Nonlinear Enhancement of Oxygen Evolution in Thylakoid Membranes: Modeling the Effect of Light Intensity and β-Cyclodextrin Concentration

Single-Molecule FRET Kinetics of the Mn2+ Riboswitch: Evidence for Allosteric Mg2+ Control of "Induced-Fit" vs "Conformational Selection" Folding Pathways

Gene expression in bacteria is often regulated dynamically by conformational changes in a riboswitch upon ligand binding, a detailed understanding of which is very much in its infancy. For example, the manganese riboswitch is a widespread RNA motif that conformationally responds in regulating bacterial gene expression to micromolar levels of its eponymous ligand, Mn²⁺, but the mechanistic pathways are poorly understood. In this work, we quantitatively explore the dynamic folding behavior of the manganese riboswitch by single-molecule fluorescence resonance energy transfer spectroscopy as a function of cation/ligand conditions. From the detailed analysis of the kinetics, the Mn²⁺ is shown to fold the riboswitch by a "bind-then-fold" (i.e., "induced-fit", IF) mechanism, whereby the ligand binds first and then promotes folding. On the other hand, the data also clearly reveal the presence of a folded yet ligand-free structure predominating due to the addition of physiological Mg²⁺ to a nonselective metal ion binding site. Of particular kinetic interest, such a Mg²⁺ "prefolded" conformation of the riboswitch is shown to exhibit a significantly increased affinity for Mn²⁺ and further stabilization by subsequent binding of the ligand, thereby promoting efficient riboswitch folding by a "fold-then-bind" (i.e., "conformational selection", CS) mechanism. Our results not only demonstrate Mg²⁺-controlled switching between IF and CS riboswitch folding pathways but also suggest a novel heterotropic allosteric control in the manganese riboswitch activity co-regulated by Mg²⁺ binding.

USING A NONANALYTICAL APPROACH TO MODEL NONLINEAR DYNAMICS IN PHOTOSYNTHESIS AT THE PHOTOSYSTEM LEVEL(1)

Nonlinear dynamics in photon capture and uptake at the photosystem level may have a strong effect on photosynthetic yield. However, the magnitude of such effects is difficult to estimate theoretically because nonlinear systems often cannot be represented accurately using equations. A nonanalytical simulation was developed that used a simple decision tree and Monte Carlo methods, instead of equations, to model how a population of photosystems absorbs and utilizes photons from an ambient light field. This simulation replicated realistic kinetics in the closure and variable fluorescence yield of PSII on the single-turnover timescale, as well as the saturating behavior in light-driven electron flow that is observed in nature with increasing irradiance. This simulation indicated that the transfer of absorbed photon energy among PSII units can introduce strong nonlinear enhancement in light-driven electron flow. However, this effect was seen only in populations with particular photosynthetic states as determined by physiological properties of PSII. Other populations with the same degree of energy transfer but with different photosynthetic states exhibited little enhancement in electron flow and, in some cases, a reduction. This nonanalytical approach provides a simple means to quantify theoretically how nonlinear dynamics in photosynthesis arise at the photosystem level and how these dynamics may act to enhance or constrain photosynthetic rates and yields. Such simulations can provide quantitative insight into different physiological bases of nonlinear light-harvesting dynamics and identify those that would have the strongest theoretical influence and thus warrant closer experimental examination.

Photochemical cooperativity in photosystem II. Characterization of oxygen evolution discontinuities in the light-response curves

In two previous papers (Fragata et al., J. Phys. Chem. B, 2005, 109, 14707-14714; Fragata et al., J. Phys. Chem. B, 2007, 111, 3315-3320), it was shown that the variation of oxygen evolution with the light intensity (I) in photosystem II (PSII) in steady state conditions can be formulated according to the Langmuir adsorption isotherm for heterogeneous catalysis. This yielded the expression OEth = OEth(max) I/(L1/2 + I), where OEth is the theoretical oxygen evolution, OEth(max) the maximum oxygen evolution, and L1/2 the irradiance giving OEth(max)/2. In this approximation, the photons interaction with the chlorophylls in the PSII reaction center is assumed to be a heterogeneous reaction in which the light is represented as a stream of particles instead of an electromagnetic wave. That is, the chlorophyll molecules are the adsorption surfaces (or heterogeneous catalysts), and the incident (or exciting) photons are the substrate, or the reagent. Recently, the examination of new experimental data obtained with 2,6-dichloro-p-benzoquinone (DCBQ) and p-benzoquinone (pBQ) as exogenous electron acceptors, disclosed the presence of oxygen evolution discontinuities (or transitions) in the light-response curves. The new data were fitted with a mathematical summation of hyperbola of order n(i) > 1, OEth = Sigma(i) [OEth(max)]iIn(i)/[(L1/2)i(n(i)) + I(n(i))], where the n(i)'s are the number of sites used by the incident photons in their interaction with the photosynthetic pigments in each population i of PSII centers open for photochemistry. The mathematical simulations yielded only three distinct n(i)'s, that is, 1.8, 4.8, 8.5 and 1.8, 4.2, 8.4 for isolated PSII particles incubated with DCBQ and pBQ, respectively. Implicitly, this means the simultaneous excitation of each PSII reaction center with more than one photon, that is, the excitation of more than one pigment molecule. It is suggested that these transitions have their origin in the cooperative interaction of the photons and the chlorophylls, and most likely also the pheophytins. This indicates that the discontinuities (or transitions) observed in the light-response curves of oxygen evolution are consistent with the hypothesis of photochemical cooperativity in photosystem II.

