Structure of molybdenum and tungsten sulfide M(x)S(y)+ clusters: experiment and DFT calculations

A combination of experiment and density functional theory was used to investigate the energetics of CO adsorption onto several small M(x)S(y)(+) (M = Mo, W; x/y = 2/6, 3/7, 5/7, 6/8) clusters as a probe of their atomic and electronic structure. Experimentally, tandem mass spectrometry was used to measure the relative yields of M(x)S(y)(+)(CO)(n) cluster adducts formed by collisions between a beam of mass-selected M(x)S(y)(+) cluster ions and CO molecules in a high-pressure collision cell (hexapole ion guide). The most probable M(x)S(y)(+)(CO)(n) adducts observed are those with n < or = x, that is, only one CO molecule bound to each metal site. The notable exception is the M(5)S(7)(+) cluster, for which the n = 6 adduct is found to have nearly the same intensity as the n = x = 5 adduct. Density functional calculations were used to search for the lowest energy structures of the bare M(x)S(y)(+) clusters and to obtain their relative stability for sequential CO binding. The calculated trends in CO binding energies were then compared to the experimental adduct distributions for assigning the ground-state structures. In this way, it was possible to distinguish between two nearly isoenergetic ground-state isomers for the M(2)S(6)(+) and M(3)S(7)(+) clusters, as only one isomer gave a calculated CO stabilization energy trend that was consistent with the experimental data. Similar comparisons of predicted and observed CO adsorption trends also provide evidence for assigning the ground-state structures of the M(5)S(7)(+) and M(6)S(8)(+) clusters. The latter contain metallic cores with most of the sulfur atoms bonded along the edges or in the faces of the metal core structure. The n = 6 and 7 adducts of M(5)S(7)(+) are predicted to be more stable than the n = x = 5 adduct, but only the n = 6 adduct is observed experimentally. The DFT calculations show that the n = 7 adduct undergoes internal bond breaking whereas the n = 6 framework is stable, albeit highly distorted. For the M(6)S(8)(+) cluster, the calculations predict that the two lowest energy isomers can bind more than six CO molecules without fragmentation; however, the apparent binding energy drops significantly for adducts with n > 6. In general, the ability of these small M(x)S(y)(+) clusters to bind more CO molecules than the number of metal atoms is a balance between the gain in CO adsorption energy versus the strain introduced into the cluster structure caused by CO crowding, the consequences of which can be fragmentation of the M(x)S(y)(+)(CO)(n) cluster adduct (n > x).     

5d过渡金属原子中心镶嵌Ag团簇M@Ag12(M＝Hf～Hg) Ih和Oh构型的密度泛函理论研究

采用相对论密度泛函理论方法对Ih和Oh构型M@Ag12 (M＝Hf～Hg)的几何和电子结构进行了系统的研究. 研究表明, 原子半径之和与团簇的电子结构共同决定了M—Ag键长的大小. M@Ag12的成键能来自中心原子的嵌入能和Ag12笼子的形变能. 最高占据轨道为成键轨道的团簇比反键轨道的团簇的稳定性强. 我们发现在此系列中, Ih构型不一定总比Oh构型稳定. Hf@Ag12, Ir@Ag12, Au@Ag12和Hg@Ag12的Oh构型比Ih构型稳定.     

Activation of the C-I and C-OH bonds of 2-iodoethanol by gas phase silver cluster cations yields subvalent silver-iodide and -hydroxide cluster cations

