Towards a rational design of ruthenium CO2 hydrogenation catalysts by Ab initio metadynamics

Complete reaction pathways relevant to CO2 hydrogenation by using a homogeneous ruthenium dihydride catalyst ([Ru(dmpe)2H2], dmpe=Me2PCH2CH2PMe2) have been investigated by ab initio metadynamics. This approach has allowed reaction intermediates to be identified and free-energy profiles to be calculated, which provide new insights into the experimentally observed reaction pathway. Our simulations indicate that CO2 insertion, which leads to the formation of formate complexes, proceeds by a concerted insertion mechanism. It is a rapid and direct process with a relatively low activation barrier, which is in agreement with experimental observations. Subsequent H2 insertion into the formate--Ru complex, which leads to the formation of formic acid, instead occurs via an intermediate [Ru(eta2-H2)] complex in which the molecular hydrogen coordinates to the ruthenium center and interacts weakly with the formate group. This step has been identified as the rate-limiting step. The reaction completes by hydrogen transfer from the [Ru(eta2-H2)] complex to the formate oxygen atom, which forms a dihydrogen-bonded Ru--HHO(CHO) complex. The activation energy for the H2 insertion step is lower for the trans isomer than for the cis isomer. A simple measure of the catalytic activity was proposed based on the structure of the transition state of the identified rate-limiting step. From this measure, the relationship between catalysts with different ligands and their experimental catalytic activities can be explained.     

Ab initio molecular dynamics study of formate ion hydration

We perform ab initio molecular dynamics simulations of the aqueous formate ion. The mean number of water molecules in the first solvation shell, or the hydration number, of each formate oxygen is found to be consistent with recent experiments. Our ab initio pair correlation functions, however, differ significantly from many classical force field results and hybrid quantum mechanics/molecular mechanics predictions. They yield roughly one less hydrogen bond between each formate oxygen and water than force field or hybrid methods predict. Both the BLYP and PW91 exchange correlation functionals give qualitatively similar results. The time dependence of the hydration numbers are examined, and Wannier function techniques are used to analyze electronic configurations along the molecular dynamics trajectory.     

Asymmetric transfer hydrogenation of prochiral ketones in aqueous media with new water-soluble chiral vicinal diamine as ligand

[reaction: see text] An easily accessible water-soluble chiral o-sulfonated 1,2-diphenylethlenediamine 2 and its mono-N-tosylated derivative 3 were synthesized for the first time. The ruthenium-complex-catalyzed reduction of prochiral ketones in aqueous media has been examined by using 3 as ligand and sodium formate as the source of hydrogen. The asymmetric transfer hydrogenation of omega-bromo acetophenones was achieved, in which only formate displacement occurred when formic acid/triethylamine azeotrope was used as the hydrogen donor.     

Why is formate synthesis insensitive to copper surface structures?

Experiments have revealed that formate synthesis from carbon dioxide and hydrogen is structure insensitive to copper catalyst surfaces, while the reverse formate decomposition reaction is structure sensitive. The present ab initio density functional theory (DFT) calculations show that the reaction of CO2 with surface atomic hydrogen initially leads to the formation of unstable monodentate formate, which has similar adsorption energies on Cu(111), Cu(100), and Cu(110). The structure of the transition state is similar to that of monodentate formate. It is also shown that gaseous CO2 is directly reacted with surface hydrogen, as suggested by previous experiments. The position of the similar transition state and the direct reaction mechanism well explain the similar energetic pathways, that is, the structure insensitivity.     

Improvement of Hydrogen Productivity by Introduction of NADH Regeneration Pathway in Clostridium paraputrificum

To improve the hydrogen productivity and examine the hydrogen evolution mechanism of Clostridium paraputrificum, roles of formate in hydrogen evolution and effects of introducing formate-originated NADH regeneration were explored. The formate-decomposing pathway for hydrogen production was verified to exist in C. paraputrificum. Then NAD⁺-dependent formate dehydrogenase FDH1 gene (fdh1) from Candida boidinii was overexpressed, which regenerate more NADH from formate to form hydrogen by NADH-mediated pathway. With fdh1 overexpression, the hydrogen yield via NADH-involving pathway increased by at least 59?% compared with the control. Accompanied by the change of hydrogen metabolism, the whole cellular metabolism was redistributed greatly.     

