Endohedral beryllium atoms in ten-vertex germanium clusters: effect of a small interstitial atom on the cluster geometry.

Ten-vertex clusters are unusually versatile because polyhedra with 3-, 4-, and 5-fold symmetry are possible and are found in experimentally known structures. Such clusters therefore provide useful probes for subtle effects on cluster structure such as changing the electron count or introducing an interstitial atom. In this connection, DFT shows that one of the smallest possible interstitial atoms, namely beryllium, has relatively little effect on the structures of Be@Ge(10)(z) (z = +2, 0, -2, -4) clusters. Thus the same C(3v) and D(4d) polyhedra are found as the lowest energy structures for the isoelectronic pairs Be@Ge(10)(2+)/Ge(10) and Be@Ge(10)/Ge(10)(2-). Even for the more complicated potential energy surfaces of the Be@Ge(10)(2-)/Ge(10)(4-) and Be@Ge(10)(4-)/Ge(10)(6-) systems, the lowest energy structures are remarkably similar. Thus the same C(2v) structures are the global minima for both Be@Ge(10)(2-) and Ge(10)(4-). Similarly, the same slipped pentagonal prism structures are the global minima for both Be@Ge(10)(4-) and Ge(10)(6-).

The unique palladium-centered pentagonal antiprismatic cationic bismuth cluster: a comparison of related metal-centered 10-vertex pnictogen cluster structures by density functional theory.

Structures for the metal-centered 10-vertex pnictogen clusters M@Pn(10)(4+) (M = Ni, Pd, Pt; Pn = As, Sb, Bi) based on polyhedra with 3-fold, 4-fold, and 5-fold symmetry have been studied by density functional theory. Among these nine M/Pn combinations, only Pd@Bi(10)(4+) and Pt@Bi(10)(4+) are predicted to have the D(5d) pentagonal antiprism as the lowest energy structure in accord with experimental observation of this cluster in the ternary halide Bi(14)PdBr(10) as well as the prediction of the Wade-Mingos rules for these arachno systems. The lowest energy structures for the arsenic and antimony clusters M@Pn(10)(4+) (Pn = As, Sb) and Ni@Bi(10)(4+) are predicted to have structures derived from a tetracapped trigonal prism that has been severely distorted for M@As(10)(4+) (M = Pd, Pt). The volumes of the As(10) polyhedra other than the pentagonal prism are too small to contain interstitial palladium or platinum atoms so that major distortions are predicted for such clusters leading to partial opening of the polyhedron.

Endohedral nickel, palladium, and platinum atoms in 10-vertex germanium clusters: competition between bicapped square antiprismatic and pentagonal prismatic structures.

Density functional theory predicts significant differences in the preferred structures of endohedral M@Ge10z (M = Ni, Pd, Pt; z = 0, 2-, 4-) clusters upon a change of the central metal atom in otherwise isoelectronic systems. For the neutral clusters M@Ge10 the global minima are singlet bicapped square antiprisms. However, triplet regular pentagonal prismatic structures become increasingly energetically competitive in the series Ni --> Pd -> Pt. The pentagonal prismatic dianions M@Ge10(2-) (M = Ni, Pd, Pt) appear to have closed shell structures and are the global minima for palladium and platinum. However, the global minimum for Ni@Ge102- is the capped square antiprism suggested by the Wade-Mingos rules. A number of singlet low-energy unsymmetrical structures are found for the tetraanions M@Ge10(4-). However, for the palladium and platinum tetraanions triplet pentagonal prismatic structures are energetically competitive with the unsymmetrical structures.

The role of "external" lone pairs in the chemical bonding of bare post-transition element clusters: the Wade-Mingos rules versus the jellium model.

The jellium sphere model of a volume of electrons, counterbalanced by a positive charge throughout the sphere, leads to an energy level sequence corresponding to special stabilities of bare post-transition element clusters with 20 valence electrons such as the known P4 and clusters with 40 valence electrons such as the known Ge9(4-), Ni@In10(10-), and In11(7-). In this model the otherwise "external" lone pairs on the vertex atoms participate at least indirectly in the skeletal bonding. Furthermore, this model predicts the most favorable polyhedra and electron counts in some cases to be quite different than those predicted by the Wade-Mingos rules of polyhedral borane chemistry.

Bis(phosphanylamino)benzene ligands: a zinc(II) complex and an unusual nickel(I) complex with a Dewar-benzene-type Ni2P2N2 backbone.

