Origin and Prediction of Highly Specific Bond Cleavage Sites in the Thermal Activation of Intact Protein Ions

Predicting the fragmentation patterns of proteins would be beneficial for the reliable identification of intact proteins by mass spectrometry. However, the ability to accurately make such predictions remains elusive. An approach to predict the specific cleavage sites in whole proteins resulting from collision-induced dissociation by use of an improved electrostatic model for calculating the proton configurations of highly-charged protein ions is reported. Using ubiquitin, cytochrome c, lysozyme and β-lactoglobulin as prototypical proteins, this approach can be used to predict the fragmentation patterns of intact proteins. For sufficiently highly charged proteins, specific cleavages occur near the first low-basicity amino acid residues that are protonated with increasing charge state. Hybrid QM/QM′ (QM=quantum mechanics) and molecular dynamics (MD) simulations and energy-resolved collision-induced dissociation measurements indicated that the barrier to the specific dissociation of the protonated amide backbone bond is significantly lower than competitive charge remote fragmentation. Unlike highly charged peptides, the protons at low-basicity sites in highly charged protein ions can be confined to a limited sequence of low-basicity amino acid residues by electrostatic repulsion, which results in highly specific fragmentation near the site of protonation. This research suggests that the optimal charge states to form specific sequence ions of intact proteins in higher abundances than the use of less specific ion dissociation methods can be predicted a priori.     

The Active Sites of a Rod‐Shaped Hollandite DeNOx Catalyst

The identification of catalytically active sites (CASs) in heterogeneous catalysis is of vital importance to design and develop improved catalysts, but remains a great challenge. The CASs have been identified in the low‐temperature selective catalytic reduction of nitrogen oxides by ammonia (SCR) over a hollandite manganese oxide (HMO) catalyst with a rod‐shaped morphology and one‐dimensional tunnels. Electron microscopy and synchrotron X‐ray diffraction determine the surface and crystal structures of the one‐dimensional HMO rods closed by {100} side facets and {001} top facets. A combination of X‐ray absorption spectra, molecular probes with potassium and nitric oxide, and catalytic tests reveals that the CASs are located on the {100} side facets of the HMO rods rather than on the top facets or in the tunnels, and hence semi‐tunnel structural motifs on the {100} facets are evidenced to be the CASs of the SCR reaction. This work paves the way to further investigate the intrinsic mechanisms of SCR reactions.     

Prediction of 195Pt NMR chemical shifts of dissolution products of H2[Pt(OH)6] in nitric acid solutions by DFT methods: how important are the counter‐ion effects?

¹⁹⁵Pt NMR chemical shifts of octahedral Pt(IV) complexes with general formula [Pt(NO₃)_n(OH)_{6 ? n}]^2?, [Pt(NO₃)_n(OH₂)_{6 ? n}]^{4 ? n} (n = 1–6), and [Pt(NO₃)_{6 ? n ? m}(OH)_m(OH₂)_n]^{?2 + n ? m} formed by dissolution of platinic acid, H₂[Pt(OH)₆], in aqueous nitric acid solutions are calculated employing density functional theory methods. Particularly, the gauge‐including atomic orbitals (GIAO)‐PBE0/segmented all‐electron relativistically contracted–zeroth‐order regular approximation (SARC–ZORA)(Pt) ∪ 6–31G(d,p)(E)/Polarizable Continuum Model computational protocol performs the best. Excellent second‐order polynomial plots of δ_calcd(¹⁹⁵Pt) versus δ_exptl(¹⁹⁵Pt) chemical shifts and δ_calcd(¹⁹⁵Pt) versus the natural atomic charge Q_Pt are obtained. Despite of neglecting relativistic and spin orbit effects the good agreement of the calculated δ ¹⁹⁵Pt chemical shifts with experimental values is probably because of the fact that the contribution of relativistic and spin orbit effects to computed σ^{iso 195}Pt magnetic shielding of Pt(IV) coordination compounds is effectively cancelled in the computed δ ¹⁹⁵Pt chemical shifts, because the relativistic corrections are expected to be similar in the complexes and the proper reference standard used. To probe the counter‐ion effects on the ¹⁹⁵Pt NMR chemical shifts of the anionic [Pt(NO₃)_n(OH)_{6 ? n}]^2? and cationic [Pt(NO₃)_n(OH₂)_{6 ? n}]^{4 ? n} (n = 0–3) complexes we calculated the ¹⁹⁵Pt NMR chemical shifts of the neutral (PyH)₂[Pt(NO₃)_n(OH)_{6 ? n}] (n = 1–6; PyH = pyridinium cation, C₅H₅NH⁺) and [Pt(NO₃)_n(H₂O)_{6 ? n}](NO₃)_{4 ? n} (n = 0–3) complexes. Counter‐anion effects are very important for the accurate prediction of the ¹⁹⁵Pt NMR chemical shifts of the cationic [Pt(NO₃)_n(OH₂)_{6 ? n}]^{4 ? n} complexes, while counter‐cation effects are less important for the anionic [Pt(NO₃)_n(OH)_{6 ? n}]^2? complexes. The simple computational protocol is easily implemented even by synthetic chemists in platinum coordination chemistry that dispose limited software availability, or locally existing routines and knowhow. Copyright © 2016 John Wiley & Sons, Ltd.     

