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Heme ligation in the gas phase 血红素结扎在气相
IF 6.1 2区 化学 Q3 CHEMISTRY, PHYSICAL Pub Date : 2021-07-03 DOI: 10.1080/0144235X.2021.1952006
N. Shafizadeh, M. Crestoni, A. de la Lande, B. Soep
This review summarizes the state-of-the-art knowledge of heme ligation in the gas phase. The unique aspect of the gas phase approach is to allow a step-by-step ligation of heme and thus enables the analysis of the properties of -four, -five and -six coordinate hemes in vacuo, under conditions directly comparable with quantum calculations. This approach also allows the characterization of situations uncommon in Nature, completing the coordination spectrum of hemes: four coordinate heme and protonated heme, an intermediate between ferrous and ferric heme. Therefore, a complete set of systems is described for the ferrous and ferric cases and there is no discontinuity between the two oxidation states of iron, so that the same mechanisms are at work, donation and back donation of different strengths depending upon the ligand. The similarity of ligation properties in ferrous and ferric hemes is consistent with calculations of the electron density at the Fe atom level, rather independent of the formal oxidation state in contrast with the porphyrin cycle. Hemes spin states have been reviewed, for they identify the electronic distribution of the metal. In ligated ferrous and ferric hemes, we find that binding energy measurements combined with spectroscopy describe their properties most effectively.
本文综述了最新的血红素结扎在气相的知识。气相方法的独特之处在于允许一步一步地连接血红素,从而能够在与量子计算直接可比较的条件下分析真空中- 4、- 5和- 6坐标血红素的性质。这种方法还可以表征自然界中不常见的情况,完成血红素的配位谱:四配位血红素和质子血红素,一种介于亚铁血红素和铁血红素之间的中间物。因此,在亚铁和铁的情况下,描述了一套完整的体系,并且铁的两种氧化态之间没有不连续,因此相同的机制在起作用,根据配体的不同,给予和反给予的强度不同。铁血红素和铁血红素的连接性质的相似性与铁原子水平上的电子密度计算一致,而与卟啉循环相反,与形式氧化态无关。由于血红素自旋态可以识别金属的电子分布,因此对其进行了评述。在结扎的亚铁和铁血红素中,我们发现结合能测量与光谱学相结合最有效地描述了它们的性质。
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引用次数: 1
Physics and chemistry on the surface of cosmic dust grains: a laboratory view 宇宙尘埃颗粒表面的物理和化学:实验室的观点
IF 6.1 2区 化学 Q3 CHEMISTRY, PHYSICAL Pub Date : 2021-04-03 DOI: 10.1080/0144235X.2021.1918498
A. Potapov, M. McCoustra
Dust grains play a central role in the physics and chemistry of cosmic environments. They influence the optical and thermal properties of the medium due to their interaction with stellar radiation; provide surfaces for the chemical reactions that are responsible for the synthesis of a significant fraction of key astronomical molecules; and they are building blocks of pebbles, comets, asteroids, planetesimals, and planets. In this paper, we review experimental studies of physical and chemical processes, such as adsorption, desorption, diffusion and reactions forming molecules, on the surface of reliable cosmic dust grain analogues as related to processes in diffuse, translucent, and dense interstellar clouds, protostellar envelopes, planet-forming disks, and planetary atmospheres. The information that such experiments reveal should be flexible enough to be used in many different environments. In addition, we provide a forward look discussing new ideas, experimental approaches, and research directions.
