromophores responsible for the formation of the absorption and luminescence spectra were dendrimer fragments separated by silicon atoms; all the chromophores are equally involved in the formation of the absorption spectra of dendritic macromolecules of the zero, first, second, and third generations. It was shown that for dendrites of the first, second, and third generations, the luminescence spectrum is mainly formed by the chromophore fragments lying in the internal layers of the dendritic macromolecule due to the induction resonance energy transfer of electronic excitation from peripheral to internal chromophore fragments. The conclusion was drawn that synthesis of dendritic macromolecules with internal chromophore fragments possessing a high quantum yield of fluorescence can give actively luminescing nanosized objects with the molar extinction coefficient proportional to the number of fragments ɛ_max ≈ 10⁶ l/(mol cm). These compounds can find wide application in transducers for converting various types of ionizing radiation into optical radiation in electroluminescent devices.