Mechanism of Pd(NHC)-catalyzed transfer hydrogenation of alkynes

The transfer semihydrogenation of alkynes to (Z)-alkenes shows excellent chemo- and stereoselectivity when using a zerovalent palladium(NHC)(maleic anhydride)-complex as precatalyst and triethylammonium formate as hydrogen donor. Studies on the kinetics under reaction conditions showed a broken positive order in substrate and first order in catalyst and hydrogen donor. Deuterium-labeling studies on the hydrogen donor showed that both hydrogens of formic acid display a primary kinetic isotope effect, indicating that proton and hydride transfers are separate rate-determining steps. By monitoring the reaction with NMR, we observed the presence of a coordinated formate anion and found that part of the maleic anhydride remains coordinated during the reaction. From these observations, we propose a mechanism in which hydrogen transfer from coordinated formate anion to zerovalent palladium(NHC)(MA)(alkyne)-complex is followed by migratory insertion of hydride, after which the product alkene is liberated by proton transfer from the triethylammonium cation. The explanation for the high selectivity observed lies in the competition between strongly coordinating solvent and alkyne for a Pd(alkene)-intermediate.     

Biochemical reaction engineering for redox reactions

Redox reactions are still a challenge for biochemical engineers. A personal view for the development of this field is given. Cofactor regeneration was an obstacle for quite some time. The first technical breakthrough was achieved with the system formate/formate dehydrogenase for the regeneration of NADH2. In cases where the same enzyme could be used for chiral reduction as well as for cofactor regeneration, isopropanol as a hydrogen source proved to be beneficial. The coproduct (acetone) can be removed by pervaporation. Whole-cell reductions (often yeast reductions) can also be used. By proper biochemical reaction engineering, it is possible to apply these systems in a continuous way. By cloning a formate dehydrogenase and an oxidoreductase "designer bug" can be obtained where formate is used instead of glucose as the hydrogen source. Complex sequences of redox reactions can be established by pathway engineering with a focus on gene overexpression or with a focus on establishing non-natural pathways. The success of pathway engineering can be controlled by measuring cytosolic metabolite concentrations. The optimal exploitation of such systems calls for the integrated cooperation of classical and molecular biochemical engineering.     

Mechanism of methanol conversion on ZrO<Subscript>2</Subscript> and 5% Cu/ZrO<Subscript>2</Subscript> according to in situ IR spectroscopic data

It is demonstrated by in situ IR spectroscopy that, in methanol conversion on ZrO₂ and 5% Cu/ZrO₂ catalysts, methoxy groups are present on the catalyst surface, which result from O-H or C-O bond breaking in the methanol molecule. Two types of formate complexes, localized on ZrO₂ and CuO, are also observed. The formate complexes form via the oxidative conversion of the methoxy groups. There are two types of linear methoxy groups. First-type linear methoxy groups condense with the formate complex located on CuO to yield methyl formate and then CO and H₂. Second-type methoxy groups appear as intermediate products in the formation of dimethyl ether. The main hydrogen formation reactions are the recombination of hydrogen atoms (which result from the interconversion of surface complexes) on copper clusters and the decomposition of methyl formate. The source of CO₂ in the gas phase is the formate complex, and the source of CO is methyl formate. The effect of water vapor and oxygen the surface reactions and product formation is discussed.     

Ab initio study on the structures of fluorinated formates and hydrogen abstraction reaction with OH radical

The conformational potential energy surfaces for mono- and difluoromethyl formate have been determined by using a modified G2(MP2) level of calculations. The structures and vibrational frequencies for the conformers of mono- and difluoromethyl formate have been reported. The hydrogen abstraction reaction channels between these two formates and OH radicals have been studied at the same level of theory. Using the standard transition state theory and taking into account the effect of tunneling across the reaction barrier, we have estimated the rate constant for hydrogen abstraction by OH radical. The effect of successive fluorine substitution for methyl hydrogen on the conformational stability and on the hydrogen abstraction rate has been analyzed.     

Radical reactions of epoxy esters induced by titanocene chloride

The reductive radical cyclizations of several epoxy esters have been achieved using titanocene chloride. The tether length from the initial radical to the carbonyl acceptor is the key of the reactions. We obtained products from radical cyclization onto carbonyl formate and products from formate and hydrogen elimination. The stereochemical outcome of the 5-exo radical cyclization of two diastereomers is reported. A radical cascade cyclization of an unsaturated epoxy formate is also described.     

A New Type of Photocatalysis Initiated by Photoexcitation of Adsorbed Carbon Dioxide on ZrO2

ZrO₂ has been found to be an effective photocatalyst for reduction of CO₂ by hydrogen or methane at room temperature. The effective photon energy is less than the band gap energy of ZrO₂ (5.0 eV), indicating that photoexcitation of bulk ZrO₂ is not involved. The reaction is initiated by photoexcitation of surface carbonates derived from adsorption of CO₂ to convert it to a CO₂ ^– radical, which in turn reacts with hydrogen or methane to form surface formate. The formate is stable at temperatures below 573 K, but works as a reductant of CO₂ under photoirradiation. A new type of reaction mechanism is proposed.     

