Quantum mechanical study of the potential energy surface of the ClO + NO2 reaction

In the study of the reaction pathways of the ClO + NO2 reaction including reliable structures of the reactants, products, intermediates, and transition states as well as energies the MP2/6-311G(d), B3LYP/6-311G(d), and G2(MP2) methods have been employed. Chlorine nitrate, ClONO2, is formed by N-O association without an entrance barrier and is stabilized by 29.8 kcal mol(-1). It can undergo either a direct 1,3 migration of Cl or OCl rotation to yield an indistinguishable isomer. The corresponding barriers are 45.8 and 7.1 kcal mol(-1), respectively. ClONO2 can further decompose into NO3 + Cl with an endothermicity of 46.4 kcal mol(-1). The overall endothermicity of the NO2 + ClO --> NO3 + Cl reaction is calculated to be 16.6 kcal mol(-1). The formation of cis-perp and trans-perp conformer of chlorine preoxynitrite, ClOONO(cp) and ClOONO(tp), are exothermic by 5.4 and 3.8 kcal mol(-1), respectively. Calculations on the possible reaction pathways for the isomerization of ClOONO to ClONO2 showed that the activation barriers are too high to account for appreciable nitrate formation from peroxynitrite isomerization. All quoted relative energies are related to G2(MP2) calculations.     

Ferrocene Compounds. XXXI. Structure of 3-Ferrocenylpropanoic Acid

The title compound was prepared by modified procedure and characterized by means of IR, [¹H] and [¹³C] NMR spectroscopy. The structure was also determined by a single-crystal X-ray diffraction (XRD). 3-Ferrocenylpropanoic acid crystallizes as orange prisms in the triclinic space group P with a = 7.645(1) Å, b = 7.953(1) Å, c = 9.961(1) Å, = 81.67(1), = 68.43(1), = 83.76(1), V = 556.3(1) ų, Z = 2, R = 0.0435. In the ferrocene skeleton, Fe-C distances are in the range 2.033(2)–2.052(2) Å and C C distances in the range 1.412(5)–1.431(3) Å. The angle defined by ring centers and Fe atom is 177.7(1). The cyclopentadienyl rings are twisted from the eclipsed conformation by 8.3(2) (average value). In the structure was observed strong intermolecular hydrogen bond of 2.670(3) Å forming cyclic dimers of the R₂ ² (8) type.     

N‐(4‐Methyl­phenyl)‐N‐(5‐nitro­furfuryl)‐N‐prop‐2‐ynyl­amine

The title compound, C₁₅H₁₄N₂O₃, is the first example of a structurally determined tertiary amine with both N‐5‐nitro­furfuryl and N‐prop‐2‐ynyl moieties. The mol­ecule is not planar, i.e. the furan ring is inclined at an angle of 84.35 (4)° to the phenyl ring. The crystal structure is dominated by van der Waals forces. The terminal alkynyl group as the strongest C—H hydrogen‐bond donor is not involved in hydrogen‐bond formation.     

Ag60纳米颗粒[{Cl@Ag12}@Ag48(dppm)12]的结构(其中dppm=双(二苯基膦基)甲烷

本文合成一种新的双膦连接Ag₆₀纳米团簇[{Cl@Ag₁₂}@Ag₄₈(dppm)₁₂],并通过X射线晶体学进行表征. 二十面体的银处于核心位置,里面是中心氯化物组成,外面有48 个银原子/离子的包裹,顶端是12个双(二苯基膦基)甲烷(dppm)配体. 同时利用密度泛函理论对阳离子[{Cl@Ag₁₂}@Ag₄₈(dppm)₁₂]⁺进行计算,以确定该结构是否对应于核心数n=58的超原子. DFT计算的优化结构与X射线一致,但是HOMO-LUMO的能差并不能保证其超级稳定性.     

