A redox switch hypothesis for the origin of two light reactions in photosynthesis

Photosynthesis provides energy in the Earth's biosphere and oxygen in its atmosphere. For oxygen to be produced, two different light reactions must operate simultaneously and in series. Known anaerobic, photosynthetic bacteria contain one or other of these photosystems, but never both. Here, I propose that the two photosystems diverged, in structure and function, from a common ancestor, within a single, continuous, anaerobic lineage. In such cells, living examples of which are predicted, the two photosystems are isoenzymes encoded by orthologous genes under co-ordinated, redox regulatory control. A redox switch responds to defined environmental conditions and selects which set of genes is expressed. In these cells, the two photosystems are thus synthesised at different times. It is further proposed that the origin of oxygen-evolving photosynthesis was a simple mutation that disabled the redox switch, permitting simultaneous expression of the two sets of genes. The two, newly co-existing photosystems became connected by shared electron carriers, allowing generation of electrochemical potential high enough to oxidise water; an inexhaustible supply of reductant; and the selective advantages and pressures of an aerobic world.     

The redox stress hypothesis of aging

The main objective of this review is to examine the role of endogenous reactive oxygen/nitrogen species (ROS) in the aging process. Until relatively recently, ROS were considered to be potentially toxic by-products of aerobic metabolism, which, if not eliminated, may inflict structural damage on various macromolecules. Accrual of such damage over time was postulated to be responsible for the physiological deterioration in the postreproductive phase of life and eventually the death of the organism. This "structural damage-based oxidative stress" hypothesis has received support from the age-associated increases in the rate of ROS production and the steady-state amounts of oxidized macromolecules; however, there are increasing indications that structural damage alone is insufficient to satisfactorily explain the age-associated functional losses. The level of oxidative damage accrued during aging often does not match the magnitude of functional losses. Although experimental augmentation of antioxidant defenses tends to enhance resistance to induced oxidative stress, such manipulations are generally ineffective in the extension of life span of long-lived strains of animals. More recently, in a major conceptual shift, ROS have been found to be physiologically vital for signal transduction, gene regulation, and redox regulation, among others, implying that their complete elimination would be harmful. An alternative notion, advocated here, termed the "redox stress hypothesis," proposes that aging-associated functional losses are primarily caused by a progressive pro-oxidizing shift in the redox state of the cells, which leads to the overoxidation of redox-sensitive protein thiols and the consequent disruption of the redox-regulated signaling mechanisms.     

The redox hypothesis in siderophore-mediated iron uptake

The viability of iron(III/II) reduction as the initial step in the in vivo release of iron from its thermodynamically stable siderophore complex is explored.     

A dynamic zinc redox switch

The crystal structures of glutathione-dependent formaldehyde-activating enzyme (Gfa) from Paracoccus denitrificans, which catalyzes the formation of S-hydroxymethylglutathione from formaldehyde and glutathione, and its complex with glutathione (Gfa-GTT) have been determined. Gfa has a new fold with two zinc-sulfur centers, one that is structural (zinc tetracoordinated) and one catalytic (zinc apparently tricoordinated). In Gfa-GTT, the catalytic zinc is displaced due to disulfide bond formation of glutathione with one of the zinc-coordinating cysteines. Soaking crystals of Gfa-GTT with formaldehyde restores the holoenzyme. Accordingly, the displaced zinc forms a complex by scavenging formaldehyde and glutathione. The activation of formaldehyde and of glutathione in this zinc complex favors the final nucleophilic addition, followed by relocation of zinc in the catalytic site. Therefore, the structures of Gfa and Gfa-GTT draw the critical association between a dynamic zinc redox switch and a nucleophilic addition as a new facet of the redox activity of zinc-sulfur sites.     