The gas phase ion-molecule reactions of silver cluster cations (Ag(n)(+)) and silver hydride cluster cations (Ag(m)H(+)) with 2-iodoethanol have been examined using multistage mass spectrometry experiments in a quadrupole ion trap mass spectrometer. These clusters exhibit size selective reactivity: Ag(2)H(+), Ag(3)(+), and Ag(4)H(+) undergo sequential ligand addition only, while Ag(5)(+) and Ag(6)H(+) also promote both C-I and C-OH bond activation of 2-iodoethanol. Collision induced dissociation (CID) of Ag(5)HIO(+), the product of C-I and C-OH bond activation by Ag(5)(+), yielded Ag(4)OH(+), Ag(4)I(+) and Ag(3)(+), consistent with a structure containing AgI and AgOH moieties. Ag(6)H(+) promotes both C-I and C-OH bond activation of 2-iodoethanol to yield the metathesis product Ag(6)I(+) as well as Ag(6)H(2)IO(+). The metathesis product Ag(6)I(+) also promotes C-I and C-OH bond activation.DFT calculations were carried out to gain insights into the reaction of Ag(5)(+) with ICH(2)CH(2)OH by calculating possible structures and their energies for the following species: (i) initial adducts of Ag(5)(+) and ICH(2)CH(2)OH, (ii) the subsequent Ag(5)HIO(+) product, (iii) CID products of Ag(5)HIO(+). Potential adducts were probed by allowing ICH(2)CH(2)OH to bind in different ways (monodentate through I, monodentate through OH, bidentate) at different sites for two isomers of Ag(5)(+): the global minimum "bowtie" structure, 1, and the higher energy trigonal bipyramidal isomer, 2. The following structural trends emerged: (i) ICH(2)CH(2)OH binds in a monodentate fashion to the silver core with little distortion, (ii) ICH(2)CH(2)OH binds to 1 in a bidentate fashion with some distortion to the silver core, and (iii) ICH(2)CH(2)OH binds to 2 and results in a significant distortion or rearrangement of the silver core. The DFT calculated minimum energy structure of Ag(5)HIO(+) consists of an OH ligated to the face of a distorted trigonal bipyramid with I located at a vertex, while those for both Ag(4)X(+) (X = OH, I) involve AgX bound to a Ag(3)(+) core. The calculations also predict the following: (i) the ion-molecule reaction of Ag(5)(+) and ICH(2)CH(2)OH to yield Ag(5)HIO(+) is exothermic by 34.3 kcal mol(-1), consistent with the fact that this reaction readily occurs under the near thermal experimental conditions, (ii) the lowest energy products for fragmentation of Ag(5)HIO(+) arise from loss of AgI, consistent with this being the major pathway in the CID experiments.     

Density functional study of AgnPd and AgnPdH clusters

Small Ag_nPd (n = 5) clusters and their hydrides Ag_nPdH (n = 5) have been studied by density functional theory calculations. For bare clusters, the structures in which the Pd atom has a maximum number of neighboring Ag atoms tend to be energetically favorable. Hydrogen prefers binding to Ag? Pd bridge site of Ag_nPd clusters except for Ag₅Pd. The binding energy has a strong odd–even oscillation. The electron transfers are from Ag atoms to Pd in bare clusters and are from metal clusters to H in cluster hydrides. © 2010 Wiley Periodicals, Inc. Int J Quantum Chem, 2011     

Reactions of mixed silver-gold cluster cations AgmAun + (m+n=4,5,6) with CO: radiative association kinetics and density functional theory computations

Near thermal energy reactive collisions of small mixed metal cluster cations Ag(m)Au(n) (+) (m+n=4, 5, and 6) with carbon monoxide have been studied in the room temperature Penning trap of a Fourier transform ion-cyclotron-resonance mass spectrometer as a function of cluster size and composition. The tetrameric species AgAu(3) (+) and Ag(2)Au(2) (+) are found to react dissociatively by way of Au or Ag atom loss, respectively, to form the cluster carbonyl AgAu(2)CO(+). In contrast, measurements on a selection of pentamers and hexamers show that CO is added with absolute rate constants that decrease with increasing silver content. Experimentally determined absolute rate constants for CO adsorption were analyzed using the radiative association kinetics model to obtain cluster cation-CO binding energies ranging from 0.77 to 1.09 eV. High-level ab initio density functional theory (DFT) computations identifying the lowest-energy cluster isomers and the respective CO adsorption energies are in good agreement with the experimental findings clearly showing that CO binds in a "head-on" fashion to a gold atom in the mixed clusters. DFT exploration of reaction pathways in the case of Ag(2)Au(2) (+) suggests that exoergicities are high enough to access the minimum energy products for all reactive clusters probed.     