ZnPr(2) reacts with 1,2-(NHPPh(2))(2)C(6)H(4) (1) to give the bis-amido complex [Zn(THF){1-N(PPh(2))-2-N(mu-PPh(2))C(6)H(4)-kappa(3)N,N',P}](2) (3), while monolithiated 1 (prepared in situ from 1 and LiBu(n)) reacts with NiCl(2) with formation of the unusual nickel(I) complex [Ni{1-NH(PPh(2))-2-N(micro-PPh(2))C(6)H(4)-kappa(2)N,P}](2) (4), which has a Ni-Ni bond. Complexes 3 and 4 were structurally characterised. Furthermore, the structure of the sterically demanding bis-aminophosphine 1,2-(NHPMes(2))(2)C(6)H(4) (2, Mes = 2,4,6-Me(3)C(6)H(2)) is compared with that of the corresponding phenyl-substituted derivative 1,2-(NHPPh(2))(2)C(6)H(4) (1). B3LYP/LANL2DZ molecular orbital calculations on 4 indicate that a two-electron reduction should convert the Dewar-benzene-like six-membered Ni(2)N(2)P(2) ring 4 in to a benzene-like structure, a structure which is observed for the isoelectronic Zn(II) complex 3.

Beyond the Wade-Mingos Rules in Bare 10- and 12-Vertex Germanium Clusters: Transition States for Symmetry Breaking Processes.

The lowest energy structures of bare Gen(z) clusters (n = 10, 12; z = -6, 0, +2, +4) obtained using density functional theory (DFT) at the hybrid B3LYP level often are relatively low-symmetry polyhedra not readily recognizable by the Wade-Mingos rules. However, such optimized structures may arise from higher symmetry transition states through symmetry breaking processes. Thus the lowest energy structures for the Ge10(6)(-) and Ge12(6)(-) clusters with hyperelectronic arachno 2n + 6 skeletal electron counts are derived from pentagonal and hexagonal prism transition states, respectively, and retain the pentagonal and hexagonal faces of the prisms upon symmetry-breaking optimization. In addition, a variety of capped cube, prism, and antiprism transition states are found for the hypoelectronic Ge10(4+), Ge12, and Ge12(4+) clusters, which go to low-energy low-symmetry optimized structures, typically Cs or Ci, upon following the normal modes of the imaginary vibrational frequencies.

Density functional theory study of 10-atom germanium clusters: effect of electron count on cluster geometry.

Density functional theory (DFT) at the hybrid B3LYP level has been applied to Ge10z germanium clusters (z = -6, -4, -2, 0, +2, +4, +6) starting from 12 different initial configurations. The D4d 4,4-bicapped square antiprism found experimentally in B10H102- and other 10-vertex clusters with 22 skeletal electrons is calculated for the isoelectronic Ge102- to be the global minimum by more than 15 kcal/mol. The global minima found for electron-rich clusters Ge104- and Ge106- are not those known experimentally. However, experimentally known structures for nido-B10H14 and the pentagonal antiprism of arachno-Pd@Bi104+ are found at higher but potentially accessible energies for Ge104- and Ge106-. The global minimum for Ge10 is the C3v 3,4,4,4-tetracapped trigonal prism predicted by the Wade-Mingos rules and found experimentally in isoelectronic Ni@Ga1010-. However, only slightly above this global minimum for Ge10 (+3.3 kcal/mol) is the likewise C3v isocloso 10-vertex deltahedron found in metallaboranes such as (eta6-arene)RuB9H9 derivatives. Structures found for more electron-poor clusters Ge102+ and Ge104+ include various capped octahedra and pentagonal bipyramids. This study predicts a number of 10-vertex cluster structures that have not yet been realized experimentally but would be interesting targets for future synthetic 10-vertex cluster chemistry using vertex units isolobal with the germanium vertices used in this work.

Density functional study of 8- and 11-vertex polyhedral borane structures: comparison with bare germanium clusters.

