G protein subtype specificity of rhodopsin intermediates metarhodopsin Ib and metarhodopsin II

Rhodopsin is one of the members of the G protein-coupled receptor family that can catalyze a GDP–GTP exchange reaction on the retinal G protein transducin (Gt) upon photon absorption. There are at least two intermediate states, meta-Ib and meta-II, which exhibit direct interaction with Gt. Meta-Ib binds to GDP-bound Gt, while meta-II forms a complex with Gt having no nucleotide, suggesting that meta-Ib is a state that initially interacts with Gt. Here we investigated whether or not meta-Ib exhibits specific interaction with G protein similar to meta-II, by examining the binding efficiencies of meta-Ib and meta-II to Giα and its mutants whose C-terminal 11 amino acids were replaced with those of Goα, Gqα and Gsα. The affinity of meta-Ib to the C-terminal 11 amino acids of Gtα was similar to those of Giα and its mutant with Goα's C-terminal 11 amino acids, whereas meta-II exhibited affinity to the C-terminal 11 amino acids of Giα mutant with Goα's C-terminal 11 amino acids about half of what was seen for Gtα and Giα. Both intermediates exhibited no affinity to the Giα mutants containing the C-terminal 11 amino acids of Gqα and Gsα. These results suggested that meta-Ib is the state that exhibits specific interaction with G protein as meta-II does, although meta-Ib exhibits a slightly lenient binding selectivity compared to that of meta-II.     

Transducin activation by molecular species of rhodopsin other than metarhodopsin II

Decay of metarhodopsin II was accelerated by hydroxylamine treatment or dark incubation of metarhodopsin II at 30 degrees C. The products thus obtained after decay of metarhodopsin II induced GTPase activity on transducin as well as metarhodopsin II suggesting that rhodopsin could activate transducin after the decay of metarhodopsin II intermediate. After urea-treated bovine rod outer segment membrane was completely bleached, rhodopsin in the membrane was regenerated by the addition of 11-cis retinal at various temperatures between 0 and 37 degrees C. The capacity to induce GTPase activity on transducin and phosphate incorporating capacity catalyzed by rhodopsin kinase were measured on such rhodopsins. The results showed that: (1) Regeneration of alpha band of rhodopsin was complete regardless of regeneration temperature; (2) When regenerated at temperatures below 10 degrees C, rhodopsins induced a GTPase activity on transducin in the dark even after treatment with hydroxylamine, whereas rhodopsins after regeneration at temperatures above 13 degrees C did not; (3) When regenerated at 0 degrees C, rhodopsin was phosphorylated if incubated with rhodopsin kinase and ATP in the dark, whereas the spectrally regenerated rhodopsin at 30 degrees C was not. The complete quenching of functions of photoactivated rhodopsin was achieved by recombination with 11-cis retinal at temperatures above 13 degrees C but not below 10 degrees C suggesting the existence of a low temperature intermediate upon regeneration.     

Type I and type II photosensitization by the antibacterial drug nalidixic acid. A laser flash photolysis study.

The 355 nm laser flash photolysis of nalidixic acid at pH 9.2 leads to the formation of the nalidixate anion triplet state (absorption lambda max = 620 nm; 5700 less than or equal to epsilon T less than or equal to 9000 M-1cm-1; 0.6 less than or equal to phi T less than or equal to 1). The first order triplet state decay (kT = 7.7 x 10(3) s-1) is accompanied by a diffusion controlled triplet-triplet annihilation. Oxygen efficiently quenches the triplet state (k = 3.2 x 10(9) M-1s-1). The nalidixate radical dianion (absorption lambda max = 650 nm; epsilon = 3000 M-1cm-1) is produced by the diffusion controlled reductive quenching of the triplet state by tryptophan and tyrosine. The superoxide anion (O2-.) is produced by diffusion controlled reaction of the radical dianion with oxygen. The O2-. is characterized by its reactions with ferricytochrome c and superoxide dismutase. The physiological form of nalidixic acid is thus a good Type I and Type II photosensitizer.     

