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.     

Theoretical study of silicon–sulfur clusters (SiS2)n− (n=1–6)

The possible geometrical structures and relative stability of silicon–sulfur clusters (SiS₂) (n=1–6) are explored by means of density functional theory (DFT) quantum chemical calculations. We also compare DFT with second‐order Møller–Plesset (MP2) and Hartree–Fock (HF) methods. The effects of polarization functions, diffuse functions, and electron correlation are included in MP2 and B3LYP quantum chemical calculations, and B3LYP is effective in larger cluster structure optimization, so we can conclude that the DFT approach is useful in establishing trends. The electronic structures and vibrational spectra of the most stable geometrical structures of (SiS₂)_n⁻ are analyzed by B3LYP. As a result, the regularity of the (SiS₂)_n⁻ cluster growing is obtained, and the calculation may predict the formation mechanism of the (SiS₂)_n⁻ cluster. © 2001 John Wiley & Sons, Inc. Int J Quant Chem 81: 280–290, 2001     

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 properties of (H2GaN3)n (n = 1–4) clusters: A DFT study

Computations on the systems of (H₂GaN₃)_n (n = 1–4) are performed using the density functional theory (DFT)/B3LYP method with different basis sets. (H₂GaN₃)₂ possessing D_2h symmetry is found to exhibit the planar Ga₂N₂ ring structure. (H₂GaN₃)₃ involving a six‐membered Ga₃N₃ ring is found to exhibit two minima with very similar binding energies (ca. −235 ∼ −231 kJ · mol⁻¹). One minimum is the newly found boat‐like conformation possessing C_s symmetry. Another minimum possessing C_3v symmetry is the chair‐like conformation. (H₂GaN₃)₄ occurs in several structures with Ga₄N₄ eight‐membered ring structures that correspond to minima with slight energy differences among them. The structural changes of the clusters are large compared with the monomer. Frequency calculations are carried out on each optimized structure, and their infrared (IR) spectra are discussed. Thermodynamic properties demonstrate that the systems of H₂GaN₃ occur at dimer–trimer–tetramer equilibrium, and the trimer is the main component. © 2004 Wiley Periodicals, Inc. Int J Quantum Chem, 2004     

Electronic structure and stability of BP clusters: theoretical calculations for (BP)n (n = 2–4)

The geometry, electronic configurations, harmonic vibrational frequencies, and stability of the structural isomers of boron phosphide clusters have been investigated using density functional theory (DFT). CCSD(T) calculations show that the lowest‐energy structures are cyclic (IIt, IVs) with D_nh symmetry for dimers and trimers. The caged structure for B₄P₄ lie higher in energy than the monocyclic structure with D_2d symmetry (VIs). The B–P bond dominates the structures for many isomers, so that one preferred dissociation channel is loss of the BP monomer. The hybridization and chemical bonding in the different structures are also discussed. Comparisons with boron nitride clusters, the ground state structures of B_nP_n (n = 2, 3) clusters are analogous to those of their corresponding B_nN_n (n = 2, 3) counterparts. © 2005 Wiley Periodicals, Inc. Int J Quantum Chem, 2006     

Density Functional Theory Study on (Cl2GaN3)n(n=1–4) Clusters

The molecular geometries, vibrational properties, and thermodynamic properties of the clusters (Cl₂GaN₃)_n(n=1–4) have been predicted at the B3LYP/6‐311+G* level. The optimized clusters (Cl₂GaN₃)_n (n=2–4) all possess cyclic structures containing Ga N_α Ga linkages. The relationships between geometrical parameters and oligomerization degree n are discussed. The gas‐phase structures of the trimers prefer to exist in boat‐twisting conformation. As for the tetramer, the S₄ symmetry structure is the most stable. The infrared spectra are obtained and assigned by vibrational analysis. Thermodynamic properties derived from the infrared spectra on the basis of statistical thermodynamic principles are linearly correlated with the oligomerization degree n as well as the temperature. Meanwhile, thermodynamic analysis of the gas‐phase reaction suggests that the oligomerization is exothermic and favorable under high temperature.     

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.     