Density functional theory (DFT) at the hybrid B3LYP level has been applied to the polyhedral boranes B(n)H(n)(z) (n = 8 and 11, z = -2, -4, and -6) for comparison with isoelectronic germanium clusters Ge(n)(z). The energy differences between the global minima and other higher energy borane structures are much larger relative to the case of the corresponding bare germanium clusters. Furthermore, for both B(8)H(8)(2-) and B(11)H(11)(2-), the lowest energy computed structures are the corresponding experimentally observed most spherical deltahedra predicted by the Wade-Mingos rules, namely the D(2)(d) bisdisphenoid and the C(2)(v) edge-coalesced icosahedron, respectively. Only in the case of B(8)H(8)(2-) is there a second structure close (+2.6 kcal/mol) to the D(2)(d) bisdisphenoid global minimum, namely the C(2)(v) bicapped trigonal prism corresponding to the "square" intermediate in a single diamond-square-diamond process that can lead to the experimentally observed room temperature fluxionality of B(8)H(8)(2-). Stable borane structures with 3-fold symmetry (e.g., D(3)(h), C(3)(v), etc.) are not found for boranes with 8- and 11-vertices, in contrast to the corresponding germanium clusters where stable structures derived from the D(3)(d) bicapped octahedron and D(3)(h) pentacapped trigonal prism are found for the 8- and 11-vertex systems, respectively. The lowest energy structures found for the electron-rich boranes B(8)H(8)(4-) and B(11)H(11)(4-) are nido polyhedra derived from a closo deltahedron by removal of a relatively high degree vertex, as predicted by the Wade-Mingos rules. They relate to isoelectronic species found experimentally, e.g., B(8)H(12) and R(4)C(4)B(4)H(4) for B(8)H(8)(4-) and C(2)B(9)H(11)(2-) for B(11)H(11)(4-). Three structures were found for B(11)H(11)(6-) with arachno type geometry having two open faces in accord with the Wade-Mingos rules.

Density functional theory study of eight-atom germanium clusters: effect of electron count on cluster geometry.

Density functional theory (DFT) at the hybrid B3LYP level has been applied to the germanium clusters Ge8z(z=-6, -4, -2, 0, +2, +4) using nine initial geometries. For Ge8(2-) the D2d bisdisphenoid structure predicted by the Wade-Mingos rules is not computed to be the global minimum but instead lies 3.9 kcal mol-1 above the Td tetracapped tetrahedron global minimum predicted to exhibit spherical aromaticity. The hyperelectronic clusters Ge(8)4- and Ge8(6-) have nido B8H12 and square antiprism structures, respectively, as global minima in accord with the Wade-Mingos rules and experimental data on E(8)2+(E=Sb, Bi) cations. Hypoelectronic eight-vertex clusters isoelectronic and isolobal with Ge8, Ge8(2+) and Ge(8)4+ are not known experimentally. Their computed structures include smaller polyhedra having one or more capped triangular faces as well as more open non-polyhedral structures.

Density functional theory study of 11-atom germanium clusters: effect of electron count on cluster geometry.

Density functional theory (DFT) at the hybrid B3LYP level has been applied to the germanium clusters Ge(11)(z) (z = -6, -4, -2, 0, +2, +4, +6) starting from eight different initial configurations. The global minimum within the Ge(11)(2-) set is an elongated pentacapped trigonal prism distorted from D(3)(h) to C(2v) symmetry. However, the much more spherical edge-coalesced icosahedron, also of C(2v) symmetry, expected by the Wade-Mingos rules for a 2n + 2 skeletal electron system and found experimentally in B(11)H(11)(2-) and isoelectronic carboranes, is of only slightly higher energy (+5.2 kcal/mol). Even more elongated D(3)(h) pentacapped trigonal prisms are the global minima for the electron-rich structures Ge(11)(4-) and Ge(11)(6-). For Ge(11)(4-) the C(5v) 5-capped pentagonal antiprism analogous to the dicarbollide ligand C(2)B(9)H(11)(2-) is of significantly higher energy (approximately 28 kcal/mol) than the D(3h) global minimum. The C(2v) edge-coalesced icosahedron is also the global minimum for the electron-poor Ge(11) similar to its occurrence in experimentally known 11-vertex "isocloso" metallaboranes of the type (eta(6)-arene)RuB(10)H(10). The lowest energy polyhedral structures computed for the more hypoelectronic Ge(11)(4+) and Ge(11)(6+) clusters are very similar to those found experimentally for the isoelectronic ions E(11)(7-) (E = Ga, In, Tl) and Tl(9)Au(2)(9-) in intermetallics in the case of Ge(11)(4+) and Ge(11)(6+), respectively. These DFT studies predict an interesting D(5h) centered pentagonal prismatic structure for Ge(11)(2+) and isoelectronic metal clusters.