Interaction of Silver Clusters with Cholesterol Ligands

The structures of small silver clusters (Ag₂, Ag₃, Ag₁₃) and their interaction with ligands of the cholesterol series, namely, cholesterol (Ch) and thiocholesterol (TCh), are calculated by the density functional theory (DFT) methods and the second-order Møller–Plesset perturbation theory (MP2). Trends in the geometric structure and interaction energy of the silver–cholesterol ligand cluster are estimated depending on the size of the metal cluster and the replacement of cholesterol by the sulfur-containing analogue. For Ch–Ag₁₃ and TCh–Ag₁₃ systems, the geometric structure of the metallic subsystem is a slightly distorted icosahedron with the Ag–Ag bond length ranged 2.8–3.0 Å. Cholesterol is coordinated to the icosahedral facet so that the shortest Ag–O distances range from 2.3 to 2.4 Å. In the case of thiocholesterol, a configuration in which the ligand is coordinated by the edge of the icosahedron with two approximately equal distances of Ag–S (2.537 and 2.547 Å) is preferable.     

Pt2M2异金属四核原子簇化合物成键规律探讨

对十二个Ｐｔ２Ｍ２四核异金属簇化合物进行了量子化学ＤＶ－Ｘα方法的计算与讨论，探讨了这些原子簇的成键规律，它们大致可分为三类：Ｐｔ与Ⅷ族金属形成的四核簇，Ｐｔ尽量保持自己原有的价电荷；Ｐｔ与ⅥＢ族金属形成的原子簇，ⅥＢ族元素是电荷的主要提供者，Ｐｔ与ＩＢ族金属形成的原子族，体系主要由配体ＰＰｈ３提供电荷，并提出，簇合时，三苯基膦酸体起电子调节作用，环戊烯基配体起推电子作用，从能带分析，ⅥＢ族或ＩＢ     

Bond energies and structures of ammonia-sulfuric acid positive cluster ions

New particle formation in the atmosphere is initiated by nucleation of gas-phase species. The small molecular clusters that act as seeds for new particles are stabilized by the incorporation of an ion. Ion-induced nucleation of molecular cluster ions containing sulfuric acid generates new particles in the background troposphere. The addition of a proton-accepting species to sulfuric acid cluster ions can further stabilize them and may promote nucleation under a wider range of conditions. To understand and accurately predict atmospheric nucleation, the stabilities of each molecular cluster within a chemical family must be known. We present the first comprehensive measurements of the ammonia-sulfuric acid positive ion cluster system NH(4)(+)(NH(3))(n)(H(2)SO(4))(s). Enthalpies and entropies of individual growth steps within this system were measured using either an ion flow reactor-mass spectrometer system under equilibrium conditions or by thermal decomposition of clusters in an ion trap mass spectrometer. Low level ab initio structural calculations provided inputs to a master equation model to determine bond energies from thermal decomposition measurements. Optimized ab initio structures for clusters up through n = 3, s = 3 are reported. Upon addition of ammonia and sulfuric acid pairs, internal proton transfer generates multiple NH(4)(+) and HSO(4)(-) ions within the clusters. These multiple-ion structures are up to 50 kcal mol(-1) more stable than corresponding isomers that retain neutral NH(3) and H(2)SO(4) species. The lowest energy n = s clusters are composed entirely of ions. The addition of acid-base pairs to the core NH(4)(+) ion generates nanocrystals that begin to resemble the ammonium bisulfate bulk crystal starting with the smallest n = s cluster, NH(4)(+)(NH(3))(1)(H(2)SO(4))(1). In the absence of water, this cluster ion system nucleates spontaneously for conditions that encompass most of the free troposphere.     

Electronically excited states and visible region photodissociation spectroscopy of Au(m)(+) . Ar(n) clusters (m=7-9): molecular dimensionality transition?