Xanthones and Oxepino[2, 3‐b]chromones from Three Endophytic Fungi

Three new metabolites, microsphaeropsones A–C ( 1 – 3 ) with a unique oxepino[2,3‐b]chromen‐6‐one (ring‐enlarged xanthone) skeleton, were isolated from the endophytic fungus Microsphaeropsis species, co‐occurring with their putative biogenetic anthraquinoide precursors citreorosein ( 4 ) and emodin ( 5 ). From another Microsphaeropsis species, large amounts of fusidienol A ( 8 a ), smaller amounts of emodin ( 5 ), the known aromatic xanthones 9 a and 9 b , the new 3,4‐dihydrofusidienol A ( 8 b ), and the new aromatic xanthone 9 c were isolated. The endophyte Seimatosporium species produced a new aromatic xanthone, seimatoxanthone A ( 10 ), and 3,4‐dihydroglobosuxanthone A ( 12 ), closely related to α‐diversolonic ester ( 13 ) from Microdiplodia sp.. The structures were determined mainly by extensive 1D and 2D NMR experiments and supported by X‐ray single‐crystal analysis of 1 and the oxidation product 7 . The absolute configurations of the microsphaeropsones A–C ( 1 – 3 ) were established by comparison of the electronic and vibrational circular dichroism (ECD and VCD) spectra of 1 with time‐dependent DFT (TDDFT) and DFT calculations by using either the solid‐state structures or DFT‐optimized geometries as inputs. Preliminary studies indicated that 1 , 2 , and enone 7 showed antibacterial, fungicidal, and algicidal properties.     

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.     

Assembly of Three 2D Metal‐Organic Frameworks (MOFs) Derived from Flexible Ligands, 1,4‐bis(3‐pyridyl)‐2,3‐diaza‐1,3‐butadiene (3‐bpd) and/or 1,2‐bis(4‐pyridyl)ethane (dpe)

Three coordination polymers, {[Cd(3‐bpd)₂(NCS)₂]×C₂H₅OH}_n ( 1 ), {[Cd(3‐bpd)(dpe)(NO₃)₂]×(3‐bpd)}₂ ( 2 ), {[Cd(dpe)₂(NCS)₂]×3‐bpd×2H₂O}_n ( 3 ) (3‐bpd = 1,4‐bis(3‐pyridyl)‐2,3‐diaza‐1,3‐butadiene; dpe = 1,2‐bis(4‐pyridyl)ethane), were prepared and structurally characterized by a single‐crystal X‐ray diffraction method. In compound 1 , each Cd(II) ion is six‐coordinate bonded to six nitrogen atoms from four 3‐bpd and two NCS^? ligands. The 3‐bpd acts as a bridging ligand connecting the Cd(II) ion to generate a 2D layered metal‐organic framework (MOF) by using a rhomboidal‐grid as the basic building units with the 4⁴ topology. In compound 2 , the Cd(II) ion is also six‐coordinate bonded to four nitrogen atoms of two 3‐bpd, two dpe and two oxygen atoms of two NO₃^? ligands. The 3‐bpd and dpe ligands both adopt bis‐monodentate coordination mode connecting the Cd(II) ions to generate a 2D layered MOF by using a rectangle‐grid as the basic building units with the 4⁴ topology. In compound 3 , two crystallographically independent Cd(II) ions are both coordinated by four nitrogen atoms of dpe ligands in the basal plane and two nitrogen atom of NCS^? in the axial sites. The dpe acts as a bridging ligand to connect the Cd(II) ions forming a 2D interpenetrating MOFs by using a square‐grid as the basic unit with the 4⁴ topology. All of their 2D layered MOFs in compounds 1 ‐ 3 are then arranged in a parallel non‐interpenetrating ABAB—packing manner in 1 and 2 , and mutually interpenetrating manner in 3 , respectively, to extend their 3D supramolecular architectures with their 1D pores intercalated with solvent (ethanol in 1 or H₂O in 3 ) or free 3‐bpd molecules in 2 and 3 , respectively. The photoluminescence measurements of 1 ‐ 3 reveal that the emission is tentatively assigned to originate from π‐π* transition for 1 and 2 and probably due to ligand‐center luminescence for compounds 3 , respectively.     

Relativistic effects on geometry and electronic structure of small Pdn species (n=1, 2, 4)

Relativistic effects on the properties of small neutral Pd_n species (n=1, 2, 4) and Pd₂⁻ have been examined for the first time at the all‐electron level by performing scalar‐relativistic and nonrelativistic density functional calculations using a gradient‐corrected density functional. Relativistic effects are found to be important: They lead to a contraction of bond lengths, increase of vibrational frequencies, and a significant enhancement of binding energies. While relativistic effects are quite uniform for several states of Pd₄, they vary for the states examined for Pd₂, leading to a change of ground state due to relativity. The calculated relativistic properties of Pd₂ and Pd₂⁻ are in good agreement with available experimental data from mass spectrometry and photoelectron spectroscopy. For Pd₄ three‐dimensional structures are found to be preferred to planar ones and many nearly isoenergetic isomers exist. ©1999 John Wiley & Sons, Inc. Int J Quant Chem 74: 405–416, 1999     

