Attenuated total reflection Fourier transform infrared spectroscopy of redox transitions in photosynthetic reaction centers: comparison of perfusion- and light-induced difference spectra

Chemically induced Fourier transform infrared difference spectra associated with redox transitions of several primary electron donors and acceptors in photosynthetic reaction centers (RCs) have been compared with the light-induced FTIR difference spectra involving the same cofactors. The RCs are deposited on an attenuated total reflection (ATR) prism and form a film that is enclosed in a flow cell. Redox transitions in the film of RCs can be repetitively induced either by perfusion of buffers poised at different redox potentials or by illumination. The perfusion-induced ATR-FTIR difference spectra for the oxidation of the primary electron donor P in the RCs of the purple bacteria Rb. sphaeroides and Rp. viridis and P700 in the photosystem 1 of Synechocystis 6803, as well as the Q(A)/Q(A) transition of the quinone acceptor (Q(A)) in Rb. sphaeroides RCs are reported for the first time. They are compared with the light-induced ATR-FTIR difference spectra P+Q(A)/PQ(A) for the RCs of Rb. sphaeroides and P700+/P700 for photosystem 1. It is shown that the perfusion-induced and light-induced ATR-FTIR difference spectra recorded on the same RC film display identical signal to noise ratios when they are measured under comparable conditions. The ATR-FTIR difference spectra are very similar to the equivalent FTIR difference spectra previously recorded upon photochemical or electrochemical excitation of these RCs in the more conventional transmission mode. The ATR-FTIR technique requires a smaller amount of sample compared with transmission FTIR and allows precise control of the aqueous environment of the RC films.     

Redox dependent conformational changes in the mixed valence form of the cytochrome c oxidase from p. The reorganization of glutamic acid 278 is coupled to the electron transfer from/to heme a and the binuclear center. denitrificans

In this work we present the separation of FTIR difference signals induced by electron transfer to/from the redox centers of the cytochrome c oxidase from P. denitrificans and compare electrochemically induced FTIR difference spectra with those induced by CO photolysis. FTIR difference spectra of rebinding of CO to the half reduced (mixed valence) form of the cytochrome c oxidase after photolysis reflect the conformational changes induced by the rebinding of CO and by electron transfer reactions from heme a3 to heme a and further on to CUA. During this process, heme a3 (and CUB) are oxidized, whereas heme a and CuA are reduced. By subtracting these difference spectra from an electrochemically induced FTIR difference spectrum, where all four cofactors are reduced, the contributions for heme a3 (and CuB) could be separated. Correspondingly, the spectral contributions of heme a and CuA have been separated. The comparison of these spectra with the spectra calculated for the hemes on the basis of their redox dependent changes previously published in Hellwig et al., (Biochemistry 38, (1999) 1685-1694) show a high degree of similarity, except for additional signals coupled to the reorganization of the binuclear center upon CO rebinding. The separated spectra clearly show that the signals attributed to Glu278, an amino acid discussed to be crucial for proton pumping, is coupled to electron transfer to/from heme a and the binuclear heme a3-CuB center.     

pH-Dependent Extraction of Ca 2+ from Photosystem II Membranes and Thylakoid Membranes: Indication of a Ca 2+-Sensitive Site on the Acceptor Side of Photosystem II

The action of low pH treatment (pH 3.6) known to release Ca²⁺ from the oxygen-evolving complex in photosystem II (PSII) membranes and to induce Ca²⁺-revers-ible inhibition of electron transport at the acceptor side of PSII in thylakoid membranes (TM) was compared in PSII membranes and TM. The rate of the inactivation of electron transport by low pH was four times higher in TM than in PSII membranes. Ferricyanide accelerated the inactivation of PSII membranes but decreased it in the case of TM. Low pH treatment also greatly modified the fluorescence induction kinetics in both preparations, but significant differences have been found in the fluorescence induction kinetics of treated TM and PSII membranes. Calcium restored the electron transport activity and fluorescence induction kinetics in PSII membranes and TM, whereas diphenylcarbazide restored these functions only in PSII membranes. The reactivation of Ca-depleted PSII membranes was more effective in the dark, whereas the reactivation of TM required weak light. In the case of PSII membranes subjected to low pH citrate buffer, maximal reactivation was observed at 60 mM Ca²⁺ but for TM about 10 mM Ca²⁺ was required and 60 mM fully inhibited electron transport in TM during reactivation. These results indicate that the Ca-dependent inactivation of the acceptor side of PSII in TM after low pH treatment cannot be explained by the extraction of Ca²⁺ from the oxygen-evolving complex. It is rather suggested that the Ca²⁺ involved in this inhibition is bound to the acceptor side of the photosystem near to the Q_A-non-heme iron binding site and may participate in the binding of a polypeptide of the PSII light antenna complex to the PSII reaction center.     