Assembly of ϵ-Keggin Polyoxometalate from Molecular Crystal to Zeolitic Octahedral Metal Oxide

Zeolitic octahedral metal oxides are inorganic crystalline microporous materials with adsorption and redox properties. New ϵ-Keggin nickel molybdate–based zeolitic octahedral metal oxides have been synthesized. ³¹P NMR spectroscopy shows that reduction of Mo^VI-based molybdates forms an ϵ-Keggin polyoxometalate that immediately transfers to the solid phase. Investigation of the formation process indicates that a low Ni concentration, insoluble reducing agent, and long synthesis time are the critical factors for obtaining the zeolite octahedral metal oxides rather than the ϵ-Keggin polyoxometalate molecule. The synthesized zeolitic nickel molybdate with Na⁺ is used as the adsorbent, which effectively separates C₂ hydrocarbon mixtures.     

基于八面体理论的岩石循环加-卸载本构模型及修正

探究岩石的受力特点及破坏特性是研究岩石地下工程安全性的关键,诸多学者都期望能在岩石本构模型的研究上取得突破性进展。在此背景下,提出了一种能够描述循环加-卸载条件下岩石的本构模型。首先,假设岩石的微元强度服从八面体剪应力理论并且微元破坏服从Weibull概率公式,将岩石本构中的损伤变量以及岩石微元强度表达式里包含的损伤因子进行本构变换,得到关于应力、应变等其他表现加-卸载下岩石损伤本构模型的参数,表示出岩石微元强度和损伤变量,再将得到的岩石微元强度和损伤变量代入所提出的岩石本构模型中,并进行等式变换得到一个函数表达式。通过将其与实验数据进行拟合对比分析,得出修正后的拟合参数,将其代入函数式中,得到损伤本构模型的修正式。最后将拟合参数进行必要的敏感性分析,得出各拟合参数的实际物理意义。     

Optimization of Active Sites via Crystal Phase,Composition, and Morphology for Efficient Low-Iridium Oxygen Evolution Catalysts

Reducing the amount of iridium in oxygen evolution electrocatalysts without compromising their catalytic performances is one of the major requirements in proton-exchange-membrane water electrolyzers. Herein, with the help of theoretical studies, we show that anatase-type TiO₂-IrO₂ solid solutions possess more active iridium catalytic sites for the oxygen evolution reaction (OER) than IrO₂, the benchmark OER catalyst. Note that the same is not observed for their rutile-type counterparts. However, owing to their thermodynamic metastability, anatase-type TiO₂-IrO₂ solid solutions are generally hard to synthesize. Our theoretical studies demonstrate that such catalytically active anatase-type solid-solution phases can be created in situ on the surfaces of readily available SrTiO₃-SrIrO₃ solid solutions during electrocatalysis in acidic solution as the solution can etch away Sr atoms. We experimentally show this with porous SrTiO₃-SrIrO₃ solid-solution nanotubes synthesized by a facile synthetic route that contain 56 % less iridium than IrO₂ yet show an order of magnitude higher apparent catalytic activity for OER in acidic solution.     