Structure and Bonding in Bis(1‐naphthyl) Diselenide and Bis{[2‐(N,N‐dimethylamino)methyl]phenyl} Tetraselenide,and Their Brominated Derivatives

The formation and crystal structures of bis(1‐naphthyl) diselenide ( 1 ) and bis{[2‐(N,N‐dimethylamino)methyl]phenyl} tetraselenide ( 2 ) are described. Whereas 1 can be produced in good yields, 2 is formed only as a minor product together with the known main product, bis{[2‐(N,N‐dimethylamino)methyl]phenyl} diselenide. The composition of the reaction mixture is semi‐quantitatively estimated by ⁷⁷Se NMR spectroscopy and DFT calculations. The effect of the n²→σ*(Se–Se) and π→σ*(Se–Se) secondary bonding interactions on the Se–Se bonds is discussed both by DFT calculations and comparison with literature, as available. The bromination of 1 yields monomeric (1‐naphthyl)selenenyl bromide ( 3 ) in good yields. That of the reaction mixture of (C₆H₄CH₂NMe₂)Se_x (x = 2–4) and Se₈ afforded (C₆H₄CH₂NMe₂H)₂[SeBr₄] ( 4 ) and (C₆H₄CH₂NMe₂H)₂[SeBr₆] ( 5 ) in addition to (C₆H₄CH₂NMe₂)SeBr, which has been previously reported.     

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.     

Far‐Infrared Spectra of Yttrium‐Doped Gold Clusters AunY (n=1–9)

The geometric, spectroscopic, and electronic properties of neutral yttrium‐doped gold clusters Au_nY (n=1–9) are studied by far‐infrared multiple photon dissociation (FIR‐MPD) spectroscopy and quantum chemical calculations. Comparison of the observed and calculated vibrational spectra allows the structures of the isomers present in the molecular beam to be determined. Most of the isomers for which the IR spectra agree best with experiment are calculated to be the energetically most stable ones. Attachment of xenon to the Au_nY cluster can cause changes in the IR spectra, which involve band shifts and band splittings. In some cases symmetry changes, as a result of the attachment of xenon atoms, were also observed. All the Au_nY clusters considered prefer a low spin state. In contrast to pure gold clusters, which exhibit exclusively planar lowest‐energy structures for small sizes, several of the studied species are three‐dimensional. This is particularly the case for Au₄Y and Au₉Y, while for some other sizes (n=5, 8) the 3D structures have an energy similar to that of their 2D counterparts. Several of the lowest‐energy structures are quasi‐2D, that is, slightly distorted from planar shapes. For all the studied species the Y atom prefers high coordination, which is different from other metal dopants in gold clusters.     

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.     

Study of Cl−(H2O)n (n = 1–4) using basin‐hopping method coupled with density functional theory

Cl^?(H₂O)_n (n = 1–4) clusters were investigated using a basin‐hopping (BH) algorithm coupled with density functional theory (DFT). Structures, energetics, thermodynamics, vertical detachment energies, and vibrational frequencies were obtained from high‐level ab initio calculations. Through comparisons with previous theoretical and experimental data, it was demonstrated that the combination of the BH method and DFT could accurately predict the global and local minima of Cl^?(H₂O)_n (n = 1–4). Additionally, to optimize larger Cl^?(H₂O)_n (n > 4) clusters, several popular density functionals as well as DF‐LMP2 (Schütz et al., J. Chem. Phys. 2004, 121, 737) (second‐order Møller‐Plesset perturbation theory using local and density fitting approximations) were tested with appropriate basis sets through comparisons with MP2 optimized results. DF‐LMP2 will be used in future studies because its overall performance in describing the relative binding energies and the geometrical parameters of Cl^?(H₂O)_n (n = 1–4) was outstanding in this study. © 2013 Wiley Periodicals, Inc.     