Chaperone activity with a redox switch

Hsp33, a member of a newly discovered heat shock protein family, was found to be a very potent molecular chaperone. Hsp33 is distinguished from all other known molecular chaperones by its mode of functional regulation. Its activity is redox regulated. Hsp33 is a cytoplasmically localized protein with highly reactive cysteines that respond quickly to changes in the redox environment. Oxidizing conditions like H2O2 cause disulfide bonds to form in Hsp33, a process that leads to the activation of its chaperone function. In vitro and in vivo experiments suggest that Hsp33 protects cells from oxidants, leading us to conclude that we have found a protein family that plays an important role in the bacterial defense system toward oxidative stress.     

Application of electrochemical kinetics to photosynthesis and oxidative phosphorylation: The redox element hypothesis and the principle of parametric energy coupling

It is suggested that the transfer of electrons within the biological electron transfer chain is subject to the laws of electrochemical kinetics, when membrane-bound electron carriers are involved. Consequently, small tightly bound molecular complexes of two or more electron transfer proteins of different redox potential within an energy transducing membrane, which accept electrons from a donor at one membrane surface and donate it to an acceptor at the other, may be regarded as real and functioning molecular redox elements, which convert the free energy of electrons into electrochemical energy. Especially, the transfer of an electron from excited chlorophyll to an electron acceptor can be looked upon as an electrochemical oxidation of excited chlorophyll at such a complex. In this reaction the electron acceptor complex behaves like a polarized electrode, in which the electrochemical potential gradient is provided by a gradient of redox potential of its constituents.Calculations and qualitative considerations show that this concept leads to a consistent understanding of both primary and secondary reactions in photosynthesis (electron capture, delayed light emission, ion transfer, energy conversion) and can also be applied to oxidative phosphorylation. Within the proposed concept, ion transfer and the development of ion gradients have to be considered as results of electrochemical activity—not as intermediates for energy conversion. For energetic reasons, a non steady state, periodic energy coupling mechanism is postulated which functions by periodic changes of the capacity of the (electrochemically) charged energy transducing membrane, during which capacitive surplus energy is released as chemical energy. Energy transducing membranes may thus be considered as electrochemical parametric energy transformers. This concept explains active periodic conformation changes and mechanochemical processes of energy transducing membranes as energetically essential events, which trigger energy conversion according to the principle of variable parameter energy transformers.The electrochemical approach presented here has been suggested and is supported by the observation, that with respect to electron capture and conversion of excitation energy into electrochemical energy, the behaviour of excited chlorophyll at suitable solid state (semiconductor) electrodes is very similar to that of chlorophyll in photosynthetic reaction centers.     

The significance of antioxidants in the aphid-plant interaction: The redox hypothesis

The hypothesis is advanced that a redox system controls oxidation rates during the responses of plants to attack by sucking insects, that soluble antioxidants, such as ascorbate and glutathione, enhance the effectiveness of the plant's defensive system, and that oxidising enzymes in the saliva of aphids (and other phytophagous sucking insects) serve to counter it. Plants typically respond to wounding, including that caused by sucking insects, by mobilising and oxidising phenolic compounds. The initial phenolic monomers, and especially the monomerico-quinones to which many give rise on oxidation, are generally deterrent to insects. Their final oxidation products, however, are polymers and phenol-protein conjugates, which are non-toxic, but serve to seal off damaged cells. It is suggested that effective defence by the plant requires oxidation of phenolics at a controlled rate that maintains a deterrent titre of the monomers, while allowing a well ordered deposition of sealants. It is also suggested that the salivary oxidases of the insects hasten oxidation in the affected tissues, thereby decreasing concentrations of monomeric phenols and quinones. It is further suggested that sedentary species may also thereby disorganise the sealing off of affected tissues. A kinetic model is developed to show that inclusion of a reductive cycle in the sequential oxidation of phenolics increases the steady state concentrations of monomeric phenols for a given throughput. Conversely, an increase in oxidation rates diminishes the titre of monomers for the same throughput. In initial biological tests of the hypothesis, infiltration of stems of lucerne cultivars with ascorbate or glutathione reduced the reproductive rate of spotted alfalfa aphid,Therioaphis trifolii maculata (Buckton), and of blue-green aphid,Acyrthosiphon kondo Shinji, feeding thereon. Intrinsically non-deterrent concentrations of ascorbate synergised the deterrence of the plant phenolics chlorogenic acid and catechin to the apple aphid,Aphis pomi (de Geer), and the spotted alfalfa aphid,T. t. maculata, respectively.     