尘埃颗粒在宇宙环境的物理和化学中起着核心作用。由于它们与恒星辐射的相互作用,它们影响介质的光学和热性质;为化学反应提供表面,这些化学反应负责合成相当一部分关键的天文分子;它们是鹅卵石、彗星、小行星、星子和行星的基石。本文综述了可靠的宇宙尘埃颗粒类似物表面的吸附、解吸、扩散和分子形成反应等物理和化学过程的实验研究,这些过程与弥漫、半透明和致密星际云、原恒星包层、行星形成盘和行星大气中的过程有关。这些实验揭示的信息应该足够灵活,可以在许多不同的环境中使用。此外,我们还提供了展望,讨论了新的思路,实验方法和研究方向。
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引用次数: 11
Vibronically coupled states: computational considerations and characterisation of vibronic and rovibronic spectroscopic parameters 振动耦合态:振动和回振动光谱参数的计算考虑和表征
IF 6.1 2区 化学 Q3 CHEMISTRY, PHYSICAL Pub Date : 2021-04-03 DOI: 10.1080/0144235X.2021.1874118
Ketan Sharma, T. Miller, J. Stanton
The interaction of electronic and nuclear motion – broadly categorised as ‘vibronic coupling’ – plays a number of roles in areas that range from molecular dynamics to electronic spectroscopy. Additionally, these phenomena pose significant challenges to both computational electronic spectroscopy and quantum chemistry, as the usual approximations (Franck–Condon and Born–Oppenheimer) are often rendered unsatisfactory. After beginning with a broad overview of vibronic coupling effects and some computational strategies for characterising them, the review discusses how these effects are manifested in various types of spectra. Particular emphasis is given to fine-structure effects in Jahn–Teller systems that arise from couplings involving rotational, orbital and spin angular momenta. Unlike overall vibronic level structure, which has been quite well studied both theoretically and experimentally, these more subtle effects are seen only at high (rotationally-resolved) resolution, and are less well understood. The review gives a detailed description of the quantum-mechanical origin of these splittings and provides some computational strategies for predicting them. A broad overview is given of families of Jahn–Teller active molecules that have been investigated experimentally and theoretically. Detailed discussion is given for two JT-active radicals where theory and experiment are compared at both low and high resolution: cyclopentadienyl (C H ) and methoxy (CH O).
电子和核运动的相互作用——大致被归类为“振动耦合”——在从分子动力学到电子光谱学等领域发挥着许多作用。此外,这些现象对计算电子光谱学和量子化学都提出了重大挑战,因为通常的近似(frank - condon和Born-Oppenheimer)往往不能令人满意。在广泛概述了振动耦合效应和表征它们的一些计算策略之后,本文讨论了这些效应如何在各种类型的光谱中表现出来。特别强调的是精细结构效应的Jahn-Teller系统产生的耦合涉及旋转,轨道和自旋角动量。与已经在理论和实验上得到很好研究的整体振动水平结构不同,这些更微妙的影响只能在高(旋转分辨)分辨率下看到,并且不太容易理解。这篇综述详细描述了这些分裂的量子力学起源,并提供了一些预测它们的计算策略。本文对已有实验和理论研究的jann - teller活性分子家族进行了综述。本文对环戊二烯基(hc)和甲氧基(CH O)两种jt活性自由基进行了详细的讨论,并在低分辨率和高分辨率下对理论和实验进行了比较。
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引用次数: 2
Time delay in atomic and molecular collisions and photoionisation/photodetachment 原子和分子碰撞和光离/光分离的时间延迟
IF 6.1 2区 化学 Q3 CHEMISTRY, PHYSICAL Pub Date : 2020-11-30 DOI: 10.1080/0144235X.2021.1838805
P. Deshmukh, Sourav Banerjee
It is remarkable that time delay is an experimentally measurable quantity, but time itself is not. Time delay in quantum collisions and in photoionisation/photodetachment of atomic and molecular systems is reviewed in this paper. Wigner–Eisenbud formalism of time delay in quantum collision of a wavepacket with a target is discussed. Its equivalence with Smith's formalism of time delay, based on an independent basis for time delay in terms of excess particle density in the collision zone, is demonstrated. Similarity and difference between quantum collision of an electron with a positive atomic/molecular ion and photoionisation/photodetachment of a neutral atom/molecule are discussed, and the underlying quantum dynamics involving the time-reversal symmetry between solutions with outgoing and ingoing wave boundary conditions is pointed out to interpret photoionisation/photodetachment as half-scattering. This relationship is subsequently taken advantage to extend the formalism of Wigner–Eisenbud–Smith time delay in photoionisation/photodetachment. The measurability of time delay is accounted for in terms of a self-adjoint quantum operator that characterises it, even if there is no such operator for time itself. A few illustrative examples of theoretical and experimental studies of time delay are given to indicate outstanding advances made in this field in the last two decades.