Photodissociation spectra were determined for Au(m)(+) . Ar(n) (m=7; n=0-3 and m=8,9; n=0,1) in the photon energy range of 2.14-3.02 eV. Experimental data were compared with predictions of dipole allowed transitions using time-dependent density functional theory (TDDFT) as applied to cluster structures from both DFT (B3-LYP functional) and ab initio calculations at the MP2 level. Argon adduct formation does not significantly perturb the bare metal cluster core structure, but it does change the metal cluster spectrum for highly symmetric cluster structures. The photodissociation spectra are consistent with a transition from planar to three-dimensional gold cluster core geometries between m=7 and m=8 for both n=0 and 1. TDDFT predictions for favored isomers describe experimental absorption features to within +/-0.25 eV. We also discuss size-dependent trends in TDDFT transition energies for the lowest energy two- and three-dimensional structures of Au(m)(+)(m=3-9).     

Structural and electronic properties of Al12X+ (X=C, Si, Ge, Sn, and Pb) clusters

Using the first-principles method with the generalized gradient approximation, the authors have studied the structural and electronic properties of Al(12)X(+) (X=C, Si, Ge, Sn, and Pb) clusters in detail. The ground state of Al(12)C(+) is a low symmetry C(s) structure instead of an icosahedron. However, the Si, Ge, Sn, and Pb atom doped cationic clusters favor icosahedral structures. The ground states for Al(12)Si(+) and Al(12)Ge(+) are icosahedra, while the C(5nu) structures optimized from an icosahedron with a vertex capped by a tetravalent atom have the highest binding energy for Al(12)Sn(+) and Al(12)Pb(+) clusters. The I(h) structure and the C(5nu) structure are almost degenerate for Al(12)Ge(+), whose binding energy difference is only 0.03 eV. The electronic properties are altered much by removing an electron from the neutral cluster. The binding strength of a valence electron is enhanced, while the binding energy of the cluster is reduced much. Due to the open electronic shell, the band gaps between the highest occupied molecular orbital and the lowest unoccupied molecular orbital are approximately 0.3 eV for the studied cationic clusters.     

A large indium sulfide supertetrahedral cluster built from integration of ZnS-like tetrahedral shell with NaCl-like octahedral core

An entirely new type of chalcogenide cluster and a new structural mechanism for the formation of large semiconducting tetrahedral clusters have been revealed as a result of crystallization of a templated indium sulfide consisting of an unprecedented cluster, In(38)S(65), which is the largest supertetrahedral cluster based on trivalent metal ions. At the core of this cluster is In(10)S(13), which can be considered as a fragment of the NaCl-type lattice. The In(10)S(13) cluster is coupled to four In(4)S(10) supertetrahedral T2 clusters and four In(3)S(3) hexagonal rings to give In(38)S(65), which is also the largest inorganic chalcogenide supertetrahedral cluster, superseding a supertetrahedral T5 cluster with only 35 metal sites.     

Ligand effects on hydrogen atom transfer from hydrocarbons to three-coordinate iron imides

A new β-diketiminate ligand with 2,4,6-tri(phenyl)phenyl N-substituents provides protective bulk around the metal without exposing any weak C-H bonds. This ligand improves the stability of reactive iron(III) imido complexes with Fe═NAd and Fe═NMes functional groups (Ad = 1-adamantyl; Mes = mesityl). The new ligand gives iron(III) imido complexes that are significantly more reactive toward 1,4-cyclohexadiene than the previously reported 2,6-diisopropylphenyl diketiminate variants. Analysis of X-ray crystal structures implicates Fe═N-C bending, a longer Fe═N bond, and greater access to the metal as potential reasons for the increase in C-H bond activation rates.     

过渡金属团簇M20和M20(PMe3)4(M=Cu,Ag,Au)的量子化学理论研究

采用从头计算MP2和DFT理论方法,对过渡金属团簇M20和M20( PMe3)4(M=Cu,Ag,Au)的几何结构、电子结构以及团簇各组成部分之间的结合能进行了研究.所研究的体系具有较大的前线轨道能隙,与C60接近,显示出特别的稳定性.考虑电子相关效应的MP2方法能够对团簇的结构给予可靠的描述.离域泛函GGA对Cu和A...     

