Structure and Kinetic Analysis of H2S Production by Human Mercaptopyruvate Sulfurtransferase

Mercaptopyruvate sulfurtransferase (MST) is a source of endogenous H₂S, a gaseous signaling molecule implicated in a wide range of physiological processes. The contribution of MST versus the other two H₂S generators, cystathionine β-synthase and γ-cystathionase, has been difficult to evaluate because many studies on MST have been conducted at high pH and have used varied reaction conditions. In this study, we have expressed, purified, and crystallized human MST in the presence of the substrate 3-mercaptopyruvate (3-MP). The kinetics of H₂S production by MST from 3-MP was studied at pH 7.4 in the presence of various physiological persulfide acceptors: cysteine, dihydrolipoic acid, glutathione, homocysteine, and thioredoxin, and in the presence of cyanide. The crystal structure of MST reveals a mixture of the product complex containing pyruvate and an active site cysteine persulfide (Cys²⁴⁸-SSH) and a nonproductive intermediate in which 3-MP is covalently linked via a disulfide bond to an active site cysteine. The crystal structure analysis allows us to propose a detailed mechanism for MST in which an Asp-His-Ser catalytic triad is positioned to activate the nucleophilic cysteine residue and participate in general acid-base chemistry, whereas our kinetic analysis indicates that thioredoxin is likely to be the major physiological persulfide acceptor for MST.     

Strain in organometallics II: controlling the properties of tetra-coordinated iridium complexes using diastereomers of a bis(tropp) ligand system

The tetra-chelating ligands 1,2-bis[(5H-dibenzo[a,d]cyclohepten-5-yl)phenylphosphanyl]-ethane, bis(tropp^Ph)ethane, and 1,3-bis[(5H-dibenzo[a,d]cyclohepten-5-yl)phenylphosphanyl]-propane, bis(tropp^Ph)propane, were synthesised. For the binding of transition metals, these ligands offer two olefin moieties and two phosphorus centres and form mixtures of diastereomers with a R,S-configuration at the phosphorus centres (meso), or a R,R(S,S)-configuration (rac), respectively. meso/rac-bis(tropp^Ph)ethane was separated by fractional crystallisation and reacted with [Ir(cod)₂]OTf (cod=cylcooctadiene, OTf⁻=CF₃SO₃ ⁻) to give the penta-coordinated complex-cations meso/rac-[Ir(bis(tropp^Ph)ethane)(cod)]⁺, where the bis(tropp^Ph)ethane serves as tridentate ligand merely. One olefin unit remains non-bonded, however, a slow intra-molecular exchange between this olefin and the coordinated olefin unit was established (meso-[Ir(bis(tropp^Ph)ethane)(cod)]⁺: k<0.5 s⁻¹; rac-[Ir(bis(tropp^Ph)ethane)(cod)]⁺: k≈35 s⁻¹). The ligand meso/rac-bis(tropp^Ph)propane reacts with [Ir(cod)₂]OTf to give the corresponding complexes containing the tetra-coordinated 16-electron complex-cations meso/rac-[Ir(bis(tropp^Ph)propane)]⁺. The diastereomers were separated by fractional crystallisation. The complex rac-[Ir(bis(tropp^Ph)propane)]⁺ is reduced at relatively low potentials (E¹_1/2=−0.95 V, E²_1/2=−1.33 V versus Ag/AgCl) to give the neutral 17-electron complex [Ir(bis(tropp^Ph)propane)]⁰ and the 18-electron anionic iridate [Ir(bis(tropp^Ph)propane)]⁻, respectively. With acetonitrile, [Ir(bis(tropp^Ph)propane)]⁺ reacts to give the penta-coordinated complex rac-[Ir(MeCN)(bis(tropp^Ph)propane)]⁺ (K=45 M⁻¹, k_f=6×10³ M⁻¹ s⁻¹, k_d=1×10² s⁻¹) and with chloride to yield the relatively stable complex rac-[Ir(Cl)(bis(tropp^Ph)propane)] (k_d<0.5 s⁻¹). Compared to the rac-isomer, the meso-[Ir(bis(tropp^Ph)propane)]⁺ shows significantly cathodically shifted reduction potentials (E¹_1/2=−1.25 V, E²_1/2=−1.64 V versus Ag/AgCl), an acetonitrile complex could not be detected, and the chloro-complex, meso-[Ir(Cl)(bis(tropp^Ph)propane)], is much more labile (k_d≈20′000 s⁻¹). meso-[Ir(bis(tropp^Ph)propane)]⁺ reacts with one equivalent H₂ to give the trans-dihydride complex-cation, meso-[Ir(H)₂(bis(tropp^Ph)propane)]⁺, while the rac-isomer, rac-[Ir(bis(tropp^Ph)propane)]+, reacts with two equivalents H₂ to give rac-{Ir(H)₂(OTf)[(tropp^Ph)(H₂tropp^Ph)propane]}, a cis-dihydride complex containing a hydrogenated 10,11-dihydro-5H-dibenzo[a,d]cycloheptene unit, H₂tropp^Ph. The triflate anion in this complex is rather firmly bound and dissociates only slowly (k=29 s⁻¹). All differences between the different stereoisomers are attributed to the fact that the ligand backbone in the meso-isomer, meso-[Ir(bis(tropp^Ph)propane)]⁺, enforces a planar coordination sphere at the metal. On the contrary, already in the tetra-coordinated rac-[Ir(bis(tropp^Ph)propane)]⁺, the metal has a tetrahedrally distorted coordination sphere which does not impede the reduction to the d⁹-Ir(0) and d¹⁰-Ir(−1) complexes and allows more easily a distortion towards a trigonal bipyramidal (tbp) or octahedral structure for penta- or hexa-coordinated complexes, respectively. A comparison of the NMR data for iridium bonded olefins in equatorial or axial positions in tbp structures shows that the latter experience only modest metal-to-ligand back-donation, while the olefins in the equatorial positions have a high degree of metallacyclopropane character.     