Biocompatible hydroxyapatite nanoparticles as a redox luminescence switch

Abstract  

A redox luminescence switch was prepared by doping hydroxyapatite nanoparticles with CePO₄:Tb. The resulting multifunctional material exhibits good biocompatibility, biological affinity, and potential drug-carrying capability. The luminescent hydroxyapatite nanoparticles may find important applications in biomedical diagnostics, drug delivery, and biological sensors.     

Adjacent cysteine residues as a redox switch.

Oxidation of adjacent cysteine residues into a cystine forms a strained eight-membered ring. This motif was tested as the basis for an enzyme with an artificial redox switch. Adjacent cysteine residues were introduced into two different structural contexts in ribonuclease A (RNase A) by site-directed mutagenesis to produce the A5C/A6C and S15C/S16C variants. Ala5 and Ala6 are located in an alpha-helix, whereas Ser15 and Ser16 are located in a surface loop. Only A5C/A6C RNase A had the desired property. The catalytic activity of this variant decreases by 70% upon oxidation. The new disulfide bond also decreases the conformational stability of the A5C/A6C variant. Reduction with dithiothreitol restores full enzymatic activity. Thus, the insertion of adjacent cysteine residues in a proper context can be used to modulate enzymatic activity.     

The contractile basis of ameboid movement. VI. The solation-contraction coupling hypothesis

The contracted pellets derived from a high-speed supernate of Dictyostelium discoideum (S3) were investigated to determine the functional activity associated with this specific subset of the cellular motile apparatus. A partially purified model system of gelation and contraction (S6) was prepared from the contracted pellets, and the presence of calcium- and pH-sensitive gelation and contraction in this model demonstrated that a functional cytoskeletal-contratile complex remained at least partially associated with the actin and myosin during contraction. Semi-quantitative assays of gelation and solation in the myosin-free preparation S6 included measurements of turbidity, relative viscosity, and strain birefringence. The extent of gelation was optimal at pH 6.8 and a free calcium ion concentration of approximately 3.0 x 10(-8) M. Solation was favored when the free calcium ion concentration was greater than 7.6 x 10(-7) M or when the pH was increased or decreased from pH 6.8. Gelation was reversibly inhibited by increasing the free calcium ion concentration to approxomately 4.6 x 10(-6) M at pH 6.8. The solation-gelation process of this model has been interpreted to involve the reversible cross-linking of actin filaments. The addition of purified D. discoideum myosin to S6 served to reconstitute calcium- and pH-regulated contraction. The results from this study indicate that contraction is coupled functionally to the local breakdown (solation) of the gel. Therefore, solation has been identified as a structural requirement for extensive shortening during contraction. We have called this concept the solation-contraction coupling hypothesis. Fractionation of a preparation derived from the contracted pellets yielded a fraction consisting of actin and a 95,000-dalton polypeptide that exhibited calcium-sensitive gelation at 28 degrees C and a fraction composed of actin and 30,000- and 18,000-dalton polypeptides that demonstrated calcium-sensitive genlation at 0 degrees C.     

