Theory of chemical bonds in metalloenzymes XXII: a concerted bond-switching mechanism for the oxygen–oxygen bond formation coupled with one electron transfer for water oxidation in the oxygen-evolving complex of photosystem II

ABSTRACT

QM(UB3LYP)/MM(AMBER) calculations were performed for the locations of the transition structure (TS) of the oxygen–oxygen (O–O) bond formation in the S₄ state of the oxygen-evolving complex (OEC) of photosystem II (PSII). The natural orbital (NO) analysis of the broken-symmetry (BS) solutions was also performed to elucidate the nature of the chemical bonds at TS on the basis of several chemical indices defined by the occupation numbers of NO. The computational results revealed a concerted bond switching (CBS) mechanism for the oxygen–oxygen bond formation coupled with the one-electron transfer (OET) for water oxidation in OEC of PSII. The orbital interaction between the σ-HOMO of the Mn(IV)₄–O₍₅₎ bond and the π*-LUMO of the Mn(V)₁=O₍₆₎ bond plays an important role for the concerted O–O bond formation for water oxidation in the CaMn₄O₆ cluster of OEC of PSII. One electron transfer (OET) from the π-HOMO of the Mn(V)₁=O₍₆₎ bond to the σ*-LUMO of the Mn(IV)₄–O₍₅₎ bond occurs for the formation of electron transfer diradical, where the generated anion radical [Mn(IV)₄–O₍₅₎]^-? part is relaxed to the ?Mn(III)₄?…?O₍₅₎^- structure and the cation radical [O₍₆₎=Mn(V)₁]⁺ ? part is relaxed to the ⁺O₍₆₎–Mn(IV)₁? structure because of the charge-spin separation for the electron-and hole-doped Mn–oxo bonds. Therefore, the local spins are responsible for the one-electron reductions of Mn(IV)₄->Mn(III)₄ and Mn(V)₁->Mn(IV)₁. On the other hand, the O₍₅₎^- and O₍₆₎⁺ sites generated undergo the O–O bond formation in the CaMn₄O₆ cluster. The Ca(II) ion in the cubane- skeleton of the CaMn₄O₆ cluster assists the above orbital interactions by the lowering of the orbital energy levels of π*-LUMO of Mn(V)₁=O₍₆₎ and σ*-LUMO of Mn(IV)₄–O₍₅₎, indicating an important role of its Lewis acidity. Present CBS mechanism for the O–O bond formation coupled with one electron reductions of the high-valent Mn ions is different from the conventional radical coupling (RC) and acid-base (AB) mechanisms for water oxidation in artificial and native photosynthesis systems. The proton-coupled electron transfer (PC-OET) mechanism for the O–O bond formation is also touched in relation to the CBS-OET mechanism.     

Uniform estimate of the constant in the strengthened CBS inequality for anisotropic non‐conforming FEM systems

Preconditioners based on various multilevel extensions of two‐level finite element methods (FEM) lead to iterative methods which have an optimal order computational complexity with respect to the size of the system. Such methods were first presented in Axelsson and Padiy (SIAM. J. Sci. Stat. Comp. 1990; 20 :1807) and Axelsson and Vassilevski (Numer. Math. 1989; 56 :157), and are based on (recursive) two‐level splittings of the finite element space. The key role in the derivation of optimal convergence rate estimates is played by the constant γ in the so‐called Cauchy–Bunyakowski–Schwarz (CBS) inequality, associated with the angle between the two subspaces of the splitting. It turns out that only existence of uniform estimates for this constant is not enough but accurate quantitative bounds for γ have to be found as well. More precisely, the value of the upper bound for γ∈(0,1) is part of the construction of various multilevel extensions of the related two‐level methods. In this paper, an algebraic two‐level preconditioning algorithm for second‐order elliptic boundary value problems is constructed, where the discretization is done using Crouzeix–Raviart non‐conforming linear finite elements on triangles. An important point to make is that in this case the finite element spaces corresponding to two successive levels of mesh refinements are not nested. To handle this, a proper two‐level basis is considered, which enables us to fit the general framework for the construction of two‐level preconditioners for conforming finite elements and to generalize the method to the multilevel case. The major contribution of this paper is the derived estimates of the related constant γ in the strengthened CBS inequality. These estimates are uniform with respect to both coefficient and mesh anisotropy. To our knowledge, the results presented in the paper are the first such estimates for non‐conforming FEM systems. Copyright © 2004 John Wiley & Sons, Ltd.     

Temperature and humidity aging of poly(p-phenylene-2,6-benzobisoxazole) fibers: Chemical and physical characterization

In recent years, poly(p-phenylene-2,6-benzobisoxazole) (PBO) fibers have become prominent in high strength applications such as body armor, ropes and cables, and recreational equipment. The objectives of this study were to expose woven PBO body armor panels to elevated temperature and moisture, and to analyze the chemical, morphological and mechanical changes in PBO yarns extracted from the panels. A 30% decrease in yarn tensile strength, which was correlated to changes in the infrared peak absorbance of key functional groups in the PBO structure, was observed during the 26 week elevated temperature/elevated moisture aging period. Substantial changes in chemical structure were observed via infrared spectroscopy, as well as changes in polymer morphology using microscopy and neutron scattering. When the panels were removed to an ultra-dry environment for storage for 47 weeks, no further decreases in tensile strength degradation were observed. In a follow-on study, fibers were sealed in argon-filled glass tubes and exposed to elevated temperature; less than a 4% decrease in tensile strength was observed after 30 weeks, demonstrating that moisture is a key factor in the degradation of these fibers.     

