Modes of coordination and stereochemistry of the NO3 − anions in inorganic nitrates

Stereochemical features of 950 nitrate groups in the structures of 365 inorganic nitrates were analyzed using TOPOS software. The types of coordination of nitrate groups are systematized by means of Voronoi-Dirichlet polyhedra and the method of intersecting spheres. Terminal coordination (53% of the total number of nitrate groups), most of all terminal bidentate coordination (47%) was found to prevail. Bridging nitrate groups occur less frequently (20%). A considerable number of nitrate groups are not incorporated in the coordination sphere of the complexing atom but form H-bonds or bonds of mainly ionic nature (27%). A number of metal cations show clear-cut tendency for a certain mode of coordination of the NO₃ group. Criteria for classification of nitrate groups into four types (slightly distorted groups and groups with monodentate, bidentate and asymmetric type distortion) are proposed. Structural features of nitrate groups depending on the mode of coordination are considered. The geometry of mono- or bidentate nitrate groups can differ appreciably from the typical one because of participation of terminal oxygen atoms in ionic or hydrogen bonds. Published in Russian in Izvestiya Akademii Nauk. Seriya Khimicheskaya, No. 3, pp. 429–440, March, 2008.     

3D coordination networks based on supramolecular chains as building units: synthesis and crystal structures of two silver(I) pyridyldiethynides

Two silver(I) pyridyldiethynides, [Ag2(3,5-C2PyC2).4CF3CO2Ag.4H2O] ( A) and [Ag 2(3,5-C2PyC2).3AgNO3.H2O](B), were synthesized by reactions of 3,5-diethynylpyridine with silver trifluoroacetate and silver nitrate in high yield, respectively. X-ray crystallographic studies revealed that in A pyridyldiethynide groups connect Ag 11 cluster units to generate 1D supramolecular chains as bridging ligands, where each ethynide group interacts with four silver atoms. These supramolecular chains bearing pyridyl groups are linked by silver ions to form wavelike layers, which are further connected by trifluoroacetate ligands to afford a 3D coordination network. However, B exhibits a different structural feature, where two ethynide groups in one pyridyldiethynide ligand coordinate to three and four silver atoms, respectively. These silver ethynide cluster units are linked through silver-ethynide and argentophilic interactions, leading to a double silver chain by sharing silver atoms in these units. In B, the silver double chains are further connected by bridging pyridyldiethynide groups to generate 2D networks, which interact through the Ag-N coordination bonds between silver atoms and pyridyl groups in the adjacent layers to generate a 3D coordination network. In these two compounds, trifluoroacetate and nitrate groups exhibit different bonding modes, indicating that the counterion is an important factor influencing the structures of supramolecular chains and coordination networks.     

The Crystal Structures of Two Polymorphic Forms of a Calcium(II) Complex with Pyridine-2,6-Dicarboxylate,Water and Nitrate Ligands

The calcium (II) complex: catena-mono(μ-pyridine-2,6-dicarboxylato-O:O:N;O') (diaqua-O)mono (nitrato-O:O)calcium(II) exists in two polymorphic forms. Each contains molecular ribbons in which adjacent Ca(II) ions are bridged by monodentate oxygen atoms donated by one carboxylate group of the pyridine-2,6-carboxylate ligand. Apart from this bridging oxygen atom, the Ca(II) ion is coordinated by two carboxylate oxygen atoms contributed by a different carboxylate group of the ligand molecule, the heteroring nitrogen atom, two water oxygen atoms and two oxygen atoms of a nitrate group giving rise to a distorted pentagonal bipyramid as a coordination polyhedron. The structures of the polymorphic modifications differ in the way in which the nitrate ligands are oriented with respect to the equatorial planes of the adjacent Ca(II) coordination polyhedra: the trans mode in the α-form; the cis mode in the β-form. In both forms, hydrogen bonds operate between the carboxylate oxygen atoms, water oxygen atoms and nitrate oxygen atoms.     