A new high pressure phase of sodium formate dihydrate; an experimental and computational study

As part of an on-going programme to study the high pressure structural behaviour of hydrated small molecular systems, sodium formate dihydrate has been studied using high pressure single crystal X-ray and neutron powder diffraction methods. A new phase was initially identified at 17 kbar by X-ray diffraction and high level quantum mechanical calculations completed the structure, allowing definitive hydrogen atom positioning. The resulting structure compared favourably with that found subsequently by high pressure neutron diffraction. The neutron diffraction study also revealed that the deuterated form, NaDCO(2).2D(2)O, is stable in a different structural form to that of the non-deuterated material at ambient pressure. The structure of this phase is related to that of the high pressure phase via a simple translation of the molecular layers.     

Computational mechanistic study of the hydrogenation of carbonate to methanol catalyzed by the Ru(II)PNN complex

Density functional theory computations have been carried out to study the mechanism of hydrogenation-based transformation of dimethyl carbonate to methanol, catalyzed by Ru(II)PNN catalyst. The energetic results show that the catalytic transformation includes three sequential stages consistently involving the catalyst: (stage I) transformation of dimethyl carbonate (3) to methyl formate (5) and methanol; (stage II) transformation of methyl formate 5 to formaldehyde and methanol; (stage III) hydrogenation of formaldehyde to methanol. Stages I and II proceed similarly and follow three steps: hydrogen activation, formation of a hemiacetal intermediate via stepwise hydrogen transfer to dimethyl carbonate in stage I or methyl fomate in stage II, and subsequent decomposition of the hemiacetal intermediate to afford methanol. Hydrogenation via carbonyl insertion into the Ru-H bond is less favorable than the stepwise hydrogen-transfer mechanism. Decomposition of hemiacetal takes places by first breaking the hemiacetal O-H bond to give an alkoxide complex, followed by deprotonation of the benzylic arm ligand to the adjacent methoxy group. Comparing the hydrogenation steps in the three stages, hydrogenation in stage I is most difficult, that in stage II is less difficult, and that in stage III is easiest in terms of both kinetics and thermodynamics. This can be ascribed to the stronger electrophilicity of the carbonyl group in methyl formate or formaldehyde than that in dimethyl carbonate and fewer steric effects between the catalyst and methyl formate or formaldehyde than that between the catalyst and dimethyl carbonate. Thermodynamically, both stages I and II are uphill, but stage III is downhill significantly, which is the driving force for the catalytic transformation. The study indicates that the methanol product could facilitate the hydrogen activation involved in the transformation, implying that transformation could be accelerated by initially adding methanol.     

A pseudo‐quadruple hydrogen‐bonding motif consisting of six N—H⋯O hydrogen bonds in trimethoprim formate

The title compound, trimethoprim (TMP) formate [systematic name: 2,4‐di­amino‐5‐(3,4,5‐tri­methoxy­benzyl)­pyrimidin‐1‐ium formate], C₁₄H₁₉N₄O₃⁺·CHO₂^?, reveals a pseudo‐quadruple hydrogen‐bonding motif consisting of six N—H?O hydrogen bonds involving two unpaired TMP cations and two formate anions which are symmetrically disposed. The hydrogen‐bonding motif is strikingly comparable with that observed in other TMP salts where the amino­pyrimidine moieties of the TMP cations are centrosymmetrically paired. These conserved hydrogen‐bonding motifs may serve as robust synthons in crystal engineering and design. The characteristic pseudo‐quadruple hydrogen‐bonding motif and other intermolecular hydrogen bonds operating in the crystal form a two‐dimensional supramolecular sheet structure.     

1,6-六亚甲基二异氰酸酯自聚产物的结构表征

用IR与NMR表征了用醋酸钾为催化剂时 1,6 六亚甲基二异氰酸酯 (HDI)自聚产物的结构 .结果表明 ,自聚主产物是三聚体异氰脲酸酯 ,主要含有三聚体异氰脲基、异氰酸根 ,同时含有由杂质带来的微量氨基甲酸酯、脲基甲酸酯基、取代脲基、缩二脲基 .一维核磁谱及二维化学位移相关谱分辨出 7种羰基 ,一种NCO基 ,确定了氮上 8种不同取代结构的分子链连接情况 .通过建立理论模型 ,定量地描述了自聚产物的结构 .     