The use of trimethylsilyl iodide as a synthon in coordination chemistry

Trimethylsilyl iodide is shown to be an efficient metathetical reagent for preparing transition-metal iodides from the corresponding chlorides, though often complications can cause problems. These include reduction of the starting metal chloride when its oxidation state is high, due to the reaction of iodide, and even oxidation of low-oxidation-state compounds, presumably by incipient silyl cations. Finally, some very inert chlorides, such as of iridium(III), react too slowly with the iodide under the experimental conditions, and simple reaction with solvent becomes predominant.     

Synthesis, crystal structures and properties of substituted-pyridyl functionalized bis(ethylenedithio)tetrathiafulvalene derivatives and their corresponding Ni(II) and Co(II) complexes

Three substituted-pyridyl functionalized bis(ethylenedithio)tetrathiafulvalene (BEDT-TTF) derivatives 1-3 and their corresponding Ni(II) and Co(II) complexes have been synthesized and characterized. Their electrochemical properties in CH₂Cl₂ solution have been investigated by cyclic voltammetry and two reversible single-electron oxidation waves for the TTF moiety are observed. Crystal structure analyses were carried out for compound 2 as well as for the Co(II) complex of 1 (7).     

Synthesis, characterization, spectroscopy, electronic and redox properties of a new nickel dithiolene system

A new dithiolene ligand with 3,5-dibromo substituted phenyl groups was designed and synthesized. The protected form of the ligand was reacted with a nickel salt providing neutral Ni(S₂C₂(3,5-C₆H₃Br₂)₂)₂ and anionic [Ni(S₂C₂(3,5-C₆H₃Br₂)₂)₂]⁻ isolated as a Bu₄N⁺ salt. Both were characterized by UV-Vis and IR spectroscopy and compared with the similar known molecular systems. They exhibit intense low energy transitions that are characteristic of such systems. The electrochemical behavior of these molecules was investigated by cyclic voltammetry.     

Synthesis, structure and properties of TTF-carboxylate bridged paddlewheel dirhodium complexes, Rh2(BuCO2)3(TTFCO2) and Rh2(BuCO2)2(TTFCO2)2