Synthesis and structure of two lanthanide complexes with isonicotinic acid N-oxide (HL): [Ln(L)2(H2O)4]n·(NO3)n·n(H2O) (Ln = Sm or Tb)

Two new lanthanide complexes of isonicotinic acid N-oxide (HL), namely [Ln(L)₂(H₂O)₄]_n·(NO₃)_n·n(H₂O) for Ln = Sm or Tb, have been synthesized and characterized by spectroscopic and crystallographic methods. IR spectra suggest that isonicotinic acid N-oxide acts as a O,O′-bidentate ligand, the N-oxide group as well as the nitrate group are not involved in coordination. Single crystal analyses have shown that both complexes are isomorphous, where the Ln(III) centers are eight coordinated by four O atoms of four water ligands and other four O atoms of two isonicotinic acid N-oxide ligands. The carboxylate groups are only involved in the bidentate syn–syn bridging mode into infinite chains. Hydrogen bonds between aqua ligands, lattice molecules, nitrate and N-oxide groups are formed giving a three-dimensional network.     

Synthesis, structure, and complexation of a large 28-mer macrocycle containing two binding sites for either anions or metal ions

The "one-pot" synthesis and characterization of a large 28-mer macrocycle (H(4)L(2)) with oxamido units capable of complexing guest ions through oxygen or nitrogen donor atoms is reported. Single-crystal structure determination of H(8)L(2)(NO(3))(4) and (Cu(2)[H(2)L(2)](H(2)O)(2))(NO(3))(2) demonstrated that the macrocycle contains two sites capable of complexing two nitrate anions or two copper(II) ions, involving a large structural reorganization in the conformation of the macrocyclic framework on coordination of the copper(II) ions when compared to the nitrate. Electrochemical and magnetic susceptibility measurements on the dinuclear Cu(II) complex and the related mononuclear and trinuclear Cu(II) complexes derived from the related 14-mer macrocycle were carried out and illustrate the role of the oxamido groups in mediating metal-metal interaction and delocalization.     

Crystal structure of 4,4-bipyridine-containing complexes of copper(II) nitrate with 1-[(2-Hydroxyethylimino)methyl]naphthalen-2-ol and 2-[(2-hydroxyethylimino)methyl]phenol

The crystal structures of (μ-4,4-bipyridine)-di(nitrato-1-[(2-hydroxyethylimino)methyl]naphthalen-2-olocopper (I) and catena-di(μ-4,4’-bipyridine)di(μ-4,4’-bipyridine)-di(nitrato-2-[2-(hydroxyethylimino) methyl]phenolocopper)diaquacopper(II) nitrate (II) were determined. In the crystal of I, each of the two copper atoms coordinates a singly deprotonated tridentate azomethine molecule, a nitrate ion, and bipyridine, which functions as a bridge between the central atoms. The copper coordination polyhedron is a slightly distorted tetragonal pyramid with the base formed by the imine and bipyridine nitrogen atoms and the phenol and alcohol oxygen atoms. The axial site in the pyramid is occupied by the oxygen atom of the monodentate nitrate groups. In the trinuclear structure II with C₂ crystal chemical symmetry, the terminal coordination unit is composed through copper coordination of monodeprotonated 2-[2-(hydroxyethylimino)methyl]phenol, bipyridine, and the nitrate anion. In the crystal, the trinuclear molecules form infinite ribbons along the z axis in which the pyridine molecules perform the bridging function. The central copper atom has an octahedral configuration formed by the nitrogen atoms of four 4,4’-bipyridine molecules and oxygen of two water molecules.     

Synthesis and Crystal Structure of Neodymium Complex ［Nd（C_6H_4OHCHNC_2H_4NCHC_6H_4OH）（NO_3）_3（CH_3SOCH_3）］

ＳｙｎｔｈｅｓｉｓａｎｄＣｒｙｓｔａｌＳｔｒｕｃｔｕｒｅｏｆＮｅｏｄｙｍｉｕｍＣｏｍｐｌｅｘ［Ｎｄ（Ｃ_６Ｈ_４ＯＨＣＨＮＣ_２Ｈ_４ＮＣＨＣ_６Ｈ_４ＯＨ）（ＮＯ_３）_３（ＣＨ_３ＳＯＣＨ_３）］ＺＨＡＮＧＭｉｎ；ＫＯＮＧＦａｎ－Ｒｏｎｇ；ＺＨＵＨｕｉ－Ｊ...     

