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1.
    
The electron ionization mass spectra of four organic compounds are predicted based on the results of quantum chemical calculations at the DFT/B3LYP/6‐311 + G* level of theory. This prediction is performed ‘ab initio’, i.e. without any prior knowledge of the thermodynamics or kinetics of the reactions under consideration. Using a set of rules determining which routes will be followed, the fragmentation of the molecules' bonds and the complete resulting fragmentation pathways are studied. The most likely fragmentation pathways are identified based on calculated reaction energies ΔE when bond cleavage is considered and on activation energies ΔE? when rearrangements are taken into account; the final intensities of the peaks in the spectrum are estimated from these values. The main features observed in the experimental mass spectra are correctly predicted, as well as a number of minor peaks. In addition, the results of the calculations allow us to propose fragmentation pathways new to empirical mass spectrometry, which have been experimentally verified using tandem mass spectrometry measurements. Copyright © 2016 John Wiley & Sons, Ltd.  相似文献   

2.
    
Over the years, with the instrumental analysis evolution, the relationships between the carried‐out results with the data of theoretical analysis in silico and the Hammett's parameters have been reported. They have been very useful for chemical characterization of small organic molecules. Thus, this work aims at showing the feasibility and limitations for Hammett's and density functional theory applications in electrospray ionization–collision‐induced dissociation (ESI‐CID) fragmentation provision. For this, 13 dihydropyrimidinones para, meta, and orto monosubstituted were studied using ESI and CID in positive mode. As a result, it was observed that the main fragmentation includes the isocyanate and ethanol loses at low energy. Nevertheless, at higher energies, radical ions formed by McLafferty rearrangement were observed. The Hammett plots were correlated fragmentation profiles, showing good linearity for the [M + H]+, which does not occur to radical ions and carbocation's. These tendencies had demonstrated that the stability of protonate and activation energy of secondary ions changes with the pKa. The density functional theory studies indicated that, both nitrogen atoms in the dihydropyrimidinone's prototypes are capable of being protonated. However, the activation energy of fragmentation products is not changed. Therefore, this work has shown information, which can be useful to understand tandem mass spectrometry in ESI‐CID conditions for small organic molecules series. This is the first step for normalization of fragmentation pathway.  相似文献   

3.
    
Natural 2H‐chromenes were isolated from the crude extract of Piper aduncum (Piperaceae) and analyzed by electrospray ionization tandem mass spectrometry (ESI‐MS/MS) applying collision‐induced dissociation. Density functional theory (DFT) calculations were used to explain the preferred protonation sites of the 2H‐chromenes based on thermochemical parameters, including atomic charges, proton affinity, and gas‐phase basicity. After identifying the nucleophilic sites, the pathways were proposed to justify the formation of the diagnostic ions under ESI‐MS/MS conditions. The calculated relative energy for each pathway was in good agreement with the energy‐resolved plot obtained from ESI‐MS/MS data. Moreover, the 2H‐chromene underwent proton attachment on the prenyl moiety via a six‐membered transition state. This behavior resulted in the formation of a diagnostic ion due to 2‐methylpropene loss. These studies provide novel insights into gas‐phase dissociation for natural benzopyran compounds, indicating how reactivity is correlated to the intrinsic acid‐base equilibrium and structural aspects, including the substitution pattern on the aromatic moiety. Therefore, these results can be applied in the identification of benzopyran derivatives in a variety of biological samples.  相似文献   

4.
    
Various peptide modifications have been explored recently to facilitate the acquisition of sequence information. N-terminal sulfonation is an interesting modification because it allows unambiguous de novo sequencing of peptides, especially in conjunction with MALDI-PSD-TOF analysis; such modified peptide ions undergo fragmentation at energies lower than those required conventionally for unmodified peptide ions. In this study, we systematically investigated the fragmentation mechanisms of N-terminal sulfonated peptide ions prepared using two different N-terminal sulfonation reagents: 4-sulfophenyl isothiocyanate (SPITC) and 4-chlorosulfophenyl isocyanate (SPC). Collision-induced dissociation (CID) of the SPC-modified peptide ions produced a set of y-series ions that were more evenly distributed relative to those observed for the SPITC-modified peptides; y(n-1) ion peaks were consistently and significantly larger than the signals of the other y-ions. We experimentally investigated the differences between the dissociation energies of the SPITC- and SPC-modified peptide ions by comparing the MS/MS spectra of the complexes formed between the crown ether 18-crown-6 (CE) and the modified peptides. Upon CID, the complexes formed between 18-crown-6 ether and the protonated amino groups of C-terminal lysine residues underwent either peptide backbone fragmentation or complex dissociation. Although the crown ether complexes of the unmodified ([M + CE + 2H]2+) and SPC-modified ([M* + CE + 2H]2+) peptides underwent predominantly noncovalent complex dissociation upon CID, the low-energy dissociations of the crown ether complexes of the SPITC-modified peptides ([M' + CE + 2H]2+) unexpectedly resulted in peptide backbone fragmentations, along with a degree of complex dissociation. We performed quantum mechanical calculations to address the energetics of fragmentations observed for the modified peptides.  相似文献   

5.
    