Surface modification of LDPE film by CO2 pulsed laser irradiation

The influence of the pulsed CO₂ laser irradiation on the surface structure of the LDPE film was investigated. Significant changes were observed on the surface of laser treated films as it was verified by the attenuated total reflectance Fourier transform infrared (ATR-FTIR) spectroscopy, scanning electron microscopy and contact angle-measurement. Formation of polar functional groups onto the LDPE surfaces exhibited by the ATR-FTIR spectra was shown to be strongly dependent on the number of the CO₂ laser pulses. The intensity of the polar groups increased with increasing the number of pulses up to two and then slightly decreased at three laser pulses. This was also confirmed with the contact angle measurements in which the sample subjected to two laser pulses showed the highest wettability i.e. the lowest water drop contact angle. The concentration of peroxide groups formed on the surface of the laser treated films was determined quantitatively by UV spectroscopic method using iodide procedure. The latter results showed a similar trend with the results obtained using FTIR spectroscopy.     

A combined far-infrared spectroscopic and electrochemical approach for the study of iron-sulfur proteins

Herein, we present the development of a far-infrared spectroscopic approach for studying metalloenzyme active sites in a redox-dependent manner. An electrochemical cell with 5 mm path and based on silicon windows was found to be appropriate for the measurement of aqueous solutions down to 200 cm(-1) . The cell was probed with the infrared redox signature of the metal-ligand vibrations of different iron-sulfur proteins. Each Fe-S cluster type was found to show a specific spectral signature. As a common feature, a downshift of the frequency of the Fe-S vibrations was seen upon reduction, in line with the increase of the Fe-S bond. This downshift was found to be fully reversible. Electrochemically induced FTIR difference spectroscopy in the far infrared is now possible, opening new perspectives on the understanding of metalloproteins in function of the redox state.     

Characterization of PVDF membranes by vibrational spectroscopy

In order to investigate the effectiveness of vibrational spectroscopy in the characterization of polymeric membranes, several poly(vinylidene fluoride) (PVDF) membranes with different porous structures were prepared by the phase inversion process using different casting solvents. An accurate analysis of the Fourier transform Raman (FT-Raman) and the Fourier transform infrared (FTIR) spectra was performed for each sample and the scanning electron microscopy (SEM) results were noted. To highlight the specific problems related to porosity and surface roughness in the acquisition of spectra by different sampling techniques, the attenuated total reflection (ATR) and photoacoustic spectroscopy (PAS) spectra were compared with corresponding spectra obtained from dense films. A detailed analysis of these spectra highlighted their ability in determining the differences in the polymer structure between the two membrane sides. This indicates that (considering the results given by all the different techniques) thorough qualitative membrane characterization can generally be achieved. Moreover, the good quality spectra of the PVDF membrane provide information on a portion of material which depends on its structure, highlighting the usefulness of FTIR-PAS in studying porous materials which, as a rule, give low quality infrared spectra when other sampling techniques are used. However, the complex and inhomogeneous structure of these materials can make quantitative analysis more, or less, difficult.     

Electron transfer rates and Franck–Condon factors: an application to the early electron transfer steps in photosynthetic reaction centers

Mechanistic aspects of some of the early electron transfer steps occurring in photosynthetic reaction centers are discussed. Starting from the normal modes of the redox cofactors involved in the electron transfer processes, we show how a series of quantities which regulate electron transfer rates, such as (i) the electron transfer active modes, (ii) the intramolecular reorganization energy, and (iii) the mutual couplings between the vibronic states of the donor and the acceptor, can be obtained and used to draw qualitative conclusions on ET rates.     