The zinc-dependent redox switch domain of the chaperone Hsp33 has a novel fold

The Escherichia coli chaperone Hsp33 contains a C-terminal zinc-binding domain that modulates activity by a so-called "redox switch". The oxidized form in the absence of zinc is active, while the reduced form in the presence of zinc is inactive. X-ray crystal structures of Hsp33 invariably omit details of the C-terminal domain, which is truncated in protein constructs that are capable of forming crystals. We report the solution structure of a recombinant 61-residue protein containing the zinc-binding domain (residues 227-287) of Hsp33, in the presence of stoichiometric amounts of Zn2+. The zinc-bound protein is well folded, and forms a novel structure unlike other published zinc-binding domains. The structure consists of two helices at right-angles to each other, a two-stranded B-hairpin and a third helix at the C terminus. The zinc site comprises the side-chains of the conserved cysteine residues 232, 234, 262 and 265, and connects a short sequence before the first helix with the tight turn in the middle of the B-hairpin. The structure of the C-terminal zinc-binding domain suggests a mechanism for the operation of the redox switch: loss of the bound zinc ion disrupts the folded structure, allowing the ligand cysteine residues to be oxidized, probably to disulfide bonds. The observation that the C-terminal domain is poorly structured in the active oxidized form suggests that the loss of zinc and unfolding of the domain precedes the oxidation of the thiolate groups of the cysteine residues, since the formation of disulfides between distant parts of the domain sequence would presumably promote the formation of stable three-dimensional structure in the oxidized form.Hsp33 provides an example of a redox signaling system that utilizes protein folding and unfolding together with chemical modification for transduction of external stimuli, in this case oxidative stress, to activate the machinery of the cell that is designed to deal with that stress.     

Picture representation during REM dreams: A redox molecular hypothesis

A novel molecular hypothesis about visual perception and imagery has recently been proposed (Bókkon, 2009; BioSystems). Namely, external electromagnetic visible photons are converted into electrical signals in the retina and are then conveyed to V1. Next, these retinotopic electrical signals (spike-related electrical signals along classical axonal-dendritic pathways) can be converted into synchronized bioluminescent biophoton signals (inside the neurons) by neurocellular radical reactions (redox processes) in retinotopically organized V1 mitochondrial cytochrome oxidase-rich visual areas. The bioluminescent photonic signals (inside the neurons) generated by neurocellular redox/radical reactions in synchronized V1 neurons make it possible to produce computational biophysical pictures during visual perception and imagery. Our hypothesis is in line with the functional roles of reactive oxygen and nitrogen species in living cells and states that this is not a random process, but rather a strict mechanism used in signaling pathways. Here, we suggest that intrinsic biophysical pictures can also emerge during REM dreams.     

Evolutionary origins of insulin resistance: a behavioral switch hypothesis

Background  

Insulin resistance, which can lead to a number of diseases including type 2 diabetes and coronary heart disease, is believed to have evolved as an adaptation to periodic starvation. The "thrifty gene" and "thrifty phenotype" hypotheses constitute the dominant paradigm for over four decades. With an increasing understanding of the diverse effects of impairment of the insulin signaling pathway, the existing hypotheses are proving inadequate.     

Insertion of a reversible redox switch into a rare-cutting DNA endonuclease

Target sites for homing endonucleases occur infrequently in complex genomes. As a consequence, these enzymes can be used in mammalian systems to introduce double-strand breaks at recognition sites inserted within defined loci to study DNA repair by homologous and nonhomologous recombination. Using homing endonucleases for gene targeting in vivo would be more feasible if temporal or spatial regulation of their enzymatic activity were possible. Here, we show that the DNA cleavage activity of the yeast PI-SceI homing endonuclease can be turned on and off using a redox switch. Two cysteine pairs (Cys-64/Cys-344 and Cys-67/Cys-365) were separately inserted into flexible DNA binding loop(s) to create disulfide bonds that lock the endonuclease into a nonproductive conformation. The cleavage activities of the reduced Cys-64/Cys-344 and Cys-67/Cys-365 variants are similar or slightly lower than that of the control protein, but the activities of the proteins in the oxidized state are decreased more than 30-fold. Modulating the activity of the proteins is easily accomplished by adding or removing the reducing agent. We show that defects in DNA binding account for the decreased DNA cleavage activities of the proteins containing disulfide bonds. Interestingly, the Cys-67/Cys-365 variant toggles between two different DNA binding conformations under reducing and oxidizing conditions, which may permit the identification of structural differences between the two states. These studies demonstrate that homing endonuclease activity can be controlled using a molecular switch.