Density functional methods at the 6-31G* level are applied to the rupture of n-octane into methyl–heptyl, ethyl–hexyl, propyl–pentyl, and butyl–butyl radical fragments. The energetics of the radicals at UMP3, UMP2/6-31G*//UHF/6-31G* (hereafter referred to as UMP), are compared to UB3LYP/6-31G* results (referred to as UB). Although the UMP approach matches additivity energies to within 5 kcal/mol, it fails to mimic the overall energetic trend. The UB energies agree with additivity estimates and trends to within 1–2 kcal/mol and radical entropies deviate by only 2 e.u. from available experimental data. © 1998 John Wiley & Sons, Inc. J Comput Chem 19: 154–167, 1998  相似文献   

6.
    
In this study, we use a very simple scheme to achieve range separation of a total exchange–correlation functional. We have utilized this methodology to combine a short‐range pure density functional theory (DFT) functional with a corresponding long‐range pure DFT, leading to a “Range‐separated eXchange–Correlation” (RXC) scheme. By examining the performance of a range of standard exchange–correlation functionals for prototypical short‐ and long‐range properties, we have chosen B‐LYP as the short‐range functional and PBE‐B95 as the long‐range counterpart. The results of our testing using a more diverse range of data sets show that, for properties that we deem to be short‐range in nature, the performance of this prescribed RXC‐DFT protocol does resemble that of B‐LYP in most cases, and vice versa. Thus, this RXC‐DFT protocol already provides meaningful numerical results. Furthermore, we envisage that the general RXC scheme can be easily implemented in computational chemistry software packages. This study paves a way for further refinement of such a range‐separation technique for the development of better performing DFT procedures. © 2015 Wiley Periodicals, Inc.  相似文献   

7.
Matrix-assisted laser desorption ionization (MALDI) time of flight mass spectrometry was used to identify shrimp at the species level using commercial mass spectral fingerprint matching software (Bruker Biotyper). In the first step, a mass spectrum reference database was constructed from the analysis of six commercially important shrimp species: Litopenaeus setiferus, Farfantepenaeus aztecus, Sicyonia brevirostris, Pleoticus robustus, Pandalopsis dispar and Pandalus platyceros. This step required a desalting procedure for optimum performance. In the second step, the reference database was tested using 74 unknown shrimp samples from these six species. Correct identification was achieved for 72 of 74 samples (97%): 72 samples were identified at the species level and 2 samples were identified at the genus level using the manufacturer's log score specifications. The MALDI fingerprinting method for the identification of shrimp species was found to be reproducible and accurate with rapid analysis.  相似文献   

8.
9.
Mechanistic details for the formation of methane from the title compound as well as the combined elimination of (CH3)2S/CH4 are derived from various mass‐spectrometric experiments including deuterium‐labeling studies and DFT calculations. For the first process, i.e., methane formation, we have identified three competing pathways in which the intact, Pt‐bonded methyl group combines with a H‐atom that originates from a phenyl substituent (ca. 7%), the dimethyl sulfide ligand (ca. 41%), and a methyl group of the diazabutadiene backbone (ca. 52%). In contrast, in the combined (CH3)2S/CH4 elimination, the methane is specifically formed from the Pt‐bound CH3 group and a H‐atom provided by one of the phenyl groups (‘cyclometalation’).  相似文献   

10.
A recent paper by Xiao‐Yin Pan and Viraht Sahni [Int. J. Quant. Chem. 110, 2833 (2010)] claims that current density functional theory should be based on the physical current density rather than the paramagnetic current density, as in the standard Vignale‐Rasolt formulation. In this comment we show that the claims in the paper by Pan and Sahni are erroneous. © 2012 Wiley Periodicals, Inc.  相似文献   

11.
    