Spectroelectrochemical characterization of thin fullerene films in room temperature ionic liquids

Room-temperature ionic liquids were used as electrolytes for in situ studies of the transitions of solution cast fullerene films. 1-Butyl-3-methyl-imidazolium tetrafluoroborate (BMIMBF₄), 1-butyl-3-methyl-imidazolium hexafluorophosphate (BMIMPF₆) and 1-butyl-2,3-dimethylimidazolium tetrafluoroborate (BDiMIMBF₄) were used in this study and the techniques used are cyclic voltammetry and in situ attenuated total reflection Fourier transform infrared (ATR-FTIR) spectroscopy. Infrared spectra were recorded during the reversible redox processes of the C₆₀ films showing a three-step one electron reduction and reoxidation reaction. After reoxidation some part of the C₆₀ film remained in its form. The IR bands obtained during electrochemical reduction of C₆₀ in ionic liquids were compared with the spectra reported for C₆₀ films upon reduction in the presence of different cations in organic solutions.     

ATR-FTIR Study of Si(110) Surface Hydrogenated in NH4F-Based Mixtures

RCA (Radio Corporation of America) cleaning has been the important and critical step in semiconductor manufacturing for more than 30 years^[1]. As the electronics devices are shrinking and gate oxide is getting thinner, stringent requirements on metallic impurities,organic contamination and surface roughness on silicon wafer after wet chemical cleaning have attracted more attention in the mechanism of wet etching processes on Si(111) and Si(100) surfaces^[2=11]. In the past few years wet chemical and electrochemical etching of Si(110) in NH₄F solutions has been studied by using scanning tunneling microscopy (STM)^[12] and attenuated total reflection Fourier transform infrared spectroscopy (ATR-FTIR)^[13-14]. In the present work, we extend our study to Si(110) surface in NH₄F/HCl mixtures by using polarized attenuated total reflection FTIR (ATR-FTIR). We have compared the ex-situ ATR-FTIR results on Si(110) in various NH₄F/HCl solutions using Ge prism. Effects of potential on hydrogen-terminated structures on Si(110) surfaces have been investigated by employing in-situ electrochemical ATR-FTIR with double side polished single crystal silicon as a prism. Our ATR-FTIR spectra are correlated with the results obtained with in-situ STM.     

P680 (P(D1)P(D2)) and Chl(D1) as alternative electron donors in photosystem II core complexes and isolated reaction centers

Low temperature (77-90 K) measurements of absorption spectral changes induced by red light illumination in isolated photosystem II (PSII) reaction centers (RCs, D1/D2/Cyt b559 complex) with different external acceptors and in PSII core complexes have shown that two different electron donors can alternatively function in PSII: chlorophyll (Chl) dimer P(680) absorbing at 684 nm and Chl monomer Chl(D1) absorbing at 674 nm. Under physiological conditions (278 K) transient absorption difference spectroscopy with 20-fs resolution was applied to study primary charge separation in spinach PSII core complexes excited at 710 nm. It was shown that the initial electron transfer reaction takes place with a time constant of ~0.9 ps. This kinetics was ascribed to charge separation between P(680)* and Chl(D1) absorbing at 670 nm accompanied by the formation of the primary charge-separated state P(680)(+)Chl(DI)(-), as indicated by 0.9-ps transient bleaching at 670 nm. The subsequent electron transfer from Chl(D1)(-) occurred within 13-14 ps and was accompanied by relaxation of the 670-nm band, bleaching of the Pheo(D1) Q(x) absorption band at 545 nm, and development of the anion-radical band of Pheo(D1)(-) at 450-460 nm, the latter two attributable to formation of the secondary radical pair P(680)(+)Pheo(D1)(-). The 14-ps relaxation of the 670-nm band was previously assigned to the Chl(D1) absorption in isolated PSII RCs [Shelaev, Gostev, Nadtochenko, Shkuropatov, Zabelin, Mamedov, Semenov, Sarkisov and Shuvalov, Photosynth. Res. 98 (2008) 95-103]. We suggest that the longer wavelength position of P(680) (near 680 nm) as a primary electron donor and the shorter wavelength position of Chl(D1) (near 670 nm) as a primary acceptor within the Q(y) transitions in RC allow an effective competition with an energy transfer and stabilization of separated charges. Although an alternative mechanism of charge separation with Chl(D1)* as the primary electron donor and Pheo(D1) as the primary acceptor cannot be ruled out, the 20-fs excitation at the far-red tail of the PSII core complex absorption spectrum at 710 nm appears to induce a transition to a low-energy state P(680)* with charge-transfer character (probably P(D1)(δ+)P(D2)(δ-)) which results in an effective electron transfer from P(680)* (the primary electron donor) to Chl(D1) as the intermediary acceptor.     