Complexation of lanthanides(III), americium(III), and uranium(VI) with bitopic N,O ligands: an experimental and theoretical study

New functionalized terpyridine-diamide ligands were recently developed for the group actinide separation by solvent extraction. In order to acquire a better understanding of their coordination mode in solution, protonation and complexation of lanthanides(III), americium(III), and uranium(VI) with these bitopic N,O-bearing ligands were studied in homogeneous methanol/water conditions by experimental and theoretical approaches. UV-visible spectrophotometry was used to determine the protonation and stability constants of te-tpyda and dedp-tpyda. The conformations of free and protonated forms of te-tpyda were investigated using NMR and theoretical calculations. The introduction of amide functional groups on the terpyridine moiety improved the extracting properties of these new ligands by lowering their basicity and enhancing the stability of the corresponding 1:1 complexes with lanthanides(III). Coordination of these ligands was studied by density functional theory and molecular dynamics calculations, especially to evaluate potential participation of hard oxygen and soft nitrogen atoms in actinide coordination and to correlate with their affinity and selectivity. Two predominant inner-sphere coordination modes were found from the calculations: one mode where the cation is coordinated by the nitrogen atoms of the cavity and by the amide oxygen atoms and the other mode where the cation is only coordinated by the two amide oxygen atoms and by solvent molecules. Further simulations and analysis of UV-visible spectra using both coordination modes indicate that inner-sphere coordination with direct complexation of the three nitrogen and two oxygen atoms to the cation leads to the most likely species in a methanol/water solution.     

Effect of nitrate, perchlorate, and water on uranyl(VI) speciation in a room-temperature ionic liquid: a spectroscopic investigation

Room-temperature ionic liquids form potentially important solvents in novel nuclear waste reprocessing methods, and the solvation, speciation, and complexation behaviors of lanthanides and actinides in these solvents are of great current interest. In the study reported here, the coordination environment of uranyl(VI) in solutions of the room-temperature ionic liquid 1-ethyl-3-methylimidazolium bis(trifluoromethylsulfonyl)imide ([EMIM][Tf(2)N]) containing perchlorate, tetrabutylammonium nitrate, and water was investigated using Raman, ATR-FTIR, and NMR spectroscopies in order to better understand the role played in uranyl(VI) solution chemistry in room-temperature ionic liquids by water and other small, weakly complexing ligands. The (2)H NMR chemical shift for water in a solution of uranyl perchlorate hexahydrate in [EMIM][Tf(2)N] appears at 6.52 ppm, indicating that water is coordinated to uranyl(VI). A broad ν(OH) stretching mode at 3370 cm(-1) in the ATR-FTIR spectrum shows that this coordinated water is engaged in hydrogen bonding with water molecules in a second coordination sphere. A significant upfield shift in the (2)H NMR signal for water and the appearance of distinct ν(as)(HOH) (at 3630 cm(-1)) and ν(s)(HOH) (at 3560 cm(-1)) vibrational bands in the ATR-FTIR spectra show that coordinated water is displaced by nitrate upon formation of the UO(2)(NO(3))(2) and UO(2)(NO(3))(3)(-) complexes. The Raman spectra indicate that perchlorate complexed to uranyl(VI) is also displaced by nitrate. Our results indicate that perchlorate and water, though weakly complexing ligands, do have a role in uranyl(VI) speciation in room-temperature ionic liquids and that Raman, infrared, and NMR spectroscopies are valuable additions to the suite of tools currently used to study the chemical behavior of uranyl(VI)-ligand complexes in these solvents.     

Mn(II) ion centers in novel coordination environment: a new two-dimensional coordination polymer [Mn(3,5-pdc)·2H2O]

The hydrothermal synthesis and structure of the coordination polymer [Mn(3,5-pdc)·2H₂O] (3,5-pdc=3,5-pyridinedicarboxylic acid) with a novel seven-coordination mode of Mn(II) ion is reported. The metal ion center is in the pentagonal bipyramid coordination environment. Oxygen atoms from two waters hold the axial sites, and four oxygen atoms from two chelated carboxylic groups and one nitrogen atom from one pyridine ring occupy the five planar sites. This novel coordination environment of Mn(II) ion may be due to the smaller steric effect of chelated carboxylic groups. Each 3,5-pdc ligand is in the same coordination mode to bridge three Mn(II) ion centers and lead to two-dimensional layers with water molecules between the layers. Hydrogen bonds, which are generated by these water molecules and carboxylic groups, connect the layers to form a three-dimensional structure.     