Comparison of the periodic slab approach with the finite cluster description of metal–organic interfaces at the example of PTCDA on Ag(110)

We present a comparative study of metal–organic interface properties obtained from dispersion corrected density functional theory calculations based on two different approaches: the periodic slab‐supercell technique and cluster models with 32–290 Ag atoms. Fermi smearing and fixing of cluster borders are required to make the cluster calculation feasible and realistic. The considered adsorption structure and energy of a PTCDA molecule on the Ag(110) surface is not well reproduced with clusters containing only two metallic layers. However, all clusters with four layers of silver atoms and sufficient lateral extension reproduce the adsorbate structure within 0.04 Å with respect to the slab‐supercell structure and provide adsorption energies of ( 0.08 eV) consistent with the slab result of −4.47 eV. Thus, metal–organic adsorbate systems can be realistically represented by properly defined cluster models. © 2018 Wiley Periodicals, Inc.     

Rigid bis-zinc(II) salphen building blocks for the formation of template-assisted bidentate ligands and their application in catalysis

The template-induced formation of chelating bidentate ligands by the selective self-assembly of two monodentate pyridyl phosphorus ligands on a rigid bis-zinc(II) salphen template with two identical binding sites was studied. Using UV-vis, NMR-spectroscopy and X-ray analysis the formed structures were unambiguously proven. The application of these templated bidentate ligands in transition metal catalysis showed, in most cases, typical bidentate character. Compared to previous work based on a more flexible bis-zinc(II) porphyrin template, the current catalytic data suggest that the rigidity of the template is not an important factor for the improvement of the regio- and enantioselectivity under the applied reaction conditions.     

Activation of molecular hydrogen on platinum nanoparticles: Quantum-chemical modeling

The interaction of molecular hydrogen with platinum clusters of different size has been modeled by the density functional theory method within the generalized gradient approximation (GGA). The cluster size turns out to have little effect on the interaction energy, whereas the effect of the cluster structure is rather significant. The most efficient interaction with hydrogen is observed for clusters with a structure resembling the crystal structure of platinum metal. In such clusters, the hydrogen molecule is attached to its surface without a barrier. Configurations with the bidentate hydrogen coordination are the most stable ones. The H atoms can migrate over the cluster surface, overcoming moderate potential barriers of ∼0.3–0.4 eV.     

Electronic structure of metal clusters

Photoemission spectra of valence electrons in metal clusters, together with threshold ionization potential measurements, provide a coherent picture of the development of the electronic structure from the isolated atom to the large metallic cluster. An insulator-metal transition occurs at an intermediate cluster size, which serves to define the boundary between small and large clusters. Although the outer electrons may be delocalized over the entire cluster, a small cluster remains insulating until the density of states near the Fermi level exceeds 1/kT. In large clusters, with increasing cluster size, the band structure approaches that of the bulk metal. However, the bands remain significantly narrowed even in a 1000-atom cluster, giving an indication of the importance of long-range order. The core-electron binding-energy shifts of supported metal clusters depend on changes in the band structure in the initial state, as well as on various final-state effects, including changes in core hole screening and the coulomb energy of the final-state charge. For cluster supported on amorphous carbon, this macroscopic coulomb shift is often dominant, as evidenced by the parallel shifts of the core-electron binding energy and the Fermi edge. Auger data confirm that final-state effects dominate in cluster of Sn and some other metals. Surface atom core-level shifts provide a valuable guide to the contributions of initial-state changes in band structure to cluster core-electron binding energy shifts, especially for Au and Pt. The available data indicate that the shift observed in supported, metallic clusters arise largely from the charge left on the cluster by photoemission. As the metal-insulator transition is approached from above, metallic screening is suppressed and the shift is determined by the local environment.     

