The physiological role of complex V in ATP synthesis: Murzyme functioning is viable whereas rotary conformation change model is untenable.

Complex V or FoF1-ATPase is a multimeric protein found in bioenergetic membranes of cells and organelles like mitochondria/chloroplasts. The popular perception on Complex V deems it as a reversible molecular motor, working bi-directionally (breaking or making ATP) via a conformation-change based chemiosmotic rotary ATP synthesis (CRAS) mechanism, driven by proton-gradients or trans-membrane potential (TMP). In continuance of our pursuits against the CRAS model of cellular bioenergetics, herein we demonstrate the validity of the murburn model based in diffusible reactive (oxygen) species (DRS/DROS). Supported by new in silico derived data (that there are ∼12 adenosine nucleotide binding sites on the F1 bulb and not merely 3 sites, as perceived earlier), available structural information, known experimental observations, and thermodynamic/kinetic considerations (that de-solvation of protons from hydronium ions is facile), we deduce that Complex V serves as a physiological chemostat and a murzyme (enzyme working via murburn scheme, employing DRS). That is- Complex V uses ATP (via consumption at ε or proteins of F1 module) as a Michaelis-Menten substrate to serve as a pH-stat by inletting protons via the c-ring of Fo module. Physiologically, Complex V also functions as a murzyme by presenting ADP/Pi (or their reaction intermediates) on the αß bulb, thereby enabling greater opportunities for DRS/proton-assisted ATP formation. Thus, the murburn paradigm succeeds the CRAS hypothesis for explaining the role of oxygen in mitochondrial physiologies of oxidative phosphorylation, thermogenesis, TMP and homeostasis.Communicated by Ramaswamy H. Sarma.

Na,K-ATPase: A murzyme facilitating thermodynamic equilibriums at the membrane-interface.

The redox metabolic paradigm of murburn concept advocates that diffusible reactive species (DRS, particularly oxygen-centric radicals) are mainstays of physiology, and not mere pathological manifestations. The murburn purview of cellular function also integrates the essential principles of bioenergetics, thermogenesis, homeostasis, electrophysiology, and coherence. In this context, any enzyme that generates/modulates/utilizes/sustains DRS functionality is called a murzyme. We have demonstrated that several water-soluble (peroxidases, lactate dehydrogenase, hemogoblin, etc.) and membrane-embedded (Complexes I-V in mitochondria, Photosystems I/II in chloroplasts, rhodopsin/transducin in rod cells, etc.) proteins serve as murzymes. The membrane protein of Na,K-ATPase (NKA, also known as sodium-potassium pump) is the focus of this article, owing to its centrality in neuro-cardio-musculo electrophysiology. Herein, via a series of critical queries starting from the geometric/spatio-temporal considerations of diffusion/mass transfer of solutes in cells to an update on structural/distributional features of NKA in diverse cellular systems, and from various mechanistic aspects of ion-transport (thermodynamics, osmoregulation, evolutionary dictates, etc.) to assays/explanations of inhibitory principles like cardiotonic steroids (CTS), we first highlight some unresolved problems in the field. Thereafter, we propose and apply a minimalist murburn model of trans-membrane ion-differentiation by NKA to address the physiological inhibitory effects of trans-dermal peptide, lithium ion, volatile anesthetics, confirmed interfacial DRS + proton modulators like nitrophenolics and unsaturated fatty acid, and the diverse classes of molecules like CTS, arginine, oximes, etc. These explanations find a pan-systemic connectivity with the inhibitions/uncouplings of other membrane proteins in cells.

Murburn model of vision: Precepts and proof of concept.

The classical paradigm of visual physiology comprises of the following features: (i) rod/cone cells located at the rear end of the retina serve as the primary transducers of incoming photo-information, (ii) cis-trans retinal (C20 H28 O) transformations on rhodopsin act as the transduction switch to generate a transmittable signal, (iii) signal amplification occurs via GDP-GTP exchange at transducin, and (iv) the amplified signal is relayed (as an action potential) as a flux-based ripple of Na-K ions along the axons of neurons. Fundamental physical principles, chemical kinetics, and awareness of architecture of eye/retina prompt a questioning of these classical assumptions. In lieu, based on experimental and in silico findings, a simple space-time resolved murburn model for the physiology of phototransduction in the retina is presented wherein molecular oxygen plays key roles. It is advocated that: (a) photo-induced oxygen to superoxide conversion serves as the key step in signal transduction in the visual cycle, (b) all photoactive cells of the retina serve as photoreceptors and rods/cones serve as the ultimate electron source in the retina (deriving oxygen and nutrients from retinal pigmented epithelium), (c) signal amplification is through superoxide mediated phosphorylation of GDP bound to inactive transducin, thereby activating a GDP-based cascade (a new mechanism for trimeric G-proteins), and (d) signal relay is primarily an electron movement along the neuron, from dendritic source to synaptic sink. In particular, we specify the roles for the various modules of transducin and GDP-based activation of phosphodiesterase-6 in the physiology of visual transduction.