Theoretical consideration of the use of a Langmuir adsorption isotherm to describe the effect of light intensity on electron transfer in photosystem II

Electron transport through photosystem II (PSII), measured as oxygen evolution, was investigated in isolated PSII particles and thylakoid membranes irradiated with white light of intensities (I) of 20 to about 4000 micromol of photons/(m2.s). In steady-state conditions, the evolution of oxygen varies with I according to the hyperbolic expression OEth = OEth(max)I/(L1/2 + I) (eq i) where OEth is the theoretical oxygen evolution, OEth(max) is the maximum oxygen evolution, and L1/2 is the light intensity giving OEth(max)/2. In this work, the mathematical derivation of this relationship was performed by using the Langmuir adsorption isotherm and assuming that the photon interaction with the chlorophyll (Chl) in the PSII reaction center is a heterogeneous reaction in which the light is represented as a stream of particles instead of an electromagnetic wave (see discussion in Turro, N. J. Modern Molecular Photochemistry; University Science Books: Mill Valley, CA, 1991). In accordance with this approximation, the Chl molecules (P680) were taken as the adsorption surfaces (or heterogeneous catalysts), and the incident (or exciting) photons as the substrate, or the reagent. Using these notions, we demonstrated that eq i (Langmuir equation) is a reliable interpretation of the photon-P680 interaction and the subsequent electron transfer from the excited state P680, i.e., P680*, to the oxidized pheophytin (Phe), then from Phe- to the primary quinone QA. First, eq i contains specific functional and structural information that is apparent in the definition of OEth(max) as a measure of the maximal number of PSII reaction centers open for photochemistry, and L1/2 as the equilibrium between the electron transfer from Phe- to QA and the formation of reduced Phe in the PSII reaction center by electrons in provenance from P680*. Second, a physiological control mechanism in eq i is proved by the observation that the magnitudes of OEth(max) and L1/2 are affected differently by exogenous PSII stimulators of oxygen evolution (Fragata, M.; Dudekula, S. J. Phys. Chem. B 2005, 109, 14707). Finally, an unexpected new concept, implicit in eq i, is the consideration of the photon as the substrate in the photochemical reactions taking place in the PSII reaction center. We conclude that the Langmuir equation (eq i) is a novel mathematical formulation of energy and electron transfer in photosystem II.

Investigation of the electron transfer site of p-benzoquinone in isolated photosystem II particles and thylakoid membranes using α- and β-cyclodextrins

The electron transfer sites of p-benzoquinone (pBQ) and 2,6-dichloro-p-benzoquinone (DCBQ) were investigated in thylakoid membranes and isolated photosystem II (PSII) particles from barley (Hordeum vulgare) using alpha- and beta-cyclodextrins (CD) at concentrations up to 16 mM. In CD-treated thylakoid membranes incubated with DCBQ the electron transport through PSII, estimated as oxygen evolution (OE), is largely enhanced according to a S-shaped (sigmoidal) dose-response curve displaying a sharp inflection point, or transition. The maxima percent OE enhancement at cyclodextrin concentrations above 14 mM are about 100% (alpha-CD) and 190% (beta-CD). On the contrary, in thylakoid membrane preparations incubated with pBQ as electron acceptor one observes an OE inhibition of about 30% which might result from the depletion of the thylakoid membrane of its plastoquinone content. It was also found that in isolated PSII particles incubated with either pBQ or DCBQ the cyclodextrins induce only a small OE enhancement. Moreover, the observation in CD-treated thylakoid membranes incubated with pBQ of a residual, non-inhibited oxygen-evolving activity of about 70% puts a twofold question. That is, either the plastoquinone depletion was not complete, or, pBQ binds to electron acceptor sites of different nature. From this and data published in the literature, it is concluded that in the thylakoid membrane (i) DCBQ binds to Q(B), as is generally accepted, and (ii) pBQ binds to the plastoquinol molecules in the PQ pool and most likely also to Q(B), thereby in accord with Satoh et al.'s model [K. Satoh, M. Ohhashi, Y. Kashino, H. Koike, Plant Cell Physiol. 36 (1995) 597-605]. An attractive alternative hypothesis is the direct interaction of pBQ with the non-haem Fe(2+) between Q(A) and Q(B).