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At least 397 records · Page 22Linked to original sources
PubMed2006

Transition metal-catalyzed nonoxidative decarboxylation reactions.

Decarboxylases typically utilize an organic cofactor or a transition metal coupled with dioxygen to activate their substrates. The recent characterization of alpha-amino-beta-carboxymuconate-epsilon-semialdehyde decarboxylase (ACMSD) has revealed that this enzyme adopts a TIM-barrel (beta/alpha)(8) fold and employs a mononuclear transition metal center to decarboxylate the substrate in an oxidant-independent fashion. Thus, ACMSD represents a type of decarboxylation reaction that has been so far uncharacterized in biological systems. Several close homologues of ACMSD were analyzed, including isoorotate decarboxylase (IDCase), 5-carboxyvanillic acid decarboxylase (5-CVD), gamma-resorcylate decarboxylase (gamma-RSD), and 4-oxalomesaconate hydratase (OMAH). These enzymes are involved in the catabolism of tryptophan and vanillate, the biodegradation of hydroxylbenzoates, and the thymidine salvage pathways in certain organisms. They possess the signature sequence motifs of the amidohydrolase superfamily and likely share the same structural and mechanistic characteristics as that of ACMSD. Analysis of the sequence conservation and evolutionary relationship of ACMSD-related proteins suggests an emerging ACMSD protein family that includes ACMSD and ACMSD-like decarboxylases and hydratases with diverse substrate specificities, many of which are poorly understood in regard to their functions and mechanisms. Progress in the biochemical and structural characterization of ACMSD not only sheds light on the active site of this protein family but also promises the elucidation of the detailed catalytic mechanism of these novel transition metal-dependent nonoxidative decarboxylation reactions.

Binding Sites↗
PubMedDate not supplied

Adding value to crystallographically-derived knowledge bases.

A protocol for the partially automated computational investigation of crystal structure geometries of transition-metal complexes with unusual/outlier structural features has been developed for application in an e-science context. This protocol not only is envisaged as a part of knowledge base software packages such as Mogul but can also be used to further analyze the results of database searches. The issues arising from automating the initial input generation and DFT optimization of complexes have been examined and a procedure for extracting additional knowledge "value" from the computational results is described. Potential problems/weaknesses arising from the choice of computational approach and from errors in the crystal structure refinement are discussed. A range of likely outcomes of applying this protocol to database mining results is illustrated, with representative examples identified for tetracoordinate transition-metal complexes and ligand fragments (terminal chloride, monodentate phosphorus(III), and primary amine ligands) with unusual metal-ligand bond lengths.

Computer Simulation↗
PubMed2002

In situ remediation of groundwater contaminated by heavy- and transition-metal ions by selective ion-exchange methods.

Laboratory studies were conducted to investigate the feasibility of using ion-exchange resins in permeable reactive barriers (PRBs) for the remediation of groundwater contaminated by heavy and transition metals. Ion-exchange resins represent an essentially neglected class of materials which may, in addition to iron, activated carbon, and zeolites, prove effective for use in PRBs. Four resins were considered: two commercially available resins, Duolite GT-73 (Rohm and Haas) and Amberlite IRC-748 (Rohm and Haas), and two solvent-impregnated resins (SIRs). The SIRs were prepared from Amberlite IRA-96 (Rohm and Haas) and two different thiophosphoric extractants. All four resins are able to reduce cadmium, lead, and copper concentrations from 1000 microg/L (typical for contaminated groundwaters) to below 5 microg/L. Significantly, all of the resins are effective for the capture of cadmium, copper, and lead, even in the presence of CaCl2 and clay. Because of their high hydraulic conductivity, the use of these resins in clusters of wells, as an alternative to continuous walls, is considered in the design of effective PRBs. Numerical solution of the groundwater flow equations shows that, depending on the well configuration, most (or all) of the contaminated groundwater can pass through the resins. These results demonstrate the possibility of using selective ion-exchange resins as an effective, active material in PRBs for in situ groundwater remediation.