Synthesis,characterization, and crystal structures of two new divalent metal complexes of N,N'-bis(phosphonomethyl)-1,10-diaza-18-crown-6: a hydrogen-bonded 1D array and a 3D network with a large channel

Reaction of N,N'-bis(phosphonomethyl)-1,10-diaza-18-crown-6 (H(4)L) with copper(II) acetate in 1:1 ethanol/water mixed solvents afforded a new crystal-engineered supramolecular metal phosphonate, Cu(H(2)L) (complex 1). By reaction of the same ligand with cadmium(II) nitrate in a 2:1 (M/L) ratio in methanol, a cadmium(II) complex with a 3D network structure was isolated, Cd(2.75)(L)(H(2)O)(7) x 1.5NO(3) x 7H(2)O x MeOH (complex 2). The copper(II) complex crystallized in the monoclinic space group P2(1)/c, with a =10.125(4), b = 14.103(6), and c = 14.537(6) A, beta = 91.049(8) degrees, V = 2075.4(16) A(3), and Z = 2. The Cu(II) ions in complex 1 are 6-coordinated by two phosphonate oxygen atoms, two nitrogen, and two oxygen atoms from the crown ether ring. Their coordination geometry can be described as Jahn-Teller-distorted octahedral, with elongated Cu-O(crown) distances (2.634(4) and 2.671(4) A for Cu(1) and Cu(2), respectively). The other two crown oxygen atoms remain uncoordinated. Neighboring two Cu(H(2)L) units are further interlinked via a pair of strong hydrogen bonds between uncoordinated phosphonate oxygen atoms, resulting in a one-dimensional supramolecular array along the a axis. The cadmium(II) complex is tetragonal, P4(2)/n (No. 86) with a = 20.8150(9) and c = 18.5846(12) A, V = 8052.0(7) A(3), and Z = 8. Among four cadmium(II) atoms in an asymmetric unit, one is 8-coordinated by four chelating phosphonate groups, the second one is 8-coordinated by 6 coordination atoms from a crown ring and two oxygen atoms from two phosphonate groups, the third Cd(II) atom is octahedrally coordinated by three aqua ligands and three phosphonate oxygen atoms from three phosphonate groups, and the fourth one is 6-coordinated by four aqua ligands and two oxygen atoms from two phosphonate groups in a distorted octahedral geometry. These cadmium atoms are interconnected by bridging phosphonate tetrahedra in such a way as to form large channels along the c direction, in which the lattice water molecules, methanol solvent, and nitrate anions reside. The effect of extent of deprotonation of phosphonic acids on the type of complex formed is also discussed.     

Complexes of zinc,cadmium and mercury(II) with the zwitter-ionic form of NN′-ethylenebis (salicylideneimine)

The Schiff base NN′-ethylenebis(salicylideneimine), H₂ salen reacts with hydrous and anhydrous Zinc, Cadmium and Mercury(II) salts to give complexes M(H₂ salen)X₂·nH₂O (M = Zn, Cd, Hg; XCl, Br, I, NO₃; MZn, X₂SO₄; n = 0?2). Spectroscopic and other evidence indicated that; (i) halide and sulphate are coordinated to the metal ion, whereas the nitrate group is ionic in mercury nitrate compound and covalently bonded in zinc and cadmium nitrato complexes, (ii) the Schiff base is coordinated through the negatively charged phenolic oxygen atoms and not the nitrogen atoms, which carry the protons transferred from phenolic groups on coordination, (iii) therefore the coordination numbers suggested are 4-, in mercury and 4- or 6- in zinc and cadmium Schiff base complexes.     

Complexes of first row transition metals withMeso-1,2-bis(propylsulphinyl)ethane

Summary Fourteen new complexes were prepared involving metals from vanadium to zinc and the ligandmeso-1,2-bis(propylsulphinyl) ethane. Whereas the mode of coordination of the sulphoxide to the metal is always the same (via the oxygen atoms), an unusual coordination scheme prevails in two of the complexes containing the nitrate group, which acts both as a counter ion and as a coordinated ligand.     