The fragmentation pathways of pentacoordinated phenoxyspirophosphoranes were investigated in the positive mode by electrospray ionization multistage mass spectrometry. The results demonstrate that the sodium adducts of the title compounds undergo two competitive fragmentation pathways, and the fragmentation patterns are heavily dependent on the various substituent patterns at the phenolic group. An electron‐withdrawing substituent at the ortho‐position always results in the removal of a corresponding phenol analogue, while cleavage by spiroring opening becomes the predominant fragmentation pathway if an electron‐donating substituent is at the phenolic group. The substituent effects on the competitive fragmentation pathways were further elucidated by theoretical calculations, single crystal structure analysis, and high‐resolution mass spectrometry. The results contribute to the understanding of the gas‐phase fragmentation reactions and the structure identification of spirophosphorane analogues by electrospray ionization multistage mass spectrometry.  相似文献   

12.
Manganese oxide cluster cations Mnm180n+ were prepared by laser ablation and reacted with hydrogen sulfide (H2S) in a fast flow reactor under thermal collision conditions. A time-of-flight mass spectrometer was used to detect the cluster distributions before and after the interactions with H2S. The experiments suggest that oxygen-for-sulfur (O/S) ex- change reaction to release water took place in the reactor for most of the manganese oxide cluster cations: MnmlSOn++H2S→Mnm18On-1S++H218O. Density functional theory cal- culations were performed for reaction mechanisms of Mn202++H2S, Mn203++H2S, and Mn204++H2S. The computational results indicate these O/S exchange reactions are both thermodynamically and kinetically favorable, thus in good agreement with the experimental observations. The O/S exchange reactions identified in this gas-phase cluster study parallel similar behavior of related condensed phase reaction systems.  相似文献   

13.
采用密度泛函理论的B3LYP方法,在6-311++G(d,p)和DGDZVP基组水平上研究了CH3SCH3在Fe+作用下的脱烷基化的四重态和六重态微观反应机理,全参数优化了反应势能面上各驻点的几何构型,振动分析和内禀反应坐标(IRC)分析结果证实了中间体和过渡态的真实性.找到了三条可能的反应通道,对结果的分析表明:对于六重态的反应体系,二甲硫醚的脱甲烷化反应主要经历了四个基本步骤,即先驱复合物、C—S活化、(-H转移和非反应性的分裂.对于四重态的Fe+/CH3SCH3反应体系,含有C—S和C—H插入反应的两个路径都可以导致脱甲烷反应的发生,其中C—S插入反应路径的能垒较低,是主要反应通道.  相似文献   

14.
    
Star‐shaped rigid molecules that comprise a 1,3,5‐trisubstitued benzene core and three oligoaryleneethynylene arms have great potential application in organic light‐emitting devices (OLEDs). Their optical and electronic properties are tuned by the star‐shaped molecular size. To reveal the relationship between the properties and structures, we perform a systemic investigation for these organic molecules. The ground and excited state molecules are studied using density functional theory (DFT), the ab initio HF, and the single excitation configuration interaction (CIS), respectively. And the electronic absorption and emission spectra are investigated with time‐dependent density functional theory (TDDFT) and Zerner's intermediate neglect of differential overlap (ZINDO) methods. The results show that the HOMOs, LUMOs, energy gaps, ionization potentials (IP), electron affinities (EA), absorption and emission spectra are controlled by the star‐shaped molecular size, which favor the hole and electron injection into OLEDs. With increasing the molecular conjugated length, the absorption and emission spectra exhibit red shifts to some extent and are in good agreement with the experimental ones. Also, the calculated emission spectra range from 330 to 440 nm. All the calculated show that the star‐shaped molecules are promising as blue light emitting materials  相似文献   

15.
    
A theoretical study on the reaction of aluminum with water in the gas phase was performed using the hybrid density functional B3LYP and QCISD(T) methods with the 6-311+G(d,p) and the 6-311++G(d,p) basis sets. The results show that there are three possible reaction pathways that involve four isomers, seven transition structures, and two possible products for the reaction of aluminum with water. The two most favorable reaction pathways were found, whose intermediates and products agreed quite well with experimental results. The enthalpy and Gibbs free energy change of the reaction between Al and H2O at 298 and 2000 K were calculated. Some results are also in good agreement with the previous calculations or experimental results.  相似文献   

16.
确定初始电离位点是EI源质谱解析中一个至关重要的环节. 本文提出了一种确定初始电离位点的新方法. 该法通过计算和分析分子离子自旋密度, 进而比较从中性分子到分子离子的电荷变化和键长变化, 从而确定初始电离位点. 对简单吲哚类生物碱质谱的特征裂解机理进行了预测, 结果与标准物质的质谱吻合. 在此基础上, 与传统的根据基团电离能确定电离位点的方法进行了比较. 结果表明, 该法优于电离能方法. 此法不仅可用于预测以α-裂解为主导的吲哚生物碱和其它含氮化合物的质谱裂解规律, 还为揭示其它小分子化合物以及气相多肽离子的裂解机理奠定了基础.  相似文献   

17.
    