Adsorption of 6-mercaptopurine and 6-mercaptopurine-ribosideon silver colloid: a pH-dependent surface-enhanced Raman spectroscopy and density functional theory study. II. 6-mercaptopurine-riboside.

Surface-enhanced Raman spectroscopy (SERS) has been applied to characterize the interaction of 6-mercaptopurine-ribose (6MPR), an active drug used in chemotherapy of acute lymphoblastic leukemia, with a model biological substrate at therapeutic concentrations and as function of the pH value. Therefore, a detailed vibrational analysis of crystalline and solvated (6MPR) based on Density Functional Theory (DFT) calculations of the thion and thiol tautomers has been performed. 6MPR adopts the thion tautomeric form in the polycrystalline state. The SERS spectra of 6MPR and 6-mercaptopurine (6MP) recorded on silver colloid provided evidence that the ribose derivative shows different adsorption behavior compared with the free base. Under acidic conditions, the adsorption of 6MPR on the metal surface via the N7 and possibly S atoms was proposed to have a perpendicular orientation, while 6MP is probably adsorbed through the N9 and N3 atoms. Under basic conditions both molecules are adsorbed through the N1 and possibly S atoms, but 6MP has a more tilted orientation on the silver colloidal surface while 6MPR adopts a perpendicular orientation. The reorientation of the 6MPR molecule on the surface starts at pH 8 while in the case of 6MP the reorientation starts around pH 6. Under basic conditions, the presence of the anionic molecular species for both molecules is suggested. The deprotonation of 6MP is completed at pH 8 while the deprotonation of the riboside is finished at pH 10. For low drug concentrations under neutral conditions and for pH values 8 and 9, 6MPR interacts with the substrate through both N7 and N1 atoms, possibly forming two differently adsorbed species, while for 6MP only one species adsorbed via N1 was evidenced.

Density functional theory study of nine-atom germanium clusters: effect of electron count on cluster geometry.

Density functional theory (DFT) at the hybrid B3LYP level has been applied to the germanium clusters Ge(9)(z) clusters (z = -6, -4, -3, -2, 0, +2, and +4) starting from three different initial configurations. Double-zeta quality LANL2DZ basis functions extended by adding one set of polarization (d) and one set of diffuse (p) functions were used. The global minimum for Ge(9)(2)(-) is the tricapped trigonal prism expected by Wade's rules for a 2n + 2 skeletal electron structure. An elongated tricapped trigonal prism is the global minimum for Ge(9)(4)(-) similar to the experimentally found structure for the isoelectronic Bi(9)(5+). However, the capped square antiprism predicted by Wade's rules for a 2n + 4 skeletal electron structure is only 0.21 kcal/mol above this global minimum indicating that these two nine-vertex polyhedra have very similar energies in this system. Tricapped trigonal prismatic structures are found for both singlet and triplet Ge(9)(6)(-), with the latter being lower in energy by 3.66 kcal/mol and far less distorted. The global minimum for the hypoelectronic Ge(9) is a bicapped pentagonal bipyramid. However, a second structure for Ge(9) only 4.54 kcal/mol above this global minimum is the C(2)(v)() flattened tricapped trigonal prism structure found experimentally for the isoelectronic Tl(9)(9)(-). For the even more hypoelectronic Ge(9)(2+), the lowest energy structure consists of an octahedron fused to two trigonal bipyramids. For Ge(9)(4+), the global minimum is an oblate (squashed) pentagonal bipyramid with two pendant Ge vertices.

(Tetrakis(2-pyridylmethyl)ethylenediamine)iron(II) perchlorate. Study of density functional methods.

On the basis of the data obtained by X-ray diffraction, the properties of two independent crystallographic subsystems in the [Fe(tpen)](ClO4)2.2/3H2O complex are studied in detail with the density functional method B3LYP. The energies of singlet, triplet, and quintet states at different temperatures are obtained, the influences of geometry on energy changes are analyzed, the regularity of the spin-state interconversions is investigated, and the effect of the triplet and action of the anion on spin crossover are discussed. This investigation demonstrates that (1) the energy difference between the high-spin state and singlet state decreases as the Fe-N distance and geometric distortion increase, (2) the spin-equilibrium system is predominantly in low-spin form below room temperature and the proportion of high-spin state rapidly increases above room temperature, (3) one of the two cation sites has a greater presence of the high-spin content, (4) the triplet state may be responsible for the fast rate of spin-state interconversions, and (5) the B3LYP method proves to be very adequate to study the spin-state transition of this complex.