Proton-coupled electron-transfer processes in photosystem II probed by highly resolved g-anisotropy of redox-active tyrosine YZ

The oxidation of a redox-active tyrosine residue Y(Z) in photosystem II (PSII) is coupled with proton transfer to a hydrogen-bonded D1-His190 residue. Because of the apparent proximity of Y(Z) to the water-oxidizing complex and its redox activity, it is believed that Y(Z) plays a significant role in water oxidation in PSII. We investigated the g-anisotropy of the tyrosine radical Y(Z)(?) to provide insight into the mechanism of Y(Z)(?) proton-coupled electron transfer in Mn-depleted PSII. The anisotropy was highly resolved by electron paramagnetic resonance spectroscopy at the W-band (94.9 GHz) using PSII single crystals. The g(X)-component along the phenolic C-O bond of Y(Z)(?) was calculated by density functional theory (DFT). It was concluded from the highly resolved g-anisotropy that Y(Z) loses a phenol proton to D1-His190 upon tyrosine oxidation, and D1-His190 redonates the same proton back to Y(Z)(?) upon reduction.     

Protein conformational gating of enzymatic activity in xanthine oxidoreductase

In mammals, xanthine oxidoreductase can exist as xanthine dehydrogenase (XDH) and xanthine oxidase (XO). The two enzymes possess common redox active cofactors, which form an electron transfer (ET) pathway terminated by a flavin cofactor. In spite of identical protein primary structures, the redox potential difference between XDH and XO for the flavin semiquinone/hydroquinone pair (E(sq/hq)) is ~170 mV, a striking difference. The former greatly prefers NAD(+) as ultimate substrate for ET from the iron-sulfur cluster FeS-II via flavin while the latter only accepts dioxygen. In XDH (without NAD(+)), however, the redox potential of the electron donor FeS-II is 180 mV higher than that for the acceptor flavin, yielding an energetically uphill ET. On the basis of new 1.65, 2.3, 1.9, and 2.2 ? resolution crystal structures for XDH, XO, the NAD(+)- and NADH-complexed XDH, E(sq/hq) were calculated to better understand how the enzyme activates an ET from FeS-II to flavin. The majority of the E(sq/hq) difference between XDH and XO originates from a conformational change in the loop at positions 423-433 near the flavin binding site, causing the differences in stability of the semiquinone state. There was no large conformational change observed in response to NAD(+) binding at XDH. Instead, the positive charge of the NAD(+) ring, deprotonation of Asp429, and capping of the bulk surface of the flavin by the NAD(+) molecule all contribute to altering E(sq/hq) upon NAD(+) binding to XDH.     

Multivariate curve resolution of rapid-scan FTIR difference spectra of quinone photoreduction in bacterial photosynthetic membranes

Photosynthetic reaction centres and membranes are systems of particular interest and are often taken as models to investigate the molecular mechanisms of selected bioenergetic reactions. In this work, a multivariate curve resolution by alternating least squares procedure is detailed for resolution of time-resolved difference FTIR spectra probing the evolution of quinone reduction in photosynthetic membranes from Rhodobacter sphaeroides under photoexcitation. For this purpose, different data sets were acquired in the same time range and spectroscopic domain under slightly different experimental conditions. To enable resolution and provide meaningful results the different data sets were arranged in an augmented matrix. This strategy enabled recovery of three different species despite rank-deficiency conditions. It also results in better definition (identity and evolution) of the contributions. From the resolved spectra, the species have been attributed to: 1. the formation of ubiquinol, more precisely the disappearance of Q/appearance of QH₂; 2. conformational change of the protein in the surrounding biological medium; 3. oxidation of diaminodurene, a redox mediator. Because, moreover, results obtained from augmented data sets strategies enable quantitative and qualitative interpretation of concentration profiles, other effects, for example the consequence of repeated light excitation of the same sample, choice of illumination power, or the number of spectra accumulated could be compared and discussed.     