Reaction of tetrathiafulvalene carboxylic acid (TTFCO₂H) with paddlewheel dirhodium complex Rh₂(Bu^tCO₂)₄ yielded TTFCO₂-bridged complexes Rh₂(Bu^tCO₂)₃(TTFCO₂) (1) and cis- and trans-Rh₂(Bu^tCO₂)₂(TTFCO₂)₂ (cis- and trans-2). Their triethylamine adducts [1(NEt₃)₂] and cis-[2(NEt₃)₂] were purified and isolated with chromatographic separation, and characterized with single crystal X-ray analysis. Trans-[2(NEt₃)₂] is not completely separated from a mixture of cis- and trans-[2(NEt₃)₂], but its single crystals were obtained from a solution of the mixture. A three-step quasi-reversible oxidation process was observed for 1 in MeCN. The first two steps correspond to the oxidation of the TTFCO₂ moiety and the last one is the oxidation of the Rh₂ core. The oxidation of cis-2 is observed as a two-step process with very similar E_1/2 values to those of the first two processes for 1. Both 1⁺ and cis-2²⁺ in MeCN at room temperature show isotropic ESR spectra with a g value of 2.008 and a_H = 0.135 mT for two equivalent H atoms and a_H = 0.068 mT for one H atom. The redox and ESR data of cis-2 suggest that the intramolecular interaction between the TTF moieties is very small.     

Synthesis, characterization, and luminescence properties of magnesium coordination networks using a thiophene-based linker

By varying the solvents and temperatures under solvothermal conditions, two new magnesium based coordination networks were synthesized using 2,5-thiophenedicarbxoylate as a linker. Mg₃(TDC)₃(DMF)₃ [1; TDC = 2,5 thiophenedicarboxylate; space group P2₁/c, a = 17.747(4) Å, b = 9.805(2) Å, c = 21.359(4) Å, β = 103.13(3)°] is constructed by a combination of magnesium polyhedral trimers, which are connected by the TDC²⁻ linkers to form a 3-D network. Coordinated DMF molecules are present within the channels. Mg(TDC)(H₂O)₂ [2; space group Pnma, a = 7.296(4) Å, b = 17.760(4) Å, c = 6.6631(3) Å] is formed by 1-D chains of magnesium octahedra connected by the TDC²⁻ linker. Water molecules are coordinated at the axial positions of the magnesium octahedra. Compound 1 is formed using DMF as the synthesis solvent at 180 °C, while compound 2 is formed using ethanol as the synthesis solvent at 100 °C. Both compounds show enhanced photoluminescence intensity when excited at 397 nm compared to the free TDC ligand, suggesting a charge transfer between the ligand and the magnesium metal center.     

Structural and thermal properties of three novel alkaline earth metal coordination polymers based on 5-hydroxyisophthalate ligand

Three novel coordination polymers [Ca(5-OH-BDC)(H₂O)₃] · H₂O (1), [Sr(5-OH-BDC)(H₂O)₄] · H₂O (2) and [Ba(5-OH-BDC)(H₂O)₃] (3) were obtained by self-assembly of the corresponding alkaline earth metal chlorate with a ligand, 5-hydroxyisophthalic acid (5-OH-H₂BDC), and their structures were determined by X-ray crystallography. The results revealed that complexes 1, 2 and 3 have two-dimensional network with (6, 3) topology observed in the bc plane. Moreover, the two-dimensional layers can be assembled into three-dimensional supramolecular architectures via intermolecular hydrogen bonds. The two carboxylate groups of 5-OH-BDC²⁻ ligand adopt the same coordination mode in complex 1 as that in 2: a μ3-η2:η1 mode and a chelated mode while in complex 3 they coordinate to Ba(II) ions in a μ3-η2:η1 mode and a monodentate mode, which is not observed in previous reports. The constant-volume combustion energies, Δ_cU, of these complexes were determined by a precise rotating-bomb calorimeter at 298.15 K, then their standard enthalpies of combustion, , and the standard enthalpies of formation, , have been calculated.     

On the basics of carbohydrate-metal chemistry: complexes of palladium(II) with hydroxyaldehyde and -ketone hydrates

In this work, we present novel complexes of hydroxyaldehydes and ketones with palladium(II). The compounds are studied by two-dimensional NMR spectroscopy in solution (COSY, HMQC, HMBC). Glycolaldehyde, d-glyceraldehyde, glyoxal and 2,4-O-ethylidene-d-erythrose were used as aldehydes, d-erythrulose was used as an alpha-hydroxyketone. Although different species are present in solution, only the hydrated forms of the aldehydes can coordinate to the metal centre. These complexes are stable at 4 degrees C in aqueous solution. The crystal structure of a complex formed by mesoxalic acid and palladium(II) is reported and shows coordination by both hydroxy groups of the hydrated ketone.     