值得注意的是,时间延迟是一个实验可测量的量,但时间本身不是。本文综述了量子碰撞和原子与分子系统的光离/光分离中的时间延迟。讨论了波包与目标量子碰撞中时间延迟的Wigner-Eisenbud形式。它的等价与史密斯的时间延迟的形式,基于一个独立的基础上的时间延迟在碰撞区多余的粒子密度,证明了。讨论了电子与正原子/分子离子的量子碰撞与中性原子/分子的光离/光脱离之间的异同,指出了具有出波和入波边界条件的溶液之间涉及时间反转对称性的潜在量子动力学,将光离/光脱离解释为半散射。随后利用这种关系扩展了Wigner-Eisenbud-Smith时间延迟在光电离/光脱离中的形式主义。时间延迟的可测量性是用表征它的自伴随量子算子来解释的,即使时间本身没有这样的算子。本文列举了时间延迟理论和实验研究的几个实例,以说明近二十年来该领域取得的突出进展。
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引用次数: 8
Coherent state based solutions of the time-dependent Schrödinger equation: hierarchy of approximations to the variational principle 时间相关Schrödinger方程的相干状态解:变分原理的近似层次
IF 6.1 2区 化学 Q3 CHEMISTRY, PHYSICAL Pub Date : 2020-10-21 DOI: 10.1080/0144235X.2020.1823168
Michael Werther, Sreeja Loho Choudhury, F. Grossmann
In this review, we give a comprehensive comparison of the most widely used coherent state (CS) based methods to solve the time-dependent Schrödinger equation (TDSE). Starting from the fully variational coherent states (VCS) method, after a first approximation, the coupled coherent states (CCS) method can be derived, whereas an additional approximation leads to the semiclassical Herman–Kluk (HK) method. We numerically compare the different methods with another one, based on a static rectangular grid of coherent states (SCS), by applying all of them to the revival dynamics in a 1D Morse oscillator, with a special focus on the number of basis states (for the CCS and HK methods the number of classical trajectories) needed for convergence and the related issue of tight frames, which in principle allow the usage of CSs as if they were orthogonal. Different discretisation strategies for the occurring phase space integrals for systems with more degrees of freedom are also discussed and the apoptosis procedure that allows to circumvent the linear dependency problem in the VCS method is reviewed. The Holstein molecular crystal model serves to further illustrate the latter point.
在这篇综述中,我们给出了最广泛使用的基于相干态(CS)的方法来解决时间相关Schrödinger方程(TDSE)的全面比较。从全变分相干态(VCS)方法出发,经过一次近似,可以推导出耦合相干态(CCS)方法,而再进行一次近似则可以推导出半经典的Herman-Kluk (HK)方法。我们将不同的方法与另一种方法进行数值比较,基于静态矩形相干态网格(SCS),通过将所有方法应用于一维莫尔斯振荡器的恢复动力学,特别关注收敛所需的基态数量(对于CCS和HK方法,经典轨迹的数量)和紧密框架的相关问题,原则上允许使用CSs,就好像它们是正交的一样。还讨论了对具有更多自由度的系统的相空间积分的不同离散化策略,并回顾了在VCS方法中允许规避线性依赖问题的细胞凋亡过程。荷尔斯坦分子晶体模型进一步说明了后一点。
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引用次数: 18
Paramagnetic chemical exchange saturation transfer agents and their perspectives for application in magnetic resonance imaging 顺磁化学交换饱和转移剂及其在磁共振成像中的应用前景
IF 6.1 2区 化学 Q3 CHEMISTRY, PHYSICAL Pub Date : 2020-10-15 DOI: 10.1080/0144235X.2020.1823167
Aurora Rodríguez-Rodríguez, M. Zaiss, David Esteban-Gómez, G. Angelovski, C. Platas‐Iglesias
Magnetic resonance imaging (MRI) has emerged as very important tool in biomedical research and is an essential diagnostic method in clinical radiology today. Lately, chemical exchange saturation transfer (CEST) has become a very attractive alternative to the classical MRI methodologies. CEST uses a unique operating mechanism to generate contrast and possesses great potential for functional imaging investigations, especially in combination with diamagnetic and paramagnetic (dia- and paraCEST, respectively) contrast agents. However, CEST is governed by a combination of several parameters that together influence the overall intensity of observed CEST effect. The understanding of the physics of CEST has advanced significantly to provide a reliable assessment on contribution of individual parameters important for generation of a CEST signal. Nevertheless, there seem to be a missing link between the above mentioned theory and its practical application, especially in the development of new probes. This review article provides background information on CEST and paraCEST, analyzing the importance of the main physical parameters, such as exchange rate, saturation power and time, or paramagnetic shift and relaxation times. We describe the different types of paramagnetic complexes based on lanthanide or transition metal ions, and discuss their properties in the context of potential CEST application.