Kinetics of hydrogen abstraction reaction between trifluoromethyl formate and OH radical: A theoretical investigation

Kinetics and mechanism of the hydrogen abstraction reaction between trifluoromethyl formate, CF₃OCHO, and OH radical have been investigated by using ab initio molecular orbital theory up to G2(MP2) level. The hydrogen abstraction rate constant has been calculated for the first time over a temperature range of 250–450 K by using standard transition state theory including the tunneling correction. Arrhenius parameters of the reaction have been estimated from the temperature dependence of the calculated rate constant. The calculated value for the rate constant (2.0 × 10^?14 cm³ molecule^?1 s^?1) at 298 K is found to be in very good agreement with the recent experimental results. © 2002 Wiley Periodicals, Inc. Int J Chem Kinet 34: 500–507, 2002     

Selective and shape-selective Baeyer-Villiger oxidations of aromatic aldehydes and cyclic ketones with Sn-beta zeolites and H2O2

Sn-Beta is used as a heterogeneous catalyst for the Baeyer-Villiger reaction with hydrogen peroxide. Cyclic ketones are transformed into the corresponding lactones, while unsaturated ketones are oxidized to the corresponding unsaturated lactones with very high chemoselectivity. The catalyst is also selective for the oxidation of aromatic aldehydes with H2O2, producing the formate ester or the corresponding hydrolyzed product, that is the alcohol. Shape-selective oxidations are observed for isomeric reactants with different molecular shapes. The catalytic Sn sites have been characterized by 119Sn MAS-NMR spectroscopy, and tetrahedral incorporation into the zeolite framework has been demonstrated. In situ IR spectroscopy and 18O labeling experiments have shown that the oxidation mechanism involves an intermediate of the Criegee type.     

How To Produce Methane Precursor in the Upper Ocean by An Untypical Non-Heme Fe-Dependent Methylphosphonate Synthase?

A new methane formation pathway, which uses methylphosphonate (MPn) as the methane precursor, has been discovered in the upper ocean. Methylphosphonate synthase (MPnS) is a key piece in this pathway to produce MPn from 2-hydroxyethylphosphonate (2-HEP), using an untypical 2-His-1-Gln non-heme iron architecture. Herein, the MPnS reaction mechanism was demonstrated by the density functional calculations to mainly include the substrate hydroxyl deprotonation, the formation of a MPn radical and a formate, and the hydrogen abstraction of formate by MPn radical. The second-shell Lys28’ may serve as a proton reservoir activating 2-HEP and regenerating the Fe site. The Fe-bound superoxide radical is a bifunctional species to deprotonate the substrate hydroxyl and abstract the substrate methylene hydrogen. Several alternative mechanisms have been ruled out. Furthermore, the catalytic activity of MPnS was found to be inactivated/reduced by the mutation of Gln152E/Gln152H/Gln152D, rendering a significant evolutionary advantage with an uncommon 2-His-1-Gln triad introduced to the ferrous coordination sphere.     

HCOO在Cu(110)、Ag(110)和Au(110)表面的吸附

采用密度泛函理论(DFT)以及广义梯度近似方法(GGA)计算了甲酸根(HCOO)在Cu(110)、Ag(110)和Au(110)表面的吸附. 计算结果表明, 短桥位是最稳定的吸附位置, 计算的几何参数与以前的实验和计算结果吻合. 吸附热顺序为Cu(110)(-116 kJ·mol-1)>Ag(110)(-57 kJ·mol-1)>Au(110)(-27 kJ·mol-1), 与实验上甲酸根的分解温度相一致. 电子态密度分析表明, 吸附热顺序可以用吸附分子与金属d-带之间的Pauli 排斥来关联, 即排斥作用越大, 吸附越弱. 另外还从计算的吸附热数据以及实验上HCOO的分解温度估算了反应CO2+1/2H2→HCOO的活化能, 其大小顺序为Au(110)>Ag(110)>Cu(110).     

Photoreduction of carbon dioxide by hydrogen and methane

Zirconium oxide is active for photoreduction of gaseous carbon dioxide to carbon monoxide with hydrogen. A stable surface species arises under the photoreduction of CO₂ on zirconium oxide, and it is identified as surface formate by infrared spectroscopy. Adsorbed CO₂ is converted to formate by photoreaction with hydrogen. The surface formate is a true reaction intermediate since CO is formed by the photoreaction of formate and CO₂; surface formate works as a reductant of carbon dioxide to yield carbon monoxide. The dependence on the wavelength of irradiation light shows that a bulk ZrO₂ is not a photoactive species. When ZrO₂ adsorbs CO₂ a new band appears in photoluminescence excitation spectrum. The photoactive species in the reaction that CO₂+H₂ yields HCOO⁻ is presumably formed by the adsorption of CO₂ on ZrO₂ surface. Hydrogen molecules play a role to supply an atomic hydrogen. Therefore, methane molecules can also be used as a reductant of carbon dioxide.