Photoinitation of cationic polymerization. II. Laser flash photolysis of diphenyliodonium salts

Laser flash photolysis of diphenyliodonium salts produces phenyliodinium radical cation (PhI^+·), which was also generated independently by flash-induced electron transfer from iodobenzene to a phenanthrolinium salt. Apparent second-order rate constants were determined for reaction of the transient (PhI^+·) with nucleophiles, including iodobenzene and cyclohexene oxide. Quantum yields of formation of acid from stationary photolysis of diphenyliodonium hexafluoroarsenate were found to be significantly higher than yields of iodobenzene. These results may be explained by facile reaction of PhI^+· with PhI to yield a new iodonium salt together with a proton. High reactivity of PhI^+· with cyclohexene oxide suggests that the transient may directly initiate cationic polymerization of epoxides.     

Triplet states of humic acids studied by laser flash photolysis using different excitation wavelengths

The spectra and kinetics of short-lived intermediates formed from aqueous (0.1 N NaOH) solutions of the natural mixture of humic and fulvic acids (HFA) were studied by laser flash photolysis using excitation wavelengths of 337, 390, 470, and 520 nm. Laser photolysis of HFA with light of 520 and 470 nm results in the formation of triplet excited states (T_HFA) characterized by the broad absorption spectrum with a maximum near 630 nm and lifetimes of 0.15 ms in deoxygenated solutions. The formation of two types of T_HFA with lifetimes of 0.1 and 2 ms and absorption spectra with maxima at 570 nm is observed under photolysis with light of 337 and 390 nm. The estimation of quantum yields of T_HFA gives 1 and 0.3% under photolysis with excitation wavelengths of 337 and 520 nm, respectively. The rate constants of T_HFA quenching by molecular oxygen are equal to (7—8)·10⁸ L mol^–1 s^–1.     

Photopolymerization reactions initiated by copper (II)–amino acid chelates: Investigation of the initiating species by flash photolysis. I

Flash photolysis of copper (II)–bis(amino acid) complexes (amino acids: glutamic acid, serine, or valine) in deaerated aqueous solution produces transient species having absorption maxima at around 350 nm. The transient species are identified as copper (II)–alkyl complexes. In the case of Cu(valine)₂ at pH > 6.5 formation of Cu(II)-alkyl complex is not observed; this is interpreted to be due to the presence of two bulky methyl groups of the coordinated valine ligand, which hinders the rearrangement. Pseudo-first-order rate constants for the decay of the transients are determined at different pH with varying concentration of amino acid ligand. The free-radical species of the complexes responsible for the initiation of the vinyl polymerization reactions are identified as Cu(I)-coordinated amino acid radicals which are formed in the primary photochemical reaction of the complex. A mechanism for the secondary reactions involving the initiating species consistent with the nature of the product formed and the pH dependence of the decay of the transients is proposed.     

Photodissociation of naphthalene dimer radical cation during the two-color two-laser flash photolysis and pulse radiolysis-laser flash photolysis

Photodissociation of naphthalene (Np) dimer radical cation (Np2*+) to give naphthalene radical cation (Np*+) and Np and the subsequent regeneration of Np2*+ by the dimerization of Np*+ and Np were directly observed during the two-color two-laser flash photolysis in solution at room temperature. When Np2*+ was excited at the charge-resonance (CR) band with the 1064-nm laser, the bleaching and recovery of the transient absorption at 570 and 1000 nm, assigned to the local excitation (LE) and CR bands of Np2*+, respectively, were observed together with the growth and decay of the transient absorption at 685 nm, assigned to Np*+. The dissociation of Np2*+ proceeds via a one-photon process within the 5-ns laser flash to give Np*+ and Np in the quantum yield of 3.2 x 10(-3) and in the chemical yield of 100%. The recovery time profiles of Np2*+ at 570 and 1000 nm were equivalent to the decay time profile of Np*+ at 685 nm, suggesting that the dimerization of Np*+ and Np occurs to regenerate Np2*+ in 100% yield. Similar experimental results of the photodissociation and regeneration of Np2*+ were observed during the pulse radiolysis-laser flash photolysis of Np in 1,2-dichloroethane. The photodissociation mechanism can be explained based on the crossing between two potential surfaces of the excited-state Np2*+ and ground-state Np*+.     

