Excitation of the M Intermediates of Bacteriorhodopsin†

Protein electric response signals (PERS) of the M intermediates of wild‐type bacteriorhodopsin (bR) were recorded. Contrary to earlier findings reporting on a single‐phase response upon excitation of the M intermediates, a kinetic analysis of the signals revealed the existence of three components, the fastest and the slowest ones of negative, while the middle one of positive sign with respect to the normal direction of proton pumping. Based on proton motion indicator experiments and molecular dipole calculations, the components were assigned to proton transfer steps and conformational changes driving the bR molecule back from the M to the ground state upon blue light excitation. The fastest, negative pump component was assigned to the proton transfer from D85 to the Schiff base. The subsequent positive component was attributed to rearrangements in the protein core (in the vicinity of the retinal molecule), triggered by the primary proton transfer process. The slowest component was established to reflect charge rearrangements associated with proton uptake by the protein from the bulk.     

Light‐induced Modulation of Protein Dynamics During the Photocycle of Bacteriorhodopsin†

Knowledge about the dynamical properties of a protein is of essential importance for understanding the structure–dynamics–function relationship at the atomic level. So far, however, the correlation between internal protein dynamics and functionality has only been studied indirectly in steady‐state experiments by variation of external parameters like temperature and hydration. In the present study we describe a novel type of (laser‐neutron) pump‐probe experiment, which combines in situ optical activation of the biological function of a membrane protein with a time‐dependent monitoring of the protein dynamics using quasielastic neutron scattering. As a first successful application we present data obtained selectively in the ground state and in the M‐intermediate of bacteriorhodopsin (BR). Temporary alterations in both localized reorientational protein motions and harmonic vibrational dynamics have been observed during the photocycle of BR. This observation is a direct proof for the functional significance of protein structural flexibility, which is correlated with the large‐scale structural changes in the protein structure occurring during the M‐intermediate. We anticipate that functionally important modulations of protein dynamics as observed here are of relevance for most other proteins exhibiting conformational transitions in the time course of functional operation.     

Retinal Photodamage by Endogenous and Xenobiotic Agents†

The human eye is constantly exposed to sunlight and artificial lighting. Light transmission through the eye is fundamental to its unique biological functions of directing vision and circadian rhythm and therefore light absorbed by the eye must be benign. However, exposure to the very intense ambient radiation can pose a hazard particularly if the recipient is over 40 years of age. There are age‐related changes in the endogenous (natural) chromophores (lipofuscin, A2E and all‐trans‐retinal derivatives) in the human retina that makes it more susceptible to visible light damage. Intense visible light sources that do not filter short blue visible light (400–440 nm) used for phototherapy of circadian imbalance (i.e. seasonal affective disorder) increase the risk for age‐related light damage to the retina. Moreover, many drugs, dietary supplements, nanoparticles and diagnostic dyes (xenobiotics) absorb ocular light and have the potential to induce photodamage to the retina, leading to transient or permanent blinding disorders. This article will review the underlying reasons why visible light in general and short blue visible light in particular dramatically raises the risk of photodamage to the human retina.     

Direct Measurement of the Isomerization Barrier of the Isolated Retinal Chromophore

Isomerizations of the retinal chromophore were investigated using the IMS‐IMS technique. Four different structural features of the chromophore were observed, isolated, excited collisionally, and the resulting isomer and fragment distributions were measured. By establishing the threshold activation voltages for isomerization for each of the reaction pathways, and by measuring the threshold activation voltage for fragmentation, the relative energies of the isomers as well as the energy barriers for isomerization were determined. The energy barrier for a single cis–trans isomerization is (0.64±0.05) eV, which is significantly lower than that observed for the reaction within opsin proteins.     

Retinal Photodamage Mediated by All‐trans‐retinal†

Accumulation of all‐trans‐retinal (all‐trans‐RAL), reactive vitamin A aldehyde, is one of the key factors in initiating retinal photodamage. This photodamage is characterized by progressive retinal cell death evoked by light exposure in both an acute and chronic fashion. Photoactivated rhodopsin releases all‐trans‐RAL, which is subsequently transported by ATP‐binding cassette transporter 4 and reduced to all‐trans‐retinol by all‐trans‐retinol dehydrogenases located in photoreceptor cells. Any interruptions in the clearing of all‐trans‐RAL in the photoreceptors can cause an accumulation of this reactive aldehyde and its toxic condensation products. This accumulation may result in the manifestation of retinal dystrophy including human retinal degenerative diseases such as Stargardt’s disease and age‐related macular degeneration. Herein, we discuss the mechanisms of all‐trans‐RAL clearance in photoreceptor cells by sequential enzymatic reactions, the visual (retinoid) cycle, and potential molecular pathways of retinal photodamage. We also review recent imaging technologies to monitor retinal health status as well as novel therapeutic strategies preventing all‐trans‐RAL‐associated retinal photodamage.     