Rg—HX(Rg=He,Ne;X=F,Cl,Br)分子间势的精确量子化学从头计算研究III.He—HBr

在用非迭代的三重激发项来校正CCSD的CCSD（T）理论水平下，采用aug-cc- pVQZ基函数对He—HBr的分子间势进行了系统的研究。结果表明：He—HBr以线型结 构存在。在极限基的情况下，复合物两种线型极小点结构He—H—Br和He—Br—H势 阱深分别为28.792 cm~(-1)和35.707 cm~(-1)，对应He原子到HBr分子质心的距离 R分别为0.407 nm和0.343 nm。讨论了不同的基函数和理论方法在研究此类弱束缚 态复合物的分子间势时的可靠性及其对结果的影响，同时也给出了热函数的解析形 式。     

Solid-state pH nanoelectrode based on polyaniline thin film electrodeposited onto ion-beam etched carbon fiber

An ultramicro pH sensor has been constructed based on a thin polyaniline film that was electrochemically deposited onto a carbon fiber nanometer-size electrode. The substrate nanoelectrodes were fabricated using ion-beam conically etched carbon fibers with tip diameters ranging ca. from 100 to 500 nm. The polyaniline film was deposited from HCl solution containing the aniline monomer by cycling the potential between −0.2 and +1.0 V. The electromotive force (emf) signal between the pH sensitive polyaniline-coated nanoelectrode and an Ag/AgCl reference electrode was linear over the pH range of 2.0-12.5 with a slightly super-Nernstian slope of ca. −60 mV/pH unit. Response times ranged from several sec at pHs around 7 up to 2 min at pH 12.5. The proposed pH nanoelectrode displayed high ion selectivity with respect to K⁺, Na⁺, Ca²⁺, and Li⁺, with log K_H,M values around −12 and has a working lifetime of about 20 days. Key parameters important for the pH nanoelectrode performance, including polyaniline film preparation, selectivity, response time, temperature dependence, relative coating thickness, stability, and reproducibility, have been characterized and optimized. The performance of the pH nanoelectrode was examined by measuring the pH of several real samples including body fluids (serum, urine) and low ionic strength water samples (rain, deionized and tap water). The results agreed very well with those obtained by using commercial glass pH electrodes. The proposed pH nanoelectrode demonstrated attractive properties and seems particularly promising for use under physiological conditions.     

Accurate prediction of norbornadiene cycle enthalpies by DLPNO-CCSD(T1)/CBS method

The DLPNO-CCSD(T₁)/CBS method combined with simple reactions containing small reference species leads to an improvement in the accuracy of theoretically evaluated enthalpies of formation of medium-sized polyalicyclic hydrocarbons when compared with the widely used composite approach. The efficiency of the DLPNO-CCSD(T₁)/CBS method is most vividly demonstrated by comparing with the results of G4 calculations for adamantane. The most important factor in choosing appropriate working reaction is the same number of species on both sides of the equation. Among these reactions, the reactions with small enthalpy change usually provide a better cancellation of errors. The DLPNO-CCSD(T₁)/CBS method was used to calculate the enthalpies of formation of compounds belonging to the norbornadiene cycle (norbornadiene, quadricyclane, norbornene, nortricyclane, and norbornane). The most reliable experimental enthalpies of formation are recommended for these compounds by comparing calculated values with conflicting experimental data.     

Electrovectorial Effects of Electrically Polarized Hydroxyapatite on Biological Phenomena

Electrically polarized hydroxyapatite ceramics have chemical, physical, and biological effects upon their surrounding constituents in vivo as well as in vitro as electrets, independent solids irradiating electrostatic force. Using the polarized hydroxyapatite, we have observed that crystal growth from a simulated body fluid can be accelerated or decelerated, and microorganisms can be manipulated on the surfaces of hydroxyapatite, depending upon the electric signs.     

Accurate double many‐body expansion potential energy surface by extrapolation to the complete basis set limit and dynamics calculations for ground state of NH2

An accurate single‐sheeted double many‐body expansion potential energy surface is reported for the title system. A switching function formalism has been used to warrant the correct behavior at the and dissociation channels involving nitrogen in the ground and first excited states. The topographical features of the novel global potential energy surface are examined in detail, and found to be in good agreement with those calculated directly from the raw ab initio energies, as well as previous calculations available in the literature. The novel surface can be using to treat well the Renner–Teller degeneracy of the and states of . Such a work can both be recommended for dynamics studies of the reaction and as building blocks for constructing the double many‐body expansion potential energy surface of larger nitrogen/hydrogen‐containing systems. In turn, a test theoretical study of the reaction has been carried out with the method of quantum wave packet on the new potential energy surface. Reaction probabilities, integral cross sections, and differential cross sections have been calculated. Threshold exists because of the energy barrier (68.5 meV) along the minimum energy path. On the curve of reaction probability for total angular momentum J = 0, there are two sharp peaks just above threshold. The value of integral cross section increases quickly from zero to maximum with the increase of collision energy, and then stays stable with small oscillations. The differential cross section result shows that the reaction is a typical forward and backward scatter in agreement with experimental measurement result. © 2013 Wiley Periodicals, Inc.