Photochemical reagents for the study of metalloproteins by flash photolysis

Flash photolysis has been used extensively in the advancement of our understanding of the electron transfer reactivity of metalloproteins and in investigation of the kinetic complexities of electron transfer-initiated protein folding. Additional opportunities for the use of flash photolysis to understand the functional properties of metalloproteins have been afforded through the use of photoactive caged complexes. This review surveys the uses of caged complexes to the study of metalloproteins that have been reported and considers the potential for expanded use of photoactive caged complexes that have not yet been applied in this manner.     

Laser flash photolysis of tert-butyl aroylperbenzoates: kinetics of the singlet and triplet states and the aroylphenyl radicals

tert-Butyl aroylperbenzoates (1-4) were studied by laser flash photolysis (LFP). LFP (380 nm, pulse width approximately 350 fs) of 2 and 3 allowed direct observation of their singlet states, which showed broad absorption (lambda(max) approximately 625 nm; tau approximately 20 and approximately 7.9 ps, respectively). The triplet state of each (lambda(max) approximately 530-560 nm) rapidly dissociates by O-O cleavage as indicated by the short triplet lifetimes (e.g., triplet lifetime of 3 approximately 0.74 ns). The approximately 550 nm absorption obtained from the 355 nm LFP (pulse width approximately 7 ns) of 1, 2, and 4 has been assigned to the corresponding aroylphenyl radicals. Two representative radicals (4-benzoylphenyl 5 and 3-(4'-methylbenzoyl)phenyl 6) investigated in detail showed solvent-dependent lifetimes. Absolute bimolecular rate constants of reactions of these radicals with various quenchers including double-bond-containing monomers have been observed to range from 7.56 x 10(7) to 1.68 x 10(9) M(-1) s(-1) in CCl(4) at room temperature. A possible structure of the aroylphenyl radicals and the transition responsible for the 550 nm absorption are discussed.     

Molecular modeling of polymers: I. Correct and efficient enumeration of intrachain conformational energetics

Polymer conformational analyses can require being able to model the intramolecular energetics of a very long (infinite) chain employing calculations carried out on a relatively short chain sequence. A method to meet this need, based upon symmetry considerations and molecular mechanics energetics, has been developed. Given N equivalent degrees of freedom in a linear polymer chain, N unique molecular groups are determined within the chain. A molecular unit is defined as a group of atoms containing backbone rotational degrees of conformational freedom on each of its ends. The interaction of these N molecular groups, each with a finite number of nearest neighbors, properly describe the intramolecular energetics of a long (infinite) polymer chain. Thus, conformational energetics arising from arbitrarily distant neighbor interactions can be included in the estimation of statistical and thermodynamic properties of a linear polymeric system. This approach is called the polymer reduced interaction matrix method (PRIMM) and the results of applying it to isotactic polystyrene (I-PS) are presented by way of example.     

Oxidation of Cu(II) aminopolycarboxylates by carbonate radical: A flash photolysis study

Reactions of carbonate radical (Co₃ ⁻) generated by photolysis or by radiolysis of a carbonate solution, with Cu(II) complexes of aminopolycarboxylic acids viz., Cu(II)ethylenediamine tetraacetate [Cu^IIEDTA]²⁻ and Cu(II)-iminodiacetate [Cu^IIIDA] were studied at pH 10. 5 and ionic strength 0.2 mol·dm⁻³. Time-resolved spectroscopy and kinetics for the transients were studied using flash photolysis and stable products arising from the ligand degradation of the complex were ascertained by steady-state radiolysis experiments. From the kinetic data it is observed that CO₃ ⁻, radical reacts initially with Cu^II-complex to form a transient intermediate having maximum absorption at 335 nm and 430 nm. From the subsequent reactions of this intermediate it was assigned to be Cu^III. species. This Cu(III) species undergoes intermolecular electron transfer with the Cu^II-complex to give a radical intermediate which again slowly reacts with Cu^II-complex to give a long lived species containing Cu−C bond. This long lived species, however, slowly decomposed to give glyoxalic reaction between Cu^III-complex and a suitable donor, the one electron reduction potential for [Cu^IIIEDTA]¹⁻/[Cu^IIEDTA]²⁻ and [Cu^IIIIDA]⁺¹/Cu^IIIDA was determined.     