Coordination Numbers of Central Atoms in Coordination Compounds

A sample of structurally characterized 10000 complexes (X-ray diffraction data) was carefully selected from available databases for analysis of coordination numbers (CNs) of their central atoms (complexing agents). The coordination numbers of various chemical elements are tabulated for their different oxidation numbers (ONs). Variations in CN with the ordinal number of an element in the Periodic Table were followed. A general distribution of the sample complexes over the CNs of the central atom, as well as their distributions for particular ONs, is displayed. References to particular coordination compounds are given for extreme and very uncommon CNs of a central atom with different ONs. A general pattern of the observed variations in the CN of chemical elements can be useful for predicting the properties of complexes, constructing their stability models, designing compounds with rich and unique properties, and developing retrieval and graphic tools for chemical databases.     

Structural modulation of Cu(I) and Cu(II) complexes of sterically hindered tripyridine ligands by the bridgehead alkyl groups

Structures of Cu(I) and Cu(II) complexes of sterically hindered tripyridine ligands RL = tris(6-methyl-2-pyridyl)methane (HL), 1,1,1-tris(6-methyl-2-pyridyl)ethane (MeL), and 1,1,1-tris(6-methyl-2-pyridyl)propane (EtL), [Cu(RL)(MeCN)]PF(6) (1-3), [Cu(RL)(SO(4))] (4-6), and [Cu(RL)(NO(3))(2)] (7-9), have been explored in the solid state and in solution to gain some insights into modulation of the copper coordination structures by bridgehead alkyl groups (CH, CMe, and CEt). The crystal structures of 1-9 show that RL binds a copper ion in a tridentate facial-capping mode, except for 3, where EtL chelates in a bidentate mode with two pyridyl nitrogen atoms. To avoid the steric repulsion between the bridgehead alkyl group and the 3-H(py) atoms, the pyridine rings in Cu(I) and Cu(II) complexes of MeL and EtL shift toward the Cu side as compared to those in Cu(I) and Cu(II) complexes of HL, leading to the significant differences in the nonbonding interatomic distances, H.H (between the 3-H(py) atoms), N.N (between the N(py) atoms), and C.C (between the 6-Me carbon atoms), the Cu-N(py), Cu-N(MeCN), and Cu-O bond distances, and the tilt of the pyridine rings. The copper coordination geometries in 4-6, where a SO(4) ligand chelates in a bidentate mode, are varied from a square pyramid of 4 to distorted trigonal bipyramids of 5 and 6. Such structural differences are not observed for 7-9, where two NO(3) ligands coordinate in a monodentate mode. The structures of 1-9 in solution are investigated by means of the electronic, (1)H NMR, and ESR spectroscopy. The (1)H NMR spectra show that the structures of 1-3 in the solid state are kept in solution with rapid coordination exchange of the pyridine rings. The electronic and the ESR spectra reveal the structural changes of 5 and 6 in solution. The bridgehead alkyl groups and 6-Me groups in the sterically hindered tripyridine ligand play important roles in modulating the copper coordination structures.     

基于4H-1,2,4-三氮唑-4-乙酸配体的两个新的过渡金属配位聚合物的合成、结构与性质(英文)

用水热方法合成了两个新的配位聚合物[Co(trza)](1)和[Ni(trza)(H2O)2](2)(Htrza=4H-1,2,4-三氮唑-4-乙酸).单晶X-射线衍射结构分析表明:化合物1和2具有二维(2D)层状结构.在1中,Co(II)离子采用六配位方式,分别与来自两个不同配体(trza)上的两个氮原子和四个羧基氧原子配位,形成八面体配位聚合物,每个羧基以二齿桥联方式连接两个Co原子,形成1D链,这些一维链进一步与唑环上的N原子形成2D层状结构.在2中,中心Ni(II)离子采用同样的配位模式形成八面体配位聚合物,与1不同的是:来自两个配体阴离子(trza)上的两个羧基氧原子分别被两个配位水分子所取代,且配体上的羧基氧原子采用的是单齿配位模式.化合物1的变温磁化率测定表明了金属间弱的反铁磁相互作用.此外,两个配位聚合物的IR光谱、热稳定性以及化合物1的磁性质也被测定.     