Differential effects of plasma membrane electric excitation on H+ fluxes and photosynthesis in characean cells

Cells of characean algae exposed to illumination arrange plasma-membrane H(+) fluxes and photosynthesis in coordinated spatial patterns (bands). This study reveals that H(+) transport and photosynthesis patterns in these excitable cells are affected not only by light conditions but also by electric excitation of the plasma membrane. It is shown that generation of action potential (AP) temporally eliminates alkaline bands, suppresses O(2) evolution, and differentially affects primary reactions of photosystem II (PSII) in different cell regions. The quantum yield of PSII electron transport decreased after AP in the alkaline but not in acidic cell regions. The effects of electric excitation on fluorescence and the PSII electron flow were most pronounced at light-limiting conditions. Evidence was obtained that the shift in chlorophyll fluorescence after AP is due to the increase in DeltapH at thylakoid membranes. It is concluded that the AP-triggered pathways affecting ion transport and photosynthetic energy conversion are linked but not identical.     

Photoinduced interaction of thionine with phospholipid and cholesterol in artificial membranes

The photoinduced interaction of thionine dye with phosphatidylcholine (PC) (and its components, e.g. lysoPC, phosphorylcholine and choline) and oxidized cholesterol was studied in artificial membranes using spectrophotometric and photoelectrochemical methods. The results show that the dye (electron acceptor) in its singlet excited state forms 1:1 electron donor-acceptor (EDA) complexes with the lipids (electron donor). The electrode kinetics of the photoinduced redox reactions in the cell were also studied to confirm the mechanism of photoinduced interaction between the dye and the lipid.     

Variants of photosystem II D1 protein in Thermosynechococcus elongatus

Cyanobacteria have several psbA genes encoding PsbA, the D1 reaction center protein of the photosystem II (PSII) complex which bears, with PsbD, the D2 protein, most of the cofactors involved in electron-transfer reactions. The thermophilic cyanobacterium Thermosynechococcus elongatus has three psbA genes differently expressed depending on the environmental conditions. Among the 344 residues constituting each of the three possible PsbA variants there are 21 substitutions between PsbA1 and PsbA3, 31 between PsbA1 and PsbA2, and 27 between PsbA2 and PsbA3. In this review, we briefly summarize the changes already identified in the properties of the redox cofactors depending on the D1 variant constituting PSII in T. elongatus.     

Molecular recognition between protein and nicotinamide dinucleotide in intact, proton-translocating transhydrogenase studied by ATR-FTIR Spectroscopy

Nicotinamide dinucleotide binding to transhydrogenase purified from Escherichia coli was investigated by attenuated total reflectance-Fourier transform infrared (ATR-FTIR) spectroscopy. Detergent-free transhydrogenase was deposited as a thin film on an ATR prism, and spectra were recorded during perfusion with buffers in the presence and absence of dinucleotide (NADP(+), NADPH, NAD(+), or NADH) in both H(2)O and D(2)O media. IR spectral changes were attributable to the bound dinucleotides and to changes in the protein itself. The dissociation constant of NADPH was estimated to be approximately 5 muM from a titration of the magnitude of the IR changes against the nucleotide concentration. IR spectra of related model compounds were used to assign principle bands of the dinucleotides. This information was combined with IR data on amino acids and with protein crystallographic data to identify interactions between specific parts of the dinucleotides and their binding sites in the protein. Several IR bands of bound nucleotide were sharpened and/or shifted relative to those in aqueous solution, reflecting a restriction to motion and a change in environment upon binding. Alterations in the protein secondary structure indicated by amide I/II changes were distinctly different for NADP(H) and for NAD(H) binding. The data suggest that NADP(H) binding leads to perturbation of a deeply buried part of the polypeptide backbone and to protonation of a carboxylic acid residue.     