磁共振成像(MRI)已成为生物医学研究中非常重要的工具,也是当今临床放射学必不可少的诊断方法。近年来,化学交换饱和转移(CEST)已成为传统MRI方法的一种非常有吸引力的替代方法。CEST使用独特的操作机制来产生造影剂,在功能成像研究中具有很大的潜力,特别是与抗磁性和顺磁性造影剂(分别为dia和paraCEST)结合使用。然而,CEST是由几个参数的组合控制的,这些参数共同影响观察到的CEST效应的总体强度。对CEST物理特性的理解已经有了显著的进步,可以对产生CEST信号的各个重要参数的贡献进行可靠的评估。然而,在上述理论与其实际应用之间,特别是在新探测器的开发中,似乎缺少一个环节。本文综述了CEST和paraCEST的背景资料,分析了主要物理参数的重要性,如汇率,饱和功率和时间,或顺磁位移和弛豫时间。我们描述了基于镧系或过渡金属离子的不同类型的顺磁配合物,并讨论了它们在CEST潜在应用背景下的性质。
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引用次数: 6
Halogen-related photodissociation in atmosphere: characterisation of atomic halogen, molecular halogen, and hydrogen halide 大气中与卤素相关的光解:原子卤素、分子卤素和卤化氢的表征
IF 6.1 2区 化学 Q3 CHEMISTRY, PHYSICAL Pub Date : 2020-10-09 DOI: 10.1080/0144235X.2020.1822590
K. Lin, Balaganesh Muthiah, Hsiu-Pu Chang, T. Kasai, Yuan‐Pin Chang
Atomic halogen elimination from halogen-related compounds plays a vital role in the depletion of the ozone layer and is well investigated. However, the probabilities for elimination of molecular halogens and hydrogen halides are rarely scrutinised. We develop distinct method for the investigation of each kind of fragment. Velocity-mapping ion-imaging was employed to study the atomic halogen elimination from alkyl halides and aryl halides, focusing on the fractions of the translational energy release, the quantum yields of the atomic fragments, transition probability for curve crossing, competitive halogen-related bond fission, and anisotropy parameters to understand their dynamical complexity. Cavity ring-down absorption spectroscopy was implemented to investigate the molecular halogen fragments dissociated from the aliphatic halides and acyl halides for their optical spectra, vibrational branches, quantum yields, and the dissociation mechanisms. Time-resolved Fourier transform infrared emission spectroscopy was employed to confine the primary products of hydrogen halide elimination from acyl halides in the presence of Ar gas. It is, for the first time, to overview these existing small halogen-related fragments eliminated from halogen-containing compounds. The detailed characterisation of these fragments should unveil complicated halogen-related dissociation mechanisms which may supplement the current knowledge and help with the photochemical assessment of halogen-related environmental issue.