Cytotoxicity of All‐Trans‐Retinal Increases Upon Photodegradation†

All‐trans‐retinal (AtRal) can accumulate in the retina as a result of excessive exposure to light. The purpose of this study was to compare cytotoxicity of AtRal and photodegraded AtRal (dAtRal) on cultured human retinal pigment epithelial cells in dark and upon exposure to visible light. AtRal was degraded by exposure to visible light. Cytotoxicity was monitored by imaging of cell morphology, propidium iodide staining of cells with permeable plasma membrane and measurements of reductive activity of cells. Generation of singlet oxygen photosensitized by AtRal and dAtRal was monitored by time‐resolved measurements of characteristic singlet oxygen phosphorescence. Photodegradation of AtRal resulted in a decrease in absorption of visible light and accumulation of the degradation products with absorption maximum at ～330 nm. Toxicity of dAtRal was concentration‐dependent and was greater during irradiation with visible light than in dark. DAtRal was more cytotoxic than AtRal both in dark and during exposure to visible light. Photochemical properties of dAtRal indicate that it may be responsible for the maximum in the action spectra of retinal photodamage recorded in animals. In conclusion, photodegradation products of AtRal may impose a significant threat to the retina and therefore their roles in retinal pathology need to be explored.     

Glu 87 of Channelrhodopsin‐1 Causes pH‐dependent Color Tuning and Fast Photocurrent Inactivation†

Channelrhodopsins (ChR1 and ChR2) are directly light‐gated ion channels acting as sensory photoreceptors in the green alga Chlamydomonas reinhardtii. These channels open rapidly after light absorption and both become permeable for cations such as H⁺, Li⁺, Na⁺, K⁺ and Ca²⁺. K_m for Ca²⁺ is 16.6 mm in ChR1 and 18.3 mm in ChR2 whereas the K_m values for Na⁺ are higher than 100 mm for both ChRs. Action spectra of ChR1 peak between 470 and 500 nm depending on the pH conditions, whereas ChR2 peaks at 470 nm regardless of the pH value. Now we created two chimeric ChRs possessing helix 1–5 of ChR1 and 6, 7 of ChR2 (ChR1/2_5/2), or 1, 2 from ChR1 and 3–7 from ChR2 (ChR1/2_2/5). Both ChR‐chimera still showed pH‐dependent action spectra shifts. Finally, a mutant ChR1E87Q was generated that inactivated only slowly in the light and showed no spectral shift upon pH change. The results indicate that protonation/deprotonation of E87 in helix 1 alters the chromophore polarity, which shifts the absorption and modifies channel inactivation accordingly. We propose a trimodal counter ion complex for ChR1 but only a bimodal complex for ChR2.     

Kinetic Studies of the Thermal cis-to-trans Isomerization of Dioxaphospholanes

By following a previously reported method,¹ the synthesis of r-2-alkoxy-cis-4-cis-5-dimethyl-1,3,2-λ³-dioxaphospholanes ligands (1 and 3) was carried out. The purpose of this work is the kinetic study of the inversion barrier at phosphorus for 1 and 3 and the comparison with the already informed dioxaphospholane 2. The kinetic measurements of the thermal isomerization cis-to-trans were performed by ³¹P NMR spectroscopy, observing a first order kinetics for both compounds. The energy of activation (E_a) for the epimerization of compounds cis-1 and cis-3 was calculated to be 16.0 ± 0.6 and 11.8 ± 0.8 kcal/mol, respectively. The values of the thermodynamic parameters of the transition state (Δ H^≠, Δ S^≠, Δ G^≠) suggest that the inversion at phosphorus not only depends on the spatial requirements of the alkoxy substituent but also on entropic effects. The thermodynamic parameters Δ H°, Δ S°, and Δ G° were also evaluated and they show that the cis isomers are preferred from enthalpic point of view, but entropic effects dominate the equilibrium trans ? cis leading to the entropically favored trans isomers. Furthermore, the results are supported by density functional theory calculations of 1–4 at the B3LYP/6-31G** level.     

Mechanism of the Thermal Z⇌E Isomerization of a Stable Silene; Experiment and Theory

The E and Z geometric isomers of a stable silene (tBu₂MeSi)(tBuMe₂Si)Si=CH(1‐Ad) ( 1 ) were synthesized and characterized spectroscopically. The thermal Z to E isomerization of 1 was studied both experimentally and computationally using DFT methods. The measured activation parameters for the 1Z ? 1E isomerization are: E_a=24.4 kcal mol^?1, ΔH^≠=23.7 kcal mol^?1, ΔS^≠=?13.2 e.u. Based on comparison of the experimental and DFT calculated (at BP86‐D3BJ/def2‐TZVP(‐f)//BP86‐D3BJ/def2‐TZVP(‐f)) activation parameters, the Z?E isomerization of 1 proceeds through an unusual (unprecedented for alkenes) migration–rotation–migration mechanism (via a silylene intermediate), rather than through the classic rotation mechanism common for alkenes.     