Internal modification of poly(dimethylsiloxane) microchannels with a borosilicate glass coating

We report on an original technique for the in situ coating of poly(dimethylsiloxane) (PDMS) microchannels with borosilicate glass, starting from an active nonaqueous and alkali-free precursor solution. By chemical reaction of this active solution inside the microchannel and subsequent thermal annealing, a protective and chemically inert glass borosilicate coating is bonded to the PDMS. Attenuated total reflectance Fourier transform infrared (ATR-FTIR) spectroscopy and nuclear magnetic resonance spectroscopy of the active solution show that it is composed of a silicon oxide network with boron connectivity. Thermal gravimetric analysis demonstrates the absence of organic content when curing is done above 150 degrees C. The borosilicate nature of the glass coating covalently bonded to the PDMS is demonstrated using ATR-FTIR spectroscopy and X-ray photoelectron spectroscopy. Atomic force microscopy and scanning electron microscopy show a smooth and crack-free coating. The latter is used as an efficient protective barrier against diffusion in PDMS of fluorescent rhodamine B dye that is dissolved either in water or in toluene. Moreover, the coating prevents swelling and consequent structural damage of the PDMS when the latter is exposed to harsh chemicals such as toluene.     

Predicting the drug concentration in starch acetate matrix tablets from ATR-FTIR spectra using multi-way methods

The amounts of drug and excipient were predicted from ATR-FTIR spectra using two multi-way modelling techniques, parallel factor analysis (PARAFAC) and multi-linear partial least squares (N-PLS). Data matrices consisted of dissolved and undissolved parallel samples having different drug content and spectra, which were collected at axially cut surface of the flat-faced matrix tablets. Spectra were recorded comprehensively at different points on the axially cut surface of the tablet. The sample drug concentrations varied between 2 and 16% v/v. The multi-way methods together with ATR-FTIR spectra seemed to represent an applicable method for the determination of drug and excipient distribution in a tablet during the release process. The N-PLS calibration method was more robust for accurate quantification of the amount of components in the sample whereas the PARAFAC model provided approximate relative amounts of components.     

Flash-induced blocking of the high-affinity manganese-binding site in photosystem II by iron cations: dependence on the dark interval between flashes and binary oscillations of fluorescence yield

Incubation of Fe(II) cations with Mn-depleted PSII membranes (PSII(-Mn)) under weak continuous light is accompanied by blocking of the high-affinity, Mn-binding (HAZ) site with ferric cations (Semin, B.K. et al. Biochemistry 2002, 41, 5854-5864). In this study we investigated the blocking yield under single-turnover flash conditions. The flash-probe fluorescence method was used to estimate the blocking efficiency. We found that the yield of blocking increases with flash number and reaches 50% after 7 flashes. When the dark interval between the flashes (Delta t) was varied, we found that the percentage of blocking decreases at Delta t < 100 ms (t 1/2, 4-10 ms). No inhibition of the blocking yield was found at longer time intervals (as with photoactivation). This result shows the necessity of a dark rearrangement during the blocking process (the dual-site hypothesis described in the text) and indicates the formation of a binuclear iron center. During the blocking experiments, we found a binary oscillation of the Fmax elicited during a train of flashes. The oscillations were observed only in the presence of Fe(II) cations or other electron donors (including Mn(II)) but not in the presence of Ca2+. Chelators had no effect on the oscillations. Our results indicate that the oscillations are due to processes on the acceptor side of PSII and to the appearance of "acceptor X" after odd flashes. Acceptor X is reduced by QA- at very high rate (<2 ms), is not sensitive to DCMU, and is rather stable in the dark (t l/2 approximately 2 min). These properties are similar to those of nonheme Fe(III) (Fe(III)NHI). When Fe(II)NHI was oxidized with ferricyanide (Fe(CN)6), the fluorescence decay kinetics and yield of fluorescence were identical to those observed when the sample was exposed to 1 flash prior to the fluorescence measurement. We suggest that acceptor X is Fe(III)NHI, oxidized by the semiquinone form of QB-. This is similar to the mechanism of "reduction-induced oxidation of Fe(II)NHI" by exogenous quinones reported in the literature. We suggest that involvement of QB- in the oxidation of Fe(II)NHI in PSII(-Mn) membranes is due to the modification of the QB-binding site and increase of its redox potential resulting from extraction of the functional Mn cluster.