Structure-function correlations and system dynamics in oxygenic photosynthesis: classical perspectives and murburn precepts.

HIGHLIGHTS: Contemporary beliefs on oxygenic photosynthesis are critiqued.Murburn model is suggested as an alternative explanation.In the new model, diffusible reactive species are the main protagonists.All pigments are deemed photo-redox active in the new stochastic mechanism.NADPH synthesis occurs via simple electron transfers, not via elaborate ETC.Oxygenesis is delocalized and not just centered at Mn-Complex.Energetics of murburn proposal for photophosphorylation is provided.The proposal ushers in a paradigm shift in photosynthesis research.

The murburn precepts for cellular ionic homeostasis and electrophysiology.

Starting from the basic molecular structure and redox properties of its components, we build a macroscopic cellular electrophysiological model. We first present a murburn purview that could explain ion distribution in bulk-milieu/membrane-interface and support the origin of trans-membrane potential (TMP) in cells. In particular, the discussion focuses on how cells achieve disparity in the distribution of monovalent and divalent cations within (K+ > Na+ > Mg2+ > Ca2+ ) and outside (Na+ > K+ > Ca2+ > Mg2+ ). We explore how TMP could vary for resting/graded/action potentials generation and project a model for impulse conduction in neurons. Outcomes based on murburn bioenergetic equilibriums leading to solubilization of ion-pairs, membrane's permittivity, protein channels' fluxes, and proteins' innate ability to bind/adsorb ions selectively are projected as the integral rationale. We also provide experimental modalities to ratify the projections.

Chemiosmotic and murburn explanations for aerobic respiration: Predictive capabilities, structure-function correlations and chemico-physical logic.

Since mid-1970s, the proton-centric proposal of 'chemiosmosis' became the acclaimed explanation for aerobic respiration. Recently, significant theoretical and experimental evidence were presented for an oxygen-centric 'murburn' mechanism of mitochondrial ATP-synthesis. Herein, we compare the predictive capabilities of the two models with respect to the available information on mitochondrial reaction chemistry and the membrane proteins' structure-function correlations. Next, fundamental queries are addressed on thermodynamics of mitochondrial oxidative phosphorylation (mOxPhos): (1) Can the energy of oxygen reduction be utilized for proton transport? (2) Is the trans-membrane proton differential harness-able as a potential energy capable of doing useful work? and (3) Whether the movement of miniscule amounts of mitochondrial protons could give rise to a potential of ~200 mV and if such an electrical energy could sponsor ATP-synthesis. Further, we explore critically if rotary ATPsynthase activity of Complex V can account for physiological ATP-turnovers. We also answer the question- "What is the role of protons in the oxygen-centric murburn scheme of aerobic respiration?" Finally, it is demonstrated that the murburn reaction model explains the fast kinetics, non-integral stoichiometry and high yield of mOxPhos. Strategies are charted to further demarcate the two explanations' relevance in the cellular physiology of aerobic respiration.

[Fe(Ox)3]3- complex as a photodegradation agent at neutral pH: Advances and limitations.

In the present work advances and limitations in the application of Fe(III)-oxalate complexes (namely, [Fe(Ox)3]3-) to the photodegradation of a model persistent organic contaminant - 2,4-dichlorophenoxybutanoic acid (2,4-DB) in neutral aqueous solutions were systematically investigated for the first time. It has been shown that the efficiency of [Fe(Ox)3]3- system greatly depends on the initial concentrations of oxalate ion due to the fast consumption of the ligand during photodegradation process leading to the formation of photochemically less active Fe(III) species. Efficiency of Fe(Ox)33- system normalized to UVA absorption at the excitation wavelength is practically independent on [Fe(III)]. Thus, it is highly probable that concentrations of Fe(III) as low as < 10-5 M could be applied in water treatment procedures using reactors with very long optical path. The system also keeps high efficiency at low concentration of pollutant (<10-5 M) though this results in higher relative consumption rate of Fe(III) and oxalate ions.

Photooxidation of herbicide amitrole in the presence of fulvic acid.