菌紫质中视黄醛超快异构化反应的动态光谱分析

利用飞秒时间分辨吸收光谱方法研究了菌紫质(BR)光循环中视黄醛超快异构化反应过程. 发展了结合全局拟合的奇异值分解(SVD)分析方法, 建立了超快异构化反应动力学模型, 解析了几个重要的中间态I460, J625和K590的物种相关差异光谱(SADS)和布居动力学, 确定了光致异构化反应过程. 同时明确了700 nm附近存在的受激荧光来自于弗兰克-康登跃迁态(H中间态)的贡献, 其衰减寿命为0.04 ps. 这些结果对深入认识H态在超快异构化反应过程中的作用具有参考价值.     

Reversible Photochemical and Thermal Isomerization of Azaboratabisnorcaradiene to Azaborabenzotropilidene

Two new tricyclic 1,2‐azaboratabisnorcaradiene molecules ( 1 b and 2 b ) generated through the photoisomerization of N‐methyl‐2‐phenylimidazolyl‐chelated dimesitylboranes ( 1 a and 2 a ) have been found to undergo unusual photoisomerization, producing the first examples of 1,2‐azaborabenzotropilidenes ( 1 c and 2 c ), accompanied by a distinct color change, upon irradiation at 350 nm. Compounds 1 c and 2 c contain a conjugated alkylideneborane unit and can be fully reverted back to 1 b and 2 b , and subsequently to 1 a and 2 a upon heating. The mechanistic pathway of the new isomerism has been established to involve “walk” rearrangements by DFT computational studies.     

蒎烷在常压下热异构化反应的研究

本文报道了蒎烷在高温下进行热异构化反应的研究。文中以微型反应器考察了在不同的温度、不同原料输送速度等条件对转化率和选择性的影响。还讨论了热异构化的产物和反应机理。     

Thermal and Photochemical Isomerization of Tetraaryl Tetrakis(trifluoromethyl)

The isomerization of tetraaryl tetrakis(trifluoromethyl)[4]radialenes was studied. When type II (all-Z) isomers of 5,6,7,8-tetraaryl-5,6,7,8-tetrakis(trifluoromethyl)[4]radialenes were heated in tetralin at 170-200 degrees C, isomerization occurred to give mixtures of four [4]radialenes in a ratio of ca. I:II:III:IV = 1:10:5:1. However, when the isomeric mixtures were heated in the solid state at the same temperature, selective isomerization took place to give type II isomers in good selectivity (>91%). Upon irradiation with light, the type II isomers first isomerized to mixtures of the four [4]radialene isomers (I:II:III:IV = 2:2:48:48) and then rearranged to cyclobuta[b]naphthalenes via a 6pi-electrocyclic reaction followed by 1,3-hydrogen migration.     

Coordination‐Driven Macrocyclization for Locking of Photo‐ and Thermal cis→trans Isomerization of Azobenzene

Both trans and cis isomers of azobenzene‐linked bis‐terpyridine ligand L1 were incorporated in rigid macrocycles linked by Fe^II(tpy)₂ (tpy: terpyridine) units. The complex of the longer trans‐ L1 is dinuclear [(trans‐ L1 )₂ ? Fe^II₂], whereas the complex of the shorter cis‐ L1 is mononuclear [cis‐ L1? Fe^II]. The complex cis‐ L1? Fe^II was not only thermally stable but also photochemically inactive. These results indicate a perfectly locked state of cis‐azobenzene. The stable macrocyclic structure of cis‐ L1? Fe^II causes locking of the isomerization. To the best of our knowledge, this is first example of dual locking of photo‐ and thermal isomerization of cis‐azobenzene.     

Possible Skeletal Transformations of Cyclooctatetraene in Its Thermal Isomerization

Russian Journal of Organic Chemistry - All possible transition state structures that could mediate thermally induced skeletal transformations of cyclooctatetraene in an oxygen-free atmosphere have...     

Nickel‐Catalyzed Reductive Coupling of Aldehydes with Alkynes Mediated by Alcohol†

A nickel‐catalyzed reductive coupling of aldehydes with alkynes using 1‐phenylethanol as reducing agent has been developed. The key achievement of this work is that we demonstrate environmentally benign 1‐phenylethanol can serve as a viable alternative reducing agent to Et₃B, ZnEt₂ and R₃SiH for the nickel‐catalyzed reductive coupling reaction of aldehyde and alkynes.