The large scale conformational change of the human DPP III-substrate prefers the "closed" form

Human dipeptidyl peptidase III (DPP III) is a two domain metallo-peptidase from the M49 family. The wide interdomain cleft and broad substrate specificity suggest that this enzyme could experience significant conformational change. Long (>100 ns) molecular dynamics (MD) simulations of DPP III revealed large range conformational changes of the protein, suggesting the pre-existing equilibrium model for a substrate binding. The binding free energy calculations revealed tighter binding of the preferred synthetic substrate Arg-Arg-2-naphtylamide to the "closed" than to the "open" DPP III conformation. Our assumption that Asp372 plays a crucial role in the large scale interdomain closure was proved by the MD simulations of the Asp372Ala variant. During the same simulation time, the variant remained more "open" than the wild type protein. Apparently, Ala was not as efficient as Asp in establishing the interdomain interactions. According to the MM-PBSA calculations, the electrostatic component of the free energy of solvation turned out to be higher for the "closed" protein than for its less compact form. However, the gain in entropy due to water released from the interdomain cleft nicely balanced this negative effect.     

New epoxyisoindolines by intramolecular diels-alder reactions of some methyl-substituted allylaryl-2-furfurylamines

N-Alkenyl-N-(5-substituted-2-furfuryl)-N-p-toluidines 1–10 have been selected to study the intramolecular Diels-Alder reaction of furans. New epoxyisoindolines 11–20 were prepared and fully characterised.     

Atmospheric reaction of the HOSO radical with NO2: a theoretical study

The gas-phase reaction between HOSO and NO(2) was examined using density functional theory. Geometry optimizations and frequency computations were performed at the B3LYP/6-311++G(2df,2pd) level of theory for all minimum species and transition states. The ground-state potential energy surface, including activation energies and enthalpies, were calculated using the ab initio CBS-QB3 composite method. The results suggest that the addition of HOSO and NO(2) leads to two possible intermediates, HOS(O)NO(2) and HOS(O)ONO, without any energy barrier. The HOS(O)NO(2) easily decomposes into HONO + SO(2) through the low energy product complex HONO···SO(2), whereas the HOS(O)ONO dissociates to HOSO(2) + NO products. This latter dissociation is preferred from the isomerization of the HOS(O)ONO to HOS(NO)O(2). Also, HOS(O)NO(2) isomerization to HOS(O)ONO is hindered due to the presence of a large energy barrier. From the thermodynamic aspect, the main products in the title reaction are HONO + SO(2), whereas HOSO(2) + NO are expected as a minor products.     

Electronic spectrum and photodissociation of ClONO in comparison to BrONO

A theoretical study of the low-lying singlet and triplet states of ClONO is presented. Calculations of excitation energies and oscillator strengths are reported using multireference configuration interaction, MRD-CI, methods with the cc-pVDZ + sp basis set. The calculations predict the dominant transition, 4(1)A' <-- 1(1)A', at 5.70 eV. The transition 2(1)A' <-- 1(1)A', at 4.44 eV, with much lower intensity nicely matches the experimental absorption maximum observed around 290 nm (4.27 eV). The potential energy curves for both states are found to be highly repulsive along the Cl-O coordinate implying that direct and fast dissociation to the Cl + NO2 products will occur. Photodissociation along the N-O coordinate is less likely because of barriers on the order of 0.3 eV for low-lying excited states. A comparison between the calculated electronic energies related to the two dominant excited states of ClONO and BrONO indicates that the transitions lie about 0.6 eV higher if bromine is replaced by chlorine. The stratospheric chemistry implications of ClONO and BrONO are discussed.     

Quantum mechanical investigation of the atmospheric reaction CH3O2 + NO

The important stationary points on the potential energy surface of the reaction CH(3)O(2) + NO have been investigated using ab initio and density functional theory techniques. The optimizations were carried out at the B3LYP/6-311++G(d,p) and MP2/6-311++G(d,p) levels of theory while the energetics have been refined using the G2MP2, G3//B3LYP, and CCSD(T) methodologies. The calculations allow the proper characterization of the transition state barriers that determine the fate of the nascent association conformeric minima of methyl peroxynitrite. The main products, CH(3)O + NO(2), are formed through either rearrangement of the trans-conformer to methyl nitrate and its subsequent dissociation or via the breaking of the peroxy bond of the cis-conformer to CH(3)O + NO(2) radical pair. The important consequences of the proposed mechanism are (a) the allowance on energetic grounds for nitrate formation parallel to radical propagation under favorable external conditions and (b) the confirmation of the conformational preference of the homolytic cleavage of the peroxy bond, discussed in previous literature.