Electronic,bonding, and optical properties of 1d [CuCN]n (n = 1–10) chains, 2d [CuCN]n (n = 2–10) nanorings,and 3d [Cun(CN)n]m (n = 4, m = 2, 3; n = 10, m = 2) tubes studied by DFT/TD‐DFT methods

The electronic, bonding, and photophysical properties of one‐dimensional [CuCN]_n (n = 1–10) chains, 2‐D [CuCN]_n (n = 2–10) nanorings, and 3‐D [Cu_n(CN)_n]_m (n = 4, m = 2, 3; n = 10, m = 2) tubes are investigated by means of a multitude of computational methodologies using density functional theory (DFT) and time‐dependent‐density‐functional theory (TD‐DFT) methods. The calculations revealed that the 2‐D [CuCN]_n (n = 2–10) nanorings are more stable than the respective 1‐D [CuCN]_n (n = 2–10) linear chains. The 2‐D [CuCN]_n (n = 2–10) nanorings are predicted to form 3‐D [Cu_n(CN)_n]_m (n = 4, m = 2, 3; n = 10, m = 2) tubes supported by weak stacking interactions, which are clearly visualized as broad regions in real space by the 3D plots of the reduced density gradient. The bonding mechanism in the 1‐D [CuCN]_n (n = 1–10) chains, 2‐D [CuCN]_n (n = 2–10) nanorings, and 3‐D [Cu_n(CN)_n]_m (n = 4, m = 2, 3; n = 10, m = 2) tubes are easily recognized by a multitude of electronic structure calculation approaches. Particular emphasis was given on the photophysical properties (absorption and emission spectra) of the [CuCN]_n chains, nanorings, and tubes which were simulated by TD‐DFT calculations. The absorption and emission bands in the simulated TD‐DFT absorption and emission spectra have thoroughly been analyzed and assignments of the contributing principal electronic transitions associated to individual excitations have been made. © 2015 Wiley Periodicals, Inc.     

Search for the global minimum structures of AlB3H2n (n = 0 − 6) clusters

The global minimum structures of AlB₃H_2n (n = 0–6) clusters are determined using the stochastic search method at the B3LYP/6–31G level of theory. These initially specified geometries are recalculated using B3LYP and CCSD(T) methods using the 6–311++G^** basis set. The structural and electronic properties of the two lowest‐lying isomers are presented. The structural parameters obtained for aluminum borohydride are compared with the experimental and theoretical results. The H₂ fragmentation energies of the most stable isomers are investigated. Chemical bonding analyses for the global minimum of AlB₃H_2n (n = 0–6) clusters are performed using the adaptive natural density partitioning method. © 2014 Wiley Periodicals, Inc.     

Structure and further fragmentation of significant [a3 + Na − H]+ ions from sodium‐cationized peptides

A good understanding of gas‐phase fragmentation chemistry of peptides is important for accurate protein identification. Additional product ions obtained by sodiated peptides can provide useful sequence information supplementary to protonated peptides and improve protein identification. In this work, we first demonstrate that the sodiated a₃ ions are abundant in the tandem mass spectra of sodium‐cationized peptides although observations of a₃ ions have rarely been reported in protonated peptides. Quantum chemical calculations combined with tandem mass spectrometry are used to investigate this phenomenon by using a model tetrapeptide GGAG. Our results reveal that the most stable [a₃ + Na ? H]⁺ ion is present as a bidentate linear structure in which the sodium cation coordinates to the two backbone carbonyl oxygen atoms. Due to structural inflexibility, further fragmentation of the [a₃ + Na ? H]⁺ ion needs to overcome several relatively high energetic barriers to form [b₂ + Na ? H]⁺ ion with a diketopiperazine structure. As a result, low abundance of [b₂ + Na ? H]⁺ ion is detected at relatively high collision energy. In addition, our computational data also indicate that the common oxazolone pathway to generate [b₂ + Na ? H]⁺ from the [a₃ + Na ? H]⁺ ion is unlikely. The present work provides a mechanistic insight into how a sodium ion affects the fragmentation behaviors of peptides. Copyright © 2015 John Wiley & Sons, Ltd.     