Heterocyclic substituted thiosemicarbazones and their Cu(II) complexes: Synthesis,characterization and studies of substituent effects on coordination and DNA binding

By reacting thiosemicarbazides substituted on the aminic nitrogen with 5-formyluracil, several new 5-formyluracil thiosemicarbazones (H₃ut) derivatives were synthesised and characterized. These ligands, treated with copper chloride and nitrate, afforded two different kinds of compounds. In the complexes derived from copper chloride the metal atom is pentacoordinated, being surrounded by the neutral ligand binding through SNO donor atoms and by two chlorines, while the nitrate derivatives consist of monocations and nitrate anions. The copper coordination (4 + 2) involves the SNO ligand atoms, two water oxygens and an oxygen atom of a monodentate nitrate group. On varying the substituents on the thiosemicarbazidic moiety, remarkable modifications of the coordination geometry are not observed for the complexes with the same counterion. For all the compounds, interactions with DNA (calf thymus) were studied using UV–Vis spectroscopy; the nuclease activity was verified on plasmid DNA pBR 322 by electrophoresis.     

Synthesis,characterization and fluorescence studies of Th(IV) complexes of Schiff bases derived from 2,6-diformyl-4-methyl phenol and 3-substituted-4-amino-5-mercapto-1,2,4-triazoles

Thorium(IV) complexes have been synthesized by reacting Th(IV) nitrate with Schiff bases derived from 2,6-diformyl-4-methyl phenol and 3-substituted-4-amino-5-mercapto-1,2,4-triazoles in ethanol. These complexes have been characterized on the basis of elemental analyses, molar conductance and spectral studies. Analytical and spectral data suggest structures in which Th(IV) is six-coordinate, which is supported by coordination of seven nitrate ions with one bidentate, hydroxyl group of 2,6-diformyl-4-methyl phenol in a bidentate fashion and two azomethine groups through nitrogen atoms. The fluorescence and solid state electrical conductivity properties have been studied.     

Silver(I) coordination chemistry of 2,6-diarylpyrazines. Pi-stacking,anion coordination,and steric control

The silver(I) coordination chemistry of 2,6-diarylpyrazines is reported. Discrete coordination complexes and two-dimensional coordination networks were characterized. The substitution pattern on the pendant aryl groups controlled the type of coordination chemistry involved. Thus, o-methyl-substituted aryl groups held the aryl groups orthogonal to the central pyrazine ring, opening the "hindered" nitrogen atoms to complexation, and polymeric networks were characterized. In the absence of the o-methyl groups, discrete coordination complexes were characterized. Thus, a dimeric 2:1 ligand-silver(I) complex was isolated and characterized on reaction of 2,6-bis(3',5'-dimethylphenyl)pyrazine with silver(I) trifluoroacetate in acetonitrile solvent, while a 2:2 complex was isolated from dichloromethane solvent. Two trifluoroacetate ligands bridge two silver cations in both complexes. Reaction of the same pyrazine ligand with silver(I) tetrafluoroborate yielded a discrete 2:1 complex. A 2:1 complex was isolated on reaction of 2,6-diphenylpyrazine with silver(I) nitrate. These complexes were interlinked by weakly coordinating nitrate anions to form interwoven one-dimensional ribbons. Two-dimensional networks were obtained on reaction of silver(I) trifluoroacetate with either 2,6-bis(2',6'-dimethylphenyl)pyrazine or 2-(2',6'-dimethylphenyl)-6-(3',5'-dimethylphenyl)pyrazine. The networks comprised pyrazine-silver(I) strands cross-linked with complex bridged silver(I) trifluoroacetates.     

Synthesis and Characterization of a New Symmetric Dinucleating Ligand and Its Dizinc(Ⅱ)Complex with Alkoxo and Carboxylate Bridges

<正>A novel dinuclear zinc(Ⅱ)complex[Zn_2L(μ-OAc)](PF_6)_2(CH_3OH)has been synthesized from a new symmetrical compartmental ligand HL in which the pendant arms,bearing pyridyl groups,are bridged by 1,3-diaminopropan-2-ol.X-ray crystal structure shows that the two zinc atoms reside within the adjacent ligand compartments and are bridged by the endogenous alkoxo-O from ligand and one exogenous carboxylate from acetate with a syn-syn mode.The coordination geometry of two zinc atoms is a distorted trigonal bipyramid with the pyridyl-N atoms and bridging alkoxo-O atom providing the equatorial donor set.Such coordination geometry observed in this complex is similar to that found in the dinuclear unit of phospholipase C.