Electrochemically Assisted Cycloaddition of Carbon Dioxide to Styrene Oxide on Copper/Carbon Hybrid Electrodes: Active Species and Reaction Mechanism

A novel electrochemically assisted cycloaddition process is proposed, in which highly efficient coupling of CO₂ with styrene oxide (SO) can be achieved to form styrene carbonate (SC) as a high-value-added product. A series of Cu catalysts with different morphologies and chemical states were fabricated on carbon paper (CP) by using in-situ electrodeposition, and the sample with nano-dendrimer structure was found to exhibit a relatively high activity of 74.8 % SC yield with 92.7 % SO conversion under gentle reaction conditions, thus showing its potential for practical applications. The relatively high electrochemically active surface area and charge transfer ability of dendrimer-like Cu benefited the electrochemical reaction. In particular, the Cu²⁺ species that were formed in situ during the reaction played a vital role in enhancing the activity and selectivity of the proposed Cu/CP hybrid catalyst. Cu²⁺ atoms served as active sites that can not only electrochemically activate CO₂ but also facilitate the ring opening of SO. Mechanistic analysis suggested that the reaction followed electrochemical and liquid-phase heterogeneous paths, which provide a new green and sustainable route for efficient utilization of CO₂ resources for fine chemical electrosynthesis.     

Synergistic Nitrogen Binding Sites in a Metal-Organic Framework for Efficient N2/O2 Separation

Porous materials with d₃ electronic configuration open metal sites have been proved to be effective adsorbents for N₂ capture and N₂/O₂ separation. However, the reported materials remain challenging to address the trade-off between adsorption capacity and selectivity. Herein, we report a robust MOF, MIL-102Cr, that features two binding sites, can synergistically afford strong interactions for N₂ capture. The synergistic adsorption site exhibits a benchmark Q_st of 45.0 kJ mol⁻¹ for N₂ among the Cr-based MOFs, a record-high volumetric N₂ uptake (31.38 cm³ cm⁻³), and highest N₂/O₂ selectivity (13.11) at 298 K and 1.0 bar. Breakthrough experiments reveal that MIL-102Cr can efficiently capture N₂ from a 79/21 N₂/O₂ mixture, providing a record 99.99 % pure O₂ productivity of 0.75 mmol g⁻¹. In situ infrared spectroscopy and computational modelling studies revealed that a synergistic adsorption effect by open Cr(III) and fluorine sites was accountable for the strong interactions between the MOF and N₂.     

Bromine Adsorption and Thermal Stability on Rh(111): A Combined XPS,LEED and DFT Study

This study addresses a fundamental question in surface science: the adsorption of halogens on metal surfaces. Using synchrotron radiation-based high-resolution X-ray photoelectron spectroscopy (XPS), temperature-programmed XPS, low-energy electron diffraction (LEED) and density functional theory (DFT) calculations, we investigated the adsorption and thermal stability of bromine on Rh(111) in detail. The adsorption of elemental bromine on Rh(111) at 170 K was followed in situ by XPS in the Br 3d region, revealing two individual, coverage-dependent species, which we assign to fcc hollow- and bridge-bound atomic bromine. In addition, we find a significant shift in binding energy upon increasing coverage due to adsorbate-adsorbate interactions. Subsequent heating shows a high thermal stability of bromine on Rh(111) up to above 1000 K, indicating strong covalent bonding. To complement the XPS data, LEED was used to study the long-range order of bromine on Rh(111): we observe a (√3×√3)R30° structure for low coverages (≤0.33 ML) and a star-shaped compression structure for higher coverages (0.33–0.43 ML). Combining LEED and DFT calculations, we were able to visualize bromine adsorption on Rh(111) in real space for varying coverages.     

EPR‐Based Approach for the Localization of Paramagnetic Metal Ions in Biomolecules

Metal ions play an important role in the catalysis and folding of proteins and oligonucleotides. Their localization within the three‐dimensional fold of such biomolecules is therefore an important goal in understanding structure–function relationships. A trilateration approach for the localization of metal ions by means of long‐range distance measurements based on electron paramagnetic resonance (EPR) is introduced. The approach is tested on the Cu²⁺ center of azurin, and factors affecting the precision of the method are discussed.