Theoretical investigation of the structures and spectroscopic properties of (H2O4)n (n = 1–4) clusters

Density functional theory and ab initio calculations were performed to elucidate the hydrogen interactions in (H₂O₄)_n (n = 1–4) clusters. The optimized geometries, binding energies, and harmonic vibrational frequencies were predicted at various levels of theory. The trans conformer of the H₂O₄ monomer was predicted to be the most stable structure at the CCSD(T)/aug‐cc‐pVTZ level of theory. The binding energies per H₂O₄ monomer increased in absolute value by 9.0, 10.1, and 11.8 kcal/mol from n = 2 to n = 4 at the MP2/cc‐pVTZ level of theory (after the zero‐point vibrational energy and basis set superposition error corrections). This result implies that the intermolecular hydrogen bonds were stronger in the long‐chain clusters, that is, the formation of the longer chain in the (H₂O₄)_n clusters was more energetically favorable.     

Formation of positive cluster ions LinBr (n = 2–7) and ionization energies studied by thermal ionization mass spectrometry

Clusters of the type Li_nX (X = halides) can be considered as potential building blocks of cluster‐assembly materials. In this work, Li_nBr (n = 2–7) clusters were obtained by a thermal ionization source of modified design and selected by a magnetic sector mass spectrometer. Positive ions of the Li_nBr (n = 4–7) cluster were detected for the first time. The order of ion intensities was Li₂Br⁺ > Li₄Br⁺ > Li₅Br⁺ > Li₆Br⁺ > Li₃Br⁺. The ionization energies (IEs) were measured and found to be 3.95 ± 0.20 eV for Li₂Br, 3.92 ± 0.20 eV for Li₃Br, 3.93 ± 0.20 eV for Li₄Br, 4.08 ± 0.20 eV for Li₅Br, 4.14 ± 0.20 eV for Li₆Br and 4.19 ± 0.20 eV for Li₇Br. All of these clusters have a much lower ionization potential than that of the lithium atom, so they belong to the superalkali class. The IEs of Li_nBr (n = 2–4) are slightly lower than those in the corresponding small Li_n or Li_nH clusters, whereas the IEs of Li_nBr are very similar to those of Li_n or Li_nH for n = 5 and 6. The thermal ionization source of modified design is an important means for simultaneously obtaining and measuring the IEs of Li_nBr (n = 2–7) clusters (because their ions are thermodynamically stable with respect to the loss of lithium atoms in the gas phase) and increasingly contributes toward the development of clusters for practical applications. Copyright © 2012 John Wiley & Sons, Ltd.     

Theoretical investigations on the superhalogen properties and interaction of PdOn (n = 1–5) species

Density functional calculations on the ground state geometries and stabilities of PdO_n species (n = 1–5) are performed in neutral as well as anionic forms. Calculations reveal that Pd can bind stably with four O atoms indicating the maximum oxidation state of Pd as high as +8. The electron affinities of PdO_n suggest that these species behave as superhalogens for n ≥ 2. The large electron affinities of PdO_n species along with stability of their anions point toward the synthesis of new class of compounds having unusual oxidizing capabilities. This possibility is explored by considering the interaction of PdO₂ superhalogen with Ca atom which forms a stable CaPdO₂ complex. In this complex, PdO₂ unit closely mimics the behavior of O atom when compared with CaO molecule. © 2013 Wiley Periodicals, Inc.     

A high‐accuracy theoretical study of the CHnP Systems n = 1–3

We have performed high‐level electronic structure computations on the most important species of the CH_nP systems n = 1–3 to characterize them and provide reliable information about the equilibrium and vibrationally averaged molecular structures, rotational constants, vibrational frequencies (harmonic and anharmonic), formation enthalpies, and vertical excitation energies. Those chemical systems are intermediates for several important reactions and also prototypical phosphorus‐carbon compounds; however, they are often elusive to experimental detection. The present results significantly complement their knowledge and can be used as an assessment of the experimental information when available. The explicitly correlated coupled‐cluster RCCSD(T)‐F12 method has been used for geometry optimizations and vibrational frequency calculations. Vibrational configuration interaction theory has been used to account for anharmonicity effects. Basis‐set limit extrapolations have been carried out to determine accurate thermochemical quantities. Electronic excited states have been calculated with coupled‐cluster approaches and also by means of the multireference configuration interaction method. © 2013 Wiley Periodicals, Inc.     