Solvent-induced conformational changes of polypeptides probed by electrospray-ionization mass spectrometry.

Electrospray-ionization (ESI) mass spectrometry is used to monitor higher order structural changes of polypeptides induced by alteration of the pH or organic solvent composition in the protein solution environment. A bimodal charge-state distribution is observed in the ESI mass spectrum of ubiquitin (relative molecular mass 8565) in solutions containing small amounts (less than 20%) of organic solvents. The distribution of peaks at high m/z (low-charge state) is found to represent the protein in its native, globular state; the higher-charge-state distribution is characteristic for a more extended conformation. Addition of methanol denaturant in excess of 40% v/v is needed to eliminate the low-charge-state distribution completely. Lesser amounts of acetonitrile, acetone, or isopropanol (approximately 20%) are required to denature the ubiquitin protein. Other proteins showing conformational effects in their ESI mass spectra are also illustrated. While the ESI spectra are related to solution phase structure, ESI-tandem mass spectrometry of multiply charged molecular ions of different conformation is suggested as a probe of gas-phase protein three-dimensional structure.     

Theoretical conformational analysis of the Gramicidin a transmembrane channel. I. Helix sense and energetics of head-to-head dimerization

Conformational energy calculations are presented for the head-to-head dimerized β helices for Gramicidin A transmembrane channel structures. The calculations take into account both left- and right-handed β helices, and various side-chain conformations. The energetics of the dimerization is studied by considering various docking geometries. It is concluded from these vacuum-energy calculations that the lowest energy conformation for the channel dimer is that comprised of left-handed β helices.     

Higher triplet excited states of benzophenones and bimolecular triplet energy transfer measured by using nanosecond-picosecond two-color/two-laser flash photolysis

The lifetimes of benzophenone in the higher triplet excited state (BP(T(n))) and several BP derivatives in the T(n) states were measured directly to be tau(T(n))=37+/-7 ps and 20-33 ps, respectively, by using the nanosecond-picosecond (ns-ps) two-color/two-laser flash photolysis method. Based on the direct measurements of tau(T(n)) of BP(T(n)), the triplet energy transfer (TET) from BP(T(n)) to quenchers (Q), such as carbon tetrachloride (CCl4), benzene (Bz), and p-dichlorbenzene (DCB), was investigated. The fast TET from BP(T(n)) to Q can be attributed to the lifetime-dependent quenching process, according to the Ware theoretical model of the bimolecular energy transfer reaction. The contribution of the lifetime-dependent term on k(TET) was 27, 60, and 86% for CCl4, Bz, and DCB as the Q of BP(T(n)), respectively, indicating that the TET from BP(T(n)) to Q is influenced not only by tau(T(n)), but also by the size of Q.     

Inter- and intramolecular effects of tyrosyl residues on flavin triplets and radicals as investigated by flash photolysis.

Abstract— Addition of tyrosine or derivatives to aqueous solutions of flavins does not significantly impede either formation of the flavin triplet or the rate of O₂ oxidation of the flavin radical generated by reaction of triplet with the phenol. However, the rate of radical decay is decreased. There is only a modest effect that results from altering the nature of the group on alkyl side chains of the flavin when the substituent, e.g. phenylalanine, does not complex avidly with the isoalloxazine system. However, when a tyrosyl or O-methyltyrosyl residue is covalently attached to an alkyl side chain at the N¹⁰-position of the flavin, the considerable intramolecular complexing that results markedly decreases the formation of flavin triplet and, therefore, the radical yield. The rate of triplet decay is not much different than for noninternally complexed flavins, but extensive intramolecular radical decay occurs, and the rate of 0₂ oxidation of radical is decreased. A shorter alkyl chain is more effective than a longer one for decreasing triplet production, but the greater proximity of a photooxidiz-able tyrosyl residue to the flavin nucleus within the former allows a slightly higher intramolecular radical yield. Attachment of a tyrosyl residue by a short chain from the N³-position of the flavin has only a modest effect on the production of flavin triplet and its decay. There is less radical production from internal than from external tyrosyl residues, and the rate of O₂ oxidation of the flavin radical generated by such intermolecular photoreductants as N-acetyl tyrosine ethyl ester or EDTA is somewhat decreased. The tyrosyl residue within the active-site peptide of mitochondrial monoamine oxidase is not so susceptible to photooxidation by the 8α-(S-L-cysteinyl)flavin involved, since the thioether linkage at this position severely reduces triplet production. Upon oxidation of the thioether to sulfone, however, the triplet yield is partially restored. Some flavin radical can then be generated from either the intra- or an intermolecular tyrosyl residue. Taken together, these results demonstrate that tyrosyl residues near the flavin-binding sites of flavo-proteins can become oxidized by the flavin triplet that is light-generated unless the proximity and steric disposition of the interactants is such as to allow dissipation of much of the energy as radiationless decay within a tight complex or unless an 8α-thioether linkage to the flavin coenzyme is involved. Also, flavin radicals, whether generated photochemically or by biochemical oxidation of substrate, are readily oxidized by O₂ in the presence of tyrosyl functions unless tight complexing occurs. More remarkable, though, is the decreased rate of radical decay conferred by the association with a tyrosyl residue. This stabilization of reactive flavin radicals may have considerable consequence in the catalytic mechanism of such enzymes.     