从卤素相关化合物中消除原子卤素在臭氧层的消耗中起着至关重要的作用,并得到了很好的研究。然而,消除分子卤素和卤化氢的可能性很少被仔细研究。我们开发了不同的方法来调查每一种碎片。采用速度映射离子成像技术研究了烷基卤化物和芳基卤化物的原子消卤过程,重点研究了平动能释放的分数、原子碎片的量子产率、曲线穿越的跃迁概率、竞争卤素相关键裂变和各向异性参数,以了解其动力学复杂性。采用腔衰荡吸收光谱法研究了脂肪族卤化物和酰基卤化物解离后的分子卤素片段的光谱、振动分支、量子产率和解离机制。采用时间分辨傅里叶变换红外发射光谱法对有氩气存在的酰基卤化物中卤化氢消去的初级产物进行了限制。这是第一次对从含卤化合物中消除的现存的与卤相关的小片段进行概述。这些碎片的详细特征将揭示复杂的卤素相关解离机制,这可能会补充现有的知识,并有助于对卤素相关环境问题的光化学评估。
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引用次数: 1
Fundamentals of ion mobility in the free molecular regime. Interlacing the past, present and future of ion mobility calculations 自由分子状态下离子迁移的基本原理。交错过去,现在和未来的离子迁移率计算
IF 6.1 2区 化学 Q3 CHEMISTRY, PHYSICAL Pub Date : 2020-10-01 DOI: 10.1080/0144235x.2020.1826708
Carlos Larriba-Andaluz, J. Prell
While existing ion mobility calculators are capable of feats as impressive as calculating collision cross sections (CCS) within a few per cent and within a very reasonable time, the simplifications assumed in their estimations precludes them from being more precise, potentially overreaching with respect to the interpretation of existing calculations. With ion mobility instrumentation progressively reaching resolutions of several hundreds to thousands (accuracy in the range of ∼0.1%), a more accurate theoretical description of gas-phase ion mobility becomes necessary to correctly interpret experimental state-of-the-art separations. This manuscript entails an effort to consolidate the most relevant theoretical work pertaining to ion mobility within the ‘free molecular’ regime, describing in detail the rationale for approximations up to the two-temperature theory, using both a momentum transfer approach as well as the solution to the moments of the Boltzmann equation for the ion. With knowledge of the existing deficiencies in the numerical methods, the manuscript provides a series of necessary additions in order to better simulate some of the separations observed experimentally due to second-order effects, namely, high field effects, dipole alignment, angular velocities and moments of inertia, potential interactions and inelastic collisions among others.
虽然现有的离子迁移率计算器能够在合理的时间内计算出百分之几的碰撞横截面(CCS),但它们的估计中假设的简化使它们无法更精确,可能会对现有计算的解释产生过度的影响。随着离子迁移率仪器逐渐达到几百到几千的分辨率(精度在~ 0.1%的范围内),气相离子迁移率的更准确的理论描述对于正确解释实验中最先进的分离是必要的。这份手稿需要努力巩固最相关的理论工作有关“自由分子”制度下的离子迁移率,详细描述了近似的基本原理到双温度理论,使用动量转移方法以及解决离子的玻尔兹曼方程的时刻。由于认识到数值方法存在的不足,本文提供了一系列必要的补充,以便更好地模拟由于二阶效应,即高场效应,偶极子排列,角速度和转动惯量,潜在相互作用和非弹性碰撞等实验观察到的一些分离。
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引用次数: 12
Rydberg-to-valence evolution in excited state molecular dynamics 激发态分子动力学中的里德堡-价演化
IF 6.1 2区 化学 Q3 CHEMISTRY, PHYSICAL Pub Date : 2020-09-18 DOI: 10.1080/0144235X.2020.1815389
M. Paterson, D. Townsend
We present an overview of experimental and theoretical investigations exploring the dynamical evolution of Rydberg-to-valence character in the electronically excited states of small polyatomic molecules. Time-resolved photoelectron imaging (TRPEI), in conjunction with high-level quantum chemistry calculations, permits detailed insight into the non-adiabatic processes operating in these systems and we review several case studies drawn from our own work in this area over the last few years. Electronically excited Rydberg states that develop significant valence character along specific molecular coordinates provide potentially important pathways for the rapid and efficient redistribution of excess energy following ultraviolet absorption. As such, there is considerable interest in developing better understanding of role of these states play within a broad range of different photochemical environments. A central theme of this review considers the way in which key energy – and angle-resolved observables in TRPEI measurements are influenced by different aspects of transitory Rydberg-to-valence behaviour. Several themes are discussed within a coherent narrative, drawing on experimental and theoretical findings in a selected series of small organic species containing nitrogen heteroatoms. Critically, many of the effects we highlight will also be generalisable to related studies interrogating non-adiabatic processes within a much broader range of molecular systems.