Theoretical insight of nitric oxide adsorption on neutral and charged Pdn (n = 1–5) clusters

Density functional theory (DFT) calculations within the framework of generalized gradient approximation have been used to systematically investigate the adsorption of nitric oxide (NO) molecule on neutral, cationic, and anionic Pd_n (n = 1–5) clusters. NO coordinate to one Pd atom of the cluster by the end‐on mode, where the tilted end‐on structure is more favorable due to the additional electron in the π* orbital. On the contrary, in the neutral and cationic Pd₂ system, NO coordinates to the bridge site of cluster preferably by the side‐on mode. Charge transfer between Pd clusters and NO molecule and the corresponding weakening of N? O bond is an essential factor for the adsorption. The N? O stretching frequency follow the order of cationic > neutral > anionic. Binding energy of NO on anionic clusters is found to be greater than those of neutral and cationic clusters. © 2015 Wiley Periodicals, Inc.     

Electronic and magnetic properties of small RhnCa (n = 1–9) clusters: A DFT study

The equilibrium geometries, relative stabilities, electronic and magnetic properties of small Rh_nCa (n = 1–9) clusters have been investigated by DFT calculations. The obtained results show that the three‐dimensional geometries are adopted for the lowest‐energy Rh_nCa clusters, and the doped Ca atom prefers locating on the surface of the cluster. Based on the analysis of the second‐order difference of energies, fragmentation energies and the HOMO‐LUMO energy gaps, we identify that the Rh₄Ca, Rh₆Ca, and Rh₈Ca clusters are relatively more stable than their neighboring clusters, and the doping of Ca enhances the chemical reactivity of the pure Rh_n clusters, suggesting that the Rh_nCa clusters can be used as nanocatalysts in many catalytic reactions. The magnetic moment for these clusters is mostly localized on the Rh atoms, and the doping Ca atom has no effect on the total magnetic moment of Rh_nCa clusters. The partial density of states, VIP, VEA, and η of these clusters in their ground‐state structures were also calculated and discussed. © 2015 Wiley Periodicals, Inc.     

Ab initio investigations on the stabilities of AuOnq− (q = 0 to 3; n = 1 to 4) species: Superhalogen behavior of AuOn (n ≥ 2) and their interactions with an alkali metal

Theoretical density functional calculations are performed on AuO_n^q? species for q = 0–3 and n = 1–4 in various spin states. AuO_n species are found to be relatively more stable in their mono‐anionic forms and behave as superhalogens for n ≥ 2. The maximum oxidation state of Au is found to be +7 in these species, but limited to +5. This fact is explained by considering interactions of AuO_n superhalogens with K atom and which leads to the formation of more stable KAuO_n complex up to n = 3, only. Thus, the present study is expected not only to motivate the synthesis of a new class of salts but also to assign the maximum oxidation state of gold. © 2013 Wiley Periodicals, Inc.     

Computational studies of stable hexanuclear CulAgmAun (l + m + n = 6; l,m, n > 0) clusters

A DFT study was carried out on the ground state structures of ternary Cu_lAg_mAu_n (l + m + n = 6) clusters, with the aim of investigating changes of thermal and kinetic stabilities as an effect of composition, as well as the composition dependence of the electrostatic potential, of stable planar structures. DFT optimizations were performed using the PBE functional and the SDD basis set. All the optimized structures adopt planar geometries with bent triangular structures. Calculated binding energy values are in the range 1.5–1.9 eV/atom, which shows their thermal stability. The predicted HOMO‐LUMO energy gap values are in the semiconductor region, providing a qualitative indication of a moderate kinetic stability. NBO analyses indicate the existence of two mechanisms promoting planar structural stability, one due to bonding‐antibonding orbital interaction, and the other one due to the well‐known spd hybridization. Wiberg indices were obtained showing interatomic bonding. Electrostatic potential calculations show the existence of nucleophilic attack regions preferentially around silver and copper atoms located at the vertices while electrophilic attack regions are found in the vicinity of gold atoms over the cluster plane. Apparently, charge transfer occurs toward gold from silver and copper atoms when the concentration is favorable in the proximity of gold atoms. In particular, if the small ternary clusters discussed here contain only one gold atom, then a high electron density is observed at the site of this gold atom. © 2016 Wiley Periodicals, Inc.     