Ion Exchange↗
PubMed2003

Impact of transition metals on reductive dechlorination rate of hexachloroethane by mackinawite.

Mackinawite, an iron monosulfide, has been shown to be a potential reductant for chlorinated organic compounds under anaerobic conditions. Chlorinated organic compounds are often found with inorganic contaminants. This study investigates the impact of various transition metals on the reductive dechlorination by mackinawite using a readily degradable chlorinated organic compound, hexachloroethane (HCA). Different classes of transition metals show distinct patterns in their impact on the HCA dechlorination: 10(-3) M Cr(III) and Mn(II) (hard metals) decreased the dechlorination rates, while 10(-4), 10(-3), and 10(-2) M Co(II), Ni(II), Cu(II), Zn(II), Cd(II), and Hg(II) (intermediate/soft metals) increased the rates. The tested hard metals, due to their weak affinity for sulfides, are thought to form surface precipitates of hydroxides around FeS under the experimental conditions with these hydroxides hindering the electron transfer between FeS and HCA. Due to their high affinity for sulfides, however, the tested intermediate/soft metals can react with FeS in various ways: precipitation of pure metal sulfides (MS), formation of metal-substituted FeS by lattice exchange, and coprecipitation of the mixed sulfides in a Fe-M-S system. Fe(II), released as a result of the interaction of FeS with intermediate/soft metals, enhances the HCA dechlorination at the doses of 10(-4) and 10(-3) M through sorbed or dissolved Fe(II) species, while Fe(OH)2(s) formed at the higher dose of 10(-2) M also enhances the reductive dechlorination. Rate increases observed in Co(II)-, Ni(II)-, and Hg(II)-amended systems are not simply explained by the formation of pure MS; instead, metal-substituted FeS or coprecipitated sulfides are thought to be responsible for the significantly increased rates observed in these systems.

Anthelmintics↗
PubMed2003

REMGa3Ge and RE3Ni3Ga8Ge3 (M = Ni, Co; RE = rare-earth element): new intermetallics synthesized in liquid gallium. X-ray, electron, and neutron structure determination and magnetism.

New quaternary intermetallic phases REMGa(3)Ge (1) (RE = Y, Sm, Tb, Gd, Er, Tm; M = Ni, Co) and RE(3)Ni(3)Ga(8)Ge(3) (2) (RE = Sm, Gd) were obtained from exploratory reactions involving rare-earth elements (RE), transition metal (M), Ge, and excess liquid Ga the reactive solvent. The crystal structures were solved with single-crystal X-ray and electron diffraction. The crystals of 1 and 2 are tetragonal. Single-crystal X-ray data: YNiGa(3)Ge, a = 4.1748(10) A, c = 23.710(8) A, V = 413.24(2) A(3), I4/mmm, Z = 4; Gd(3)Ni(3)Ga(8)Ge(3), a = 4.1809(18) A, c = 17.035(11) A, V = 297.8(3) A(3), P4/mmm, Z = 1. Both compounds feature square nets of Ga atoms. The distribution of Ga and Ge atoms in the REMGa(3)Ge was determined with neutron diffraction. The neutron experiments revealed that in 1 the Ge atoms are specifically located at the 4e crystallographic site, while Ga atoms are at 4d and 8g. The crystal structures of these compounds are related and could be derived from the consecutive stacking of disordered [MGa](2) puckered layers, monatomic RE-Ge planes and [MGa(4)Ge(2)] slabs. Complex superstructures with modulations occurring in the ab-plane and believed to be associated with the square nets of Ga atoms were found by electron diffraction. The magnetic measurements show antiferromagnetic ordering of the moments located on the RE atoms at low temperature, and Curie-Weiss behavior at higher temperatures with the values of mu(eff) close to those expected for RE(3+) free ions.