The mismatched fast-electron-slow-proton process in the electrocatalytic oxygen evolution reaction (OER) severely restricts the catalytic efficiency. To overcome these issues, accelerating the proton transfer and elucidating the kinetic mechanism are highly sought after. Herein, inspired by photosystem II, we develop a family of OER electrocatalysts with FeO6/NiO6 units and carboxylate anions (TA2−) in the first and second coordination sphere, respectively. Benefiting from the synergistic effect of the metal units and TA2−, the optimized catalyst delivers superior activity with a low overpotential of 270 mV at 200 mA cm−2 and excellent cycling stability over 300 h. A proton-transfer-promotion mechanism is proposed by in situ Raman, catalytic tests, and theoretical calculations. The TA2− (proton acceptor) can mediate proton transfer pathways by preferentially accepting protons, which optimizes the O−H adsorption/activation process and reduces the kinetic barrier for O−O bond formation.  相似文献   

18.
    
Protein post‐translational modifications and protein interactions are the central research areas in mass‐spectrometry‐based proteomics. Protein post‐translational modifications affect protein structures, stabilities, activities, and all cellular processes are achieved by interactions among proteins and protein complexes. With the continuing advancements of mass spectrometry instrumentations of better sensitivity, speed, and performance, selective enrichment of modifications/interactions of interest from complex cellular matrices during the sample preparation has become the overwhelming bottleneck in the proteomics workflow. Therefore, many strategies have been developed to address this issue by targeting specific modifications/interactions based on their physical properties or chemical reactivities, but only a few have been successfully applied for systematic proteome‐wide study. In this review, we summarized the highlights of recent developments in the affinity enrichment methods focusing mainly on low stoichiometric protein lipidations. Besides, to identify potential glyoxal modified arginines, a small part was added for profiling reactive arginine sites using an enrichment reagent. A detailed section was provided for the enrichment of protein interactions by affinity purification and chemical cross‐linking, to shed light on the potentials of different enrichment strategies, along with the unique challenges in investigating individual protein post‐translational modification or protein interaction network.  相似文献   

19.
    
The electron and proton transfer in phenol‐imidazole‐base systems (base = NH2? or OH?) were investigated by density‐functional theory calculations. In particular, the role of bridge imidazole on the electron and proton transfer was discussed in comparison with the phenol‐base systems (base = imidazole, H2O, NH3, OH?, and NH2?). In the gas phase phenol‐imidazole‐base system, the hydrogen bonding between the phenol and the imidazole is classified as short strong hydrogen bonding, whereas that between the imidazole and the base is a conventional hydrogen bonding. The n value in spn hybridization of the oxygen and carbon atoms of the phenolic CO sigma bond was found to be closely related to the CO bond length. From the potential energy surfaces without and with zero point energy correction, it can be concluded that the separated electron and proton transfer mechanism is suitable for the gas‐phase phenol‐imidazole‐base triads, in which the low‐barrier hydrogen bond is found and the delocalized phenolic proton can move freely in the single‐well potential. For the gas‐phase oxidized systems and all of the triads in water solvent, the homogeneous proton‐coupled electron transfer mechanism prevails. © 2009 Wiley Periodicals, Inc. J Comput Chem, 2010  相似文献   

20.
    
2‐Mercaptopyridine N ‐oxide (pyrithione, PTOH) along with several transition metal ions forms coordination compounds displaying notable biological activities. Gas‐phase complexes formed between pyrithione and manganese (II), cobalt (II), nickel (II), copper (II), and zinc (II) were investigated by infusion in the electrospray source of a quadrupole‐time of flight mass spectrometer. Remarkably, positive ion mode spectra displayed the singly charged metal adduct ion [C10H8MN2O2S2]2+ ([M(PTO)2]+• or [M(DPTO)]+•), where DPTO is dipyrithione, 2,2′‐dithiobis(pyridine N ‐oxide), among the most abundant peaks, implying a change in the oxidation state of whether the metal ion or the ligands. In addition, doubly charged ions were recognized as metal adduct ions containing DPTO ligands, [M(DPTO)n]2+. Generation of [M(PTO)2]+• / [M(DPTO)]+• could be traced by CID of [M(DPTO)2]2+, by observation of the sequential losses of a charged (PTO+) and a radical (PTO) deprotonated pyrithione ligand. The fragmentation pathways of [M(PTO)2]+• / [M(DPTO)]+• were compared among the different metal ions, and some common features were noticed. Density functional theory (DFT) calculations were employed to study the structures of the observed adduct ions, and especially, to decide in the adduct ion [M(PTO)2]+• / [M(DPTO)]+• whether the ligands are 2 deprotonated pyrithiones or a single dipyrithione as well as the oxidation state of the metal ion in the complex. Characterization of gas‐phase pyrithione metal ion complexes becomes important, especially taking into account the presence of a redox‐active ligand in the complexes, because redox state changes that produce new species can have a marked effect on the overall toxicological/biological response elicited by the metal system.  相似文献   

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