A Combined Experimental and Computational Study of Linear Ruthenium(II) Coordination Oligomers with End‐Capping Organic Redox Sites: Insight into the Light Absorption and Charge Delocalization

Two series of linear ruthenium coordination oligomers, [(Ntpy)Ru_n(tppz)_n?1(tpy)]²ⁿ⁺ (mono‐Ntpy series, n=1–3) and [(Ntpy)₂Ru_n(tppz)_n?1]²ⁿ⁺ (bis‐Ntpy series, n=1–3) have been prepared, where Ntpy is the capping ligand 4′‐di‐p‐anisylamino‐2,2′:6′,2′′‐terpyridine, tppz is tetra‐2‐pyridylpyrazine, and tpy is 2,2′:6′,2′′‐terpyridine. The electrochemical measurements evidence oxidation events from both the amine segments and the metal centers and reduction waves from tppz and the capping ligands. Both series complexes display much enhanced light absorption with respect to model complexes without terminal amine units. Density functional theory (DFT) calculations have been performed on both series and time‐dependent DFT (TD‐DFT) calculations have been performed on the bis‐Ntpy‐series compounds (n=1–4) to characterize their electronic structures and excited states and predict the electronic properties of long‐chain polymers. Upon one‐electron oxidation, the mono‐Ntpy‐series monoruthenium and diruthenium complexes display N⁺‐localized transitions and metal‐to‐nitrogen charge‐transfer (MNCT) transitions in the near‐infrared (NIR) region. DFT and TD‐DFT computations on the one‐electron‐oxidized forms of the mono‐Ntpy‐series compounds (n=1–4) provide insight into the nature of the MNCT transitions and the degree of charge delocalization.     

The effect of the coordination orientation of N atoms on polymeric structures: synthesis and characterization of one‐ and two‐dimensional CuII coordination polymers based on 4‐amino‐3‐(pyridin‐2‐yl)‐5‐[(pyridin‐3‐ylmethyl)sulfanyl]‐1,2,4‐triazole

Three new one‐ (1D) and two‐dimensional (2D) Cu^II coordination polymers, namely poly[[bis{μ₂‐4‐amino‐3‐(pyridin‐2‐yl)‐5‐[(pyridin‐3‐ylmethyl)sulfanyl]‐1,2,4‐triazole}copper(II)] bis(methanesulfonate) tetrahydrate], {[Cu(C₁₃H₁₂N₅S)₂](CH₃SO₃)₂·4H₂O}_n ( 1 ), catena‐poly[[copper(II)‐bis{μ₂‐4‐amino‐3‐(pyridin‐2‐yl)‐5‐[(pyridin‐4‐ylmethyl)sulfanyl]‐1,2,4‐triazole}] dinitrate methanol disolvate], {[Cu(C₁₃H₁₂N₅S)₂](NO₃)₂·2CH₃OH}_n ( 2 ), and catena‐poly[[copper(II)‐bis{μ₂‐4‐amino‐3‐(pyridin‐2‐yl)‐5‐[(pyridin‐4‐ylmethyl)sulfanyl]‐1,2,4‐triazole}] bis(perchlorate) monohydrate], {[Cu(C₁₃H₁₂N₅S)₂](ClO₄)₂·H₂O}_n ( 3 ), were obtained from 4‐amino‐3‐(pyridin‐2‐yl)‐5‐[(pyridin‐3‐ylmethyl)sulfanyl]‐1,2,4‐triazole with pyridin‐3‐yl terminal groups and from 4‐amino‐3‐(pyridin‐2‐yl)‐5‐[(pyridin‐4‐ylmethyl)sulfanyl]‐1,2,4‐triazole with pyridin‐4‐yl terminal groups. Compound 1 displays a 2D net‐like structure. The 2D layers are further linked through hydrogen bonds between methanesulfonate anions and amino groups on the framework and guest H₂O molecules in the lattice to form a three‐dimensional (3D) structure. Compound 2 and 3 exhibit 1D chain structures, in which the complicated hydrogen‐bonding interactions play an important role in the formation of the 3D network. These experimental results indicate that the coordination orientation of the heteroatoms on the ligands has a great influence on the polymeric structures. Moreover, the selection of different counter‐anions, together with the inclusion of different guest solvent molecules, would also have a great effect on the hydrogen‐bonding systems in the crystal structures.     

Density functional study of HO(H2O)n (n = 1–3) clusters

The hydrogen bonding complexes HO(H₂O)_n (n = 1–3) were completely investigated in the present study using DFT and MP2 methods at varied basis set levels from 6‐31++G(d,p) to 6‐311++G(2d,2p). For n = 1 two, for n = 2 two, and for n = 3 five reasonable geometries are considered. The optimized geometric parameters and interaction energies for various complexes at different levels are estimated. The infrared spectrum frequencies and IR intensities of the most stable structures are reported. Finally, thermochemistry studies are also carried out. The results indicate that the formation and the number of hydrogen bonding have played an important role in the structures and relative stabilities of different complexes. © 2004 Wiley Periodicals, Inc. Int J Quantum Chem, 2005