Electrons↗
PubMed2003

Ligand entrapment in twofold interpenetrating PtS matrixes by metallo-organic frameworks.

Single-crystal X-ray crystallography was used to determine the structures of four metallo-organic frameworks (MOFs). A dendritic tetradentate ligand (tetrakis(isonicotinoxymethyl)methane, TINM) was used with first-row transition-metal elements copper, nickel, and cobalt to synthesize MOFs with a PtS interpenetration, due to both planar and tetrahedral junctions being present in the framework. Two different polymeric complexes, 1 and 2, were obtained from similar starting materials, TINM and Cu(NO(3))(2).3H(2)O, but different solvents. The use of dichloromethane in addition to methanol and water promoted the coordination of nitrate ions to the copper. With only methanol and water used as solvent, the copper atom was coordinated to water molecules instead. Compound 1 has pores going through the structure in two dimensions, along crystallographic axes a and c with diameters of the pores (the diameters correspond to the minimum distances between van der Waals surfaces of opposing walls defined by projection along channel axis) approximately 1.0 x 3.1 and 2.5 x 3.7 A, respectively. Compound 2 has channels along all crystallographic axes. The dimensions of the channels are 3.2 x 3.7, 3.7 x 5.0, and 2.8 x 4.1 A, respectively. The structures of 3 and 4 entrap a large guest ligand molecule in the framework. The guest ligand is uncoordinated, although the pattern that the entrapped guests form brings the two arms of any two guests within close range. The lack of 3-fold penetration is due to only two arms being close to each other and also the fact that there is no space for an additional set of metal centers.

Journal Article↗
PubMed2005

A Schiff base expanded porphyrin macrocycle that acts as a versatile binucleating ligand for late first-row transition metals.

The coordination chemistry of the Schiff base polypyrrolic octaaza macrocycle 1 toward late first-row transition metals was investigated. Binuclear complexes with the divalent cations Ni(II), Cu(II), and Zn(II) and with the monovalent cation Cu(I) were prepared and characterized. Air oxidation of the Cu(I) ions in the latter complex to their divalent oxidation state resulted in a change in the coordination mode relative to the macrocycle.

Copper↗
PubMed2005

Comparative electronic band structure study of the intrachain ferromagnetic versus antiferromagnetic coupling in the magnetic oxides Ca3Co2O6 and Ca3FeRhO6.

In the (MM'O6)infinity chains of the transition-metal magnetic oxides Ca3MM'O6 the MO6 trigonal prisms alternate with the M'O6 octahedra by sharing their triangular faces. In the (Co(2O6)infinity chains of Ca3Co2O6 (M = M' = Co) the spins are coupled ferromagnetically, but in the (FeRhO6)infinity chains of Ca3FeRhO6 (M = Fe, M' = Rh) they are coupled antiferromagnetically. The origin of this difference was probed by carrying out spin-polarized density functional theory electronic band structure calculations for ordered spin states of Ca3Co2O6 and Ca3FeRhO6. The spin state of a (MM'O6)infinity chain determines the occurrence of direct metal-metal bonding between the adjacent trigonal prism and octahedral site transition-metal atoms. The extent of direct metal-metal bonding in the (Co2O6)infinity chains of Ca3Co2O6 is stronger in the intrachain ferromagnetic state than in the intrachain antiferromagnetic state, so that the intrachain ferromagnetic state becomes more stable than the intrachain antiferromagnetic state. Such a metal-metal-bonding-induced ferromagnetism is expected to occur in magnetic insulators and magnetic metals of transition-metal elements in which direct metal-metal bonding can be enhanced by ferromagnetic ordering. In the (FeRhO6)infinity chains of Ca3FeRhO6 the ferromagnetic coupling does not lead to a strong metal-metal bonding and the adjacent spins interact by the Fe-O...O-Fe super-superexchange, hence leading to an antiferromagnetic coupling.

Journal Article↗