Structures and electronic properties of the small rubidium‐doped silicon RbSin (n = 1–12) clusters

The geometries, relative stabilities, and electronic properties of small rubidium‐doped silicon clusters RbSi_n (n = 1–12) have been systematically investigated using the density functional theory at the B3LYP/GENECP level. The optimized structures show that lowest‐energy isomers of RbSi_n are similar with the ground state isomers of pure Si_n clusters and prefer the three‐dimensional for n = 3–12. The relative stabilities of RbSi_n clusters have been analyzed on the averaged binding energy, fragmentation energy, second‐order energy difference, and highest occupied molecular orbital‐lowest unoccupied molecular orbital energy gap. The calculated results indicate that the doping of Rb atom enhances the chemical activity of Si_n frame and the magic number is RbSi₂. The Mulliken population analysis reveals that the charges in the corresponding RbSi_n clusters transfer from the Rb atom to Si atoms. The partial density of states and chemical hardness are also discussed. © 2014 Wiley Periodicals, Inc.     

Theoretical investigation of LaC3n+ (n = 0, 1, 2) clusters by density functional theory

LaC₃ⁿ⁺ (n=0, 1, 2) clusters have been studied using B3LYP (Becke 3-parameter–Lee-Yang-Parr) density functional method. The basis set is Dunning/Huzinaga valence double zeta for carbon and [2s2p2d] for lanthanum, denoted LANL1DZ. Four isomers are presented for each cluster; two of them are edge binding isomers with C_2v symmetry, the other two are linear chains with C_∞v symmetry. Meanwhile, two spin states for each isomer, that is, singlet and triplet for LaC₃⁺, doublet and quartet for LaC₃ and LaC₃²⁺, respectively, are also considered. Geometries, vibrational frequencies, infrared intensities, and other quantities are reported and discussed. The results indicate that at some spin states; the C_2v symmetry isomers are the dominant structures, while for the other spin states, linear isomers are energetically favored. © 1998 John Wiley & Sons, Inc. Int J Quant Chem 66 : 301–307, 1998     

Pentaatomic planar tetracoordinate silicon with 14 valence electrons: A large‐scale global search of (n + m = 4; q = 0, ±1, −2; X,Y = main group elements from H to Br)

Designing and characterizing the compounds with exotic structures and bonding that seemingly contrast the traditional chemical rules are a never‐ending goal. Although the silicon chemistry is dominated by the tetrahedral picture, many examples with the planar tetracoordinate‐Si skeletons have been discovered, among which simple species usually contain the 17/18 valence electrons. In this work, we report hitherto the most extensive structural search for the pentaatomic ptSi with 14 valence electrons, that is, (n + m = 4; q = 0, ±1, ?2; X, Y = main group elements from H to Br). For 129 studied systems, 50 systems have the ptSi structure as the local minimum. Promisingly, nine systems, that is, , HSiY₃ (Y = Al/Ga), Ca₃SiAl^?, Mg₄Si^2?, C₂LiSi, Si₃Y₂ (Y = Li/Na/K), each have the global minimum ptSi. The former six systems represent the first prediction. Interestingly, in HSiY₃ (Y = Al/Ga), the H‐atom is only bonded to the ptSi‐center via a localized 2c–2e σ bond. This sharply contradicts the known pentaatomic planar‐centered systems, in which the ligands are actively involved in the ligand–ligand bonding besides being bonded to the planar center. Therefore, we proposed here that to generalize the 14e‐ptSi, two strategies can be applied as (1) introducing the alkaline/alkaline‐earth elements and (2) breaking the peripheral bonding. In light of the very limited global ptSi examples, the presently designed six systems with 14e are expected to enrich the exotic ptSi chemistry and welcome future laboratory confirmation. © 2014 Wiley Periodicals, Inc.     