Exhaustive search of the configurational space of heat-shock protein 90 with its inhibitor by multicanonical molecular dynamics based dynamic docking

Multicanonical molecular dynamics based dynamic docking was used to exhaustively search the configurational space of an inhibitor binding to the N-terminal domain of heat-shock protein 90 (Hsp90). The obtained structures at 300 K cover a wide structural ensemble, with the top two clusters ranked by their free energy coinciding with the native binding site. The representative structure of the most stable cluster reproduced the experimental binding configuration, but an interesting conformational change in Hsp90 could be observed. The combined effects of solvation and ligand binding shift the equilibrium from a preferred loop-in conformation in the unbound state to an α-helical one in the bound state for the flexible lid region of Hsp90. Thus, our dynamic docking method is effective at predicting the native binding site while exhaustively sampling a wide configurational space, modulating the protein structure upon binding.     

Collision energy transfer in collision of NH(4) (+)(NH(3))(n-1) (n=3-9) with ND(3)

An incorporation of ND(3) into protonated ammonia cluster ions NH(4)(+)(NH(3))(n-1) (n=3-9), together with a dissociation of the cluster ions, was observed in the collision of the cluster with ND(3) at collision energies ranging from 0.04 to 1.4 eV in the center-of-mass frame. The branching fractions of the cluster ion species produced in the reactions were obtained as a function of the collision energy. The branching fractions of the incorporation products were successfully explained in terms of the Rice-Ramsperger-Kassel (RRK) theory at collision energies lower than the binding energy of the cluster ion. In addition, the internal energy distributions of the parent cluster ions were determined, and found to be in good agreement with those predicted using the evaporative ensemble model. In incorporations at collision energies lower than the binding energy of the cluster ion, all of the collision energy was transferred to the internal energy of the cluster ions; subsequently, an evaporation of ammonia molecules occurred in an equilibrium process after a complete energy redistribution in the clusters. In contrast, at collision energies higher than the binding energy of the cluster ion, a release of an ammonia molecule from the incorporation products occurred in a nonequilibrium process. The transition from the complex mode to the direct mode in the incorporation was observed at collision energies approximately equal to the binding energy. On the other hand, the collision energy dependence of the cross sections for the dissociation and for a nonreactive collision were estimated by a RRK simulation in which the collision energy transfer was interpreted by using the classical hard-sphere collision model. A relationship between reactivity and reaction modes in the collision of NH(4)(+)(NH(3))(4) with ND(3) is discussed via a comparison of the experimental results with the RRK simulation.     

Behavior of Ag3 clusters inside a nanometer-sized space of ZSM-5 zeolite

We found from DFT calculations that Ag-Ag orbital interactions as well as Ag-O electrostatic interactions determine the structures of three silver cations inside a nanometer-sized cavity of ZSM-5 (Ag(3)-ZSM-5) in lower and higher spin states. Both interactions strongly depend on the number of Al atoms substituted for Si atoms on the ZSM-5 framework (ZSM-5(Al(n))), where n ranges from 1 to 3. In smaller n, stronger Ag-Ag orbital interactions and weaker Ag-O electrostatic interactions operate. Accordingly, there are significant dependencies of the structures of three silver cations on the number of Al atoms. In lower spin states of Ag(3)-ZSM-5(Al(1)) and Ag(3)-ZSM-5(Al(2)), D(3h)-like triangle clusters are contained inside ZSM-5 whereas their higher spin states have triangle clusters distorted significantly from the D(3h) structure. In lower spin states, the totally symmetric orbital consisting of 5s(Ag) orbitals is responsible for cluster formation, whereas in higher spin states occupation of a 5s(Ag)-based orbital with one node results in significant distortion of the triangle clusters. The distortion can be partially understood by analogies to Jahn-Teller distortion of the bare D(3h) Ag(3)(+) cluster in the triplet spin state. When n is 3, we found that three silver cations are isolated in a lower spin state and that a linear cluster consisting of two silver cations is formed in a higher spin state. Thus, we demonstrate from DFT calculations that the number of Al atoms can control the properties of three silver cations inside a ZSM-5 cavity. Since the structural and electronic features of the enclosed silver clusters can link to their catalytic properties, the DFT findings can help us to understand the catalytic activity of Ag-ZSM-5.