Studies on photoinduced H-atom and electron transfer reactions of o-naphthoquinones by laser flash photolysis

The quenching of the triplets of 1,2-naphthoquinone (NQ) and 1,2-naphthoquinone-4-sulfonic acid sodium salt (NQS) by various electron and H-atom donors was investigated by laser flash photolysis measurement in acetonitrile and benzene. The results showed that the reactivities and configurations of 3NQ* (3NQS*) are governed by solvent polarity. All the quenching rate constants (kq) measured in benzene are larger than those in acetonitrile. The SO3Na substituent at the C-4 position of NQS makes 3NQS* more reactive than 3NQ* in electron/H-atom transfer reactions. Large differences of kq values were discovered in H-atom transfer reactions for alcohols and phenols, which can be explained by different H-abstraction mechanisms. Detection of radical cations of amines/anilines in time-resolved transient absorption spectra confirms an electron transfer mechanism. Triplets are identified as precursors of formed radical anions of NQ and NQS in photoinduced reactions. The dependence of electron transfer rate constants on the free energy changes (DeltaG) was treated by using the Rehm-Weller equation. For the four anilines with different substituents on the para or meta position of amidocyanogen, good correlation between log kq values with Hammett sigma constants testifies the correctness of empirical Hammett equation. Charge density distributions, adiabatic ionization/affinity potentials and redox potentials of NQ (NQS) and some quenchers were studied by quantum chemistry calculation.     

Structural and functional properties of metarhodopsin III: recent spectroscopic studies on deactivation pathways of rhodopsin

The activation of rhodopsin has been the focus of researchers over the past decades, revealing many aspects of the activation pathways of this prototypical G protein-coupled receptor on a molecular level, starting with the light-dependent isomerization of its retinal chromophore from 11-cis to all-trans and leading eventually to the large scale helix movements in the transition to the active receptor state, Meta II. Comparatively little is known, however, on the deactivation pathways of the light receptor, which represent essential steps in maintaining a functional photoreceptor cell. Rhodopsin's active receptor species, Meta II, decays by two fundamentally different pathways, either forming the apoprotein opsin by release of the activating all-trans retinal ligand from its binding pocket, or by a thermal isomerization of this ligand to a less activating species in the transition to metarhodopsin III (Meta III). Both decay products, opsin and Meta III, are largely inactive under physiological conditions, yet they do not restore the complete inactivity of the dark state. Although some properties of Meta III have been described already in the 1960s, its molecular nature and the pathways of its formation have remained rather obscure. In this review, we focus on recent studies from our laboratories, which have provided a major progress in our understanding of the Meta III deactivation pathway and its potential physiological roles. Using Fourier-transform infrared (FTIR) difference spectroscopy in combination with a variety of other spectroscopic and biochemical techniques and quantum chemical calculations, we have developed a general picture of the interplay between the retinal ligand and the receptor protein, which is compared to similar reaction mechanisms in invertebrate photoreceptors and microbial retinal proteins.