Fulvic acid (Henan ChangSheng Corporation) photoinduced degradation of non-UVA-absorbing herbicide amitrole (3-amino-1,2,4-triazole, AMT) as a way for its removal from polluted water was investigated in details. It was shown that the main primary species generated by fulvic acid under UVA radiation, triplet state and hydrated electron, are not directly involved in the herbicide degradation. AMT decays in reactions with secondary intermediates, reactive oxygen species, formed in reactions of the primary ones with dissolved oxygen. Singlet oxygen is responsible for 80% of herbicide oxidation, and •OH and O2-• radicals-for the remaining 20% of AMT. It was found that quantum yield of AMT photodegradation (ϕ 365nm) decreases linearly from 2.2 × 10-3 to 1.2 × 10-3 with the increase of fulvic acid concentration from 1.1 to 30 mg L-1. On the contrary, the increase of AMT concentration from 0.8 to 25 mg L-1 leads to practically linear growth of ϕ 365nm value from 1.8 × 10-4 to 4 × 10-3. Thus, the fulvic acid exhibits a good potential as UVA photooxidizer of organic pollutants sensitive to the singlet oxygen (ϕ 532nm(1O2) = 0.025 at pH 6.5).

Laser flash photolysis study of photocatalytic properties of pillared interlayered clays and Fe,Al-silica mesoporous catalysts.

Laser flash photolysis was applied to determine the primary photochemical processes over iron-containing clay (montmorillonite KSF), pillared interlayered clays (PILCs) and mesoporous mesophase iron silicate materials (MMMs). For KSF, the homogeneous photochemical reaction of Fe(III) leached from the clay material resulted in the formation of OH radicals, which were monitored by means of their reaction with methyl viologen dication (MV(2+)). For PILCs and MMMs, no leaching of Fe(III) to the solution nor hydroxyl radical formation were observed. Nevertheless, these catalysts were found to exhibit a sufficient effect on phenol photoionization. The increase in quantum yields of PhO radicals is caused by the effect of PILCs and MMMs and is explained by heterogeneous processes on the surface of catalyst particles.

The essence of ATP coupling.

The traditional explanation of ATP coupling is based on the raising of the equilibrium constants of the biochemical reactions. But in the frames of the detailed balance, no coupling occurs under thermodynamic equilibrium. The role of ATP in coupling is not that it provides an increase in the equilibrium constants of thermodynamically unfavorable reactions but that the unfavorable reactions are replaced by other reactions which kinetically are more favorable and give rise to the same products. The coupling with ATP hydrolysis results in the formation of quasistationary intermediate states.

New insight into photochemistry of ferrioxalate.

Optical spectroscopy and nanosecond flash photolysis (Nd:YAG laser, 355 nm, pulse duration 5 ns, mean energy 5 mJ/pulse) were used to study the photochemistry of Fe(III)(C2O4)3(3-) complex in aqueous solutions. The main photochemical process was found to be intramolecular electron transfer from the ligand to Fe(III) ion with formation of a primary radical complex [(C2O4)2Fe(II)(C2O4(*))](3-). The yield of radical species (i.e., CO2(*-) and C2O4(*-)) was found to be less than 6% of Fe(III)(C2O4)3(3-) disappeared after flash. [(C2O4)2Fe(II)(C2O4(*))](3-) dissociates reversibly into oxalate ion and a secondary radical complex, [(C2O4)Fe(II)(C2O4(*))](-). The latter reacts with the initial complex and dissociates to Fe(II)(C2O4) and oxalate radical. In this framework, the absorption spectra and rate constants of the reactions of all intermediates were determined.

Photodegradation of glyphosate in the ferrioxalate system.

The photoinduced degradation of glyphosate (GLP) in the ferrioxalate system was investigated under irradiation with a 250W metal halide lamp (lambda>/=365nm). The efficiency of orthophosphates release, representing the photodegradation efficiency of GLP, increased with decreasing the initial concentrations of GLP and Fe(III)/oxalate ratios. At acidic pH value in the range of 3.5-5.0, higher efficiency of orthophosphates release up to 60.6% was achieved, while the efficiency dropped to 42.1% at pH 6.0. The photochemical process mainly involved the predominant species of iron(III), namely Fe(C(2)O(4))(2)(-) and Fe(C(2)O(4))(3)(3-), which lead to the formation of hydroxyl radicals in the presence of dissolved oxygen under UV-vis irradiation. Also, the complexation of GLP with Fe(III) obviously increased the light absorption of GLP and facilitated its degradation by direct photolysis. The ninhydrin test for primary amines showed that the GLP was attacked by hydroxyl radicals with CN cleavage to yield aminomethylphosphonic acid (AMPA) and CP cleavage to yield sarcosine. The photodegradation may be enhanced by the decomposition of reactive radicals produced through ligand-to-metal charge transfer (LMCT) of ferric-GLP complexes.