本文综述了小多原子分子电子激发态中rydberg - - -价特征动态演化的实验和理论研究。时间分辨光电子成像(TRPEI)与高级量子化学计算相结合,可以详细了解这些系统中运行的非绝热过程,我们回顾了过去几年我们在该领域工作中得出的几个案例研究。电子激发里德伯态沿着特定分子坐标发展出显著的价态特征,为紫外吸收后多余能量的快速有效再分配提供了潜在的重要途径。因此,人们对更好地理解这些状态在广泛的不同光化学环境中所起的作用非常感兴趣。本综述的一个中心主题考虑了TRPEI测量中关键的能量和角度分辨可观测物受到瞬态里德堡价行为不同方面的影响的方式。在一个连贯的叙述中讨论了几个主题,借鉴了一系列含有氮杂原子的小有机物种的实验和理论发现。至关重要的是,我们强调的许多效应也将推广到更广泛的分子系统中询问非绝热过程的相关研究中。
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引用次数: 4
Solvation of ions in helium 离子在氦中的溶剂化
IF 6.1 2区 化学 Q3 CHEMISTRY, PHYSICAL Pub Date : 2020-08-24 DOI: 10.1080/0144235x.2020.1794585
T. González-Lezana, O. Echt, M. Gatchell, M. Bartolomei, J. Campos-Martínez, P. Scheier
We review the solvation of atomic, molecular or cluster ions in HNDs. After briefly discussing the properties of snowballs in bulk helium we consider experimental conditions for the efficient synthesis of charged, doped HNDs. We show that the cluster ions observed in conventional mass spectrometers originate from fission of highly charged HNDs. The ionization threshold of HNDs doped with alkalis reveals the minimum cluster size required for full immersion. The abundance distributions of He X ions frequently reveal local anomalies or magic numbers. We demonstrate that the abundance is approximately proportional to the evaporation energy. Observed and calculated magic numbers will be compiled, including data for ions solvated in molecular hydrogen. Alternative methods to forming He X that do not employ HNDs will be summarized. Electronic excitation spectra of C and polycyclic aromatic hydrocarbon ions reveal the properties of the helium adsorption layer in quantitative detail. Next we discuss theoretical efforts to describe the interaction between ions and helium. We close with summarizing the size dependence of physical quantities computed for atomic alkali and alkaline earth cations in helium, such as binding energy, superfluid fraction, structural order, radial density profiles, and the existence of first and higher solvation shells.
综述了HNDs中原子、分子或簇离子的溶剂化。在简要讨论了大块氦中雪球的性质之后,我们考虑了有效合成带电掺杂HNDs的实验条件。我们表明,在传统的质谱仪中观察到的簇离子起源于高电荷HNDs的裂变。碱掺杂HNDs的电离阈值揭示了完全浸没所需的最小簇大小。氦X离子的丰度分布经常显示局部异常或幻数。我们证明了丰度与蒸发能近似成正比。观察和计算的幻数将被汇编,包括离子溶化在氢分子中的数据。将总结不使用HNDs的形成He X的替代方法。C和多环芳烃离子的电子激发光谱定量详细地揭示了氦吸附层的性质。接下来我们讨论描述离子和氦之间相互作用的理论努力。最后总结了氦中原子碱和碱土阳离子的物理量的大小依赖性,如结合能、超流分数、结构顺序、径向密度分布以及第一层和更高层溶剂化壳的存在。
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引用次数: 23
期刊
International Reviews in Physical Chemistry
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