The highest oxidation state of Au revealed by interactions with successive cl ligands and superhalogen properties of AuCln (n = 1–6) species

This study deals with a reinvestigation on the maximum oxidation state of gold. Density functional calculations are performed on geometries and stabilities of AuCl_n species for n = 1–6 in their neutral and anionic states. The calculations clearly reveal that the maximum oxidation state of Au is limited to +5. The high adiabatic electron affinities of AuCl_n (n ≥ 2), as compared to Cl, suggest their superhalogen behavior. The interaction of AuCl_n superhalogens with an alkali metal, K is found to be similar to but stronger than that between K and Cl, leading to the formation of KAuCl_n complexes. The stabilities of these complexes explore the possibility of synthesis of new class of salts by interaction of with appropriate metal cations. © 2014 Wiley Periodicals, Inc.     

Structures of [M(Ura‐H)(H2O)n]+ (M = Mg,Ca, Sr,Ba; n = 1–3) complexes in the gas phase by IRMPD spectroscopy and theoretical studies

The structures of singly and doubly (and for Mg, triply) hydrated group 2 metal dications bound to deprotonated uracil were explored in the gas phase using infrared multiple photon dissociation spectroscopy in the mid‐infrared region (1000–1900 cm^?1) and the O–H/N–H stretching region (2700–3800 cm^?1) in a Fourier transform ion cyclotron resonance mass spectrometer. The infrared multiple photon dissociation spectra were then compared with the computed IR spectra for various isomers. Calculations were performed using B3LYP with the 6‐31 + G(d,p) basis set for all atoms except Ba²⁺ and Sr²⁺, for which the LANL2DZ or the def2‐TZVPP basis sets with relativistic core potentials were used. Atoms‐in‐molecules analysis was conducted for all lowest energy structures. The lowest energy isomers in all cases are those in which the one uracil is deprotonated at the N3 position, and the metal is coordinated to the N3 and O4 of uracil. Regardless of the degree of solvation, all water molecules are bound to the metal ion and participate in a hydrogen bond with a carbonyl of the uracil moiety. Copyright © 2016 John Wiley & Sons, Ltd.     

Geometric and electronic structures of silicon fluorides (N = 4 – 6) and potential energy surfaces for dissociation reactions → SiF4 + F– and → + F–

The geometric and electronic structures of a series of silicon fluorides (n = 4 ? 6) were computationally studied with the aid of density functional theory (DFT) method with B3LYP and M06‐2X functionals and coupled cluster (CCSD and CCSD(T)) methods with 6‐311++G(d,p) basis set. The nature of the Si‐F bonds in these compounds was analyzed in the framework of the natural bond orbital theory and natural resonance theory. Energy characteristics (heats of reactions and energy barriers) of the dissociation reactions → SiF₄ + F^– and → + F^– were calculated using the DFT and CCSD methods. The potential energy surface of elimination of a fluoride anion from has a specific topology with valley‐ridge inflection points corresponding to bifurcations of the minimal energy reaction path. © 2016 Wiley Periodicals, Inc.     

Substitution effect on the intermolecular halogen and hydrogen bonds of the σ‐bonded fluorinated pyridine···XY/HX complexes (XY = F2, Cl2, ClF; HX = HF,HCl)

Optimal structures, electronic and thermodynamic properties of the title complexes are presented. The stability of the hydrogen bonded systems is enhanced by the increasing dipole moments whereas in the halogen bonded systems it is also affected by the atom size in the diatomics. The consecutive addition of fluorine atoms to the pyridine moiety results in the decrease of the interaction energy for both types of the investigated bonds. The substitution on the meta sites in pyridine leads to more stable complexes than the substitution in the ortho position. The role of substitution on electric polarization and electrostatic forces is estimated by the symmetry‐adapted perturbation theory energy decomposition. The predicted Gibbs free energies of the complexes of mono fluorinated pyridines with HCl, HF, and ClF are from ?12 to ?22 kJ mol^?1 at 200 K. The possible experimental identification of the complexes with respect to the vibrational modes is discussed. © 2014 Wiley Periodicals, Inc.