Structure and function of an arabinoxylan-specific xylanase

The enzymatic degradation of plant cell walls plays a central role in the carbon cycle and is of increasing environmental and industrial significance. The enzymes that catalyze this process include xylanases that degrade xylan, a β-1,4-xylose polymer that is decorated with various sugars. Although xylanases efficiently hydrolyze unsubstituted xylans, these enzymes are unable to access highly decorated forms of the polysaccharide, such as arabinoxylans that contain arabinofuranose decorations. Here, we show that a Clostridium thermocellum enzyme, designated CtXyl5A, hydrolyzes arabinoxylans but does not attack unsubstituted xylans. Analysis of the reaction products generated by CtXyl5A showed that all the oligosaccharides contain an O3 arabinose linked to the reducing end xylose. The crystal structure of the catalytic module (CtGH5) of CtXyl5A, appended to a family 6 noncatalytic carbohydrate-binding module (CtCBM6), showed that CtGH5 displays a canonical (α/β)(8)-barrel fold with the substrate binding cleft running along the surface of the protein. The catalytic apparatus is housed in the center of the cleft. Adjacent to the -1 subsite is a pocket that could accommodate an l-arabinofuranose-linked α-1,3 to the active site xylose, which is likely to function as a key specificity determinant. CtCBM6, which adopts a β-sandwich fold, recognizes the termini of xylo- and gluco-configured oligosaccharides, consistent with the pocket topology displayed by the ligand-binding site. In contrast to typical modular glycoside hydrolases, there is an extensive hydrophobic interface between CtGH5 and CtCBM6, and thus the two modules cannot function as independent entities.     

Reactivity studies of a pseudo three-coordinate vanadium(II) complex: Synthesis of terminal oxo and sulfido complexes of vanadium(IV) and S-S and Se-Se reductive bond cleavage reactions

Terminal oxo and sulfido complexes in the form of (nacnac)VE(Ntol₂) (nacnac = [ArNC(CH₃)]₂CH⁻, Ar = 2,6-(CHMe₂)₂C₆H₃, Ntol₂ = ⁻N(C₆H₄-4-Me), E = O (1), S (2)) were isolated from treatment of the masked three-coordinate vanadium(II) complex, (nacnac)V(Ntol₂), with C₅H₅NO and S₈, respectively. Both vanadium(IV) species, 1 and 2, have been characterized by room temperature X-band EPR spectroscopic studies, and in the case of complex 1, a single crystal molecular structure confirmed the presence of a terminal oxo moiety. Moreover, reaction of (nacnac)V(Ntol₂) with diphenyl-disulfide and diphenyl-diselenide results in the reductive cleavage of these compounds to produce the vanadium(III) complexes (nacnac)V(XPh)(Ntol₂) (X = S, (3), Se (4)). A molecular structure of the phenylsulfide complex, 3, confirmed formation of the d² complex resulting from reductive cleavage of the S-S bond.     

Synthesis, crystal structure, and properties of supramolecular Cu, Zn, and Cd complexes with Salen-type bisoxime ligands

Three new supramolecular complexes, [Cu(L¹)H₂O]_n (1), [Zn(L²)(H₂O)₂]_n (2), and [Cd(L²)(H₂O)₂]_n (3), have been synthesized and characterized by FT-IR spectra, fluorescence spectra, and thermal analyses. And the structures of complexes 1-3 have been elucidated by X-ray analyses. Complex 1 is square pyramidal geometry with an unusually long bond (2.262 Å) from penta-coodinated Cu^II center to the oxygen atom of the apical coordinated water molecule. Molecules are linked by hydrogen bonding between the coordinated water and the phenolic oxygen atoms of adjacent molecules, thus formed a self-assembling continual zigzag chain supramolecular structure. The crystal structure of complex 2 (or 3) has indicated that the complex consists of one Zn^II (or Cd^II) atom, one L²⁻ unit and two coordinated water molecules, the coordination number of the Zn^II (or Cd^II) atom is six, and formed an infinite metal-water chain supramolecular structure by intermolecular hydrogen bonds and π-π stacking of neighboring benzene rings. Meanwhile, the thermal and photophysical properties of the resulted complexes have also been discussed.     

Synthesis and antimicrobial activity of a water-soluble chitosan derivative with a fiber-reactive group

A novel fiber-reactive chitosan derivative was synthesized in two steps from a chitosan of low molecular weight and low degree of acetylation. First, a water-soluble chitosan derivative, N-[(2-hydroxy-3-trimethylammonium)propyl]chitosan chloride (HTCC), was prepared by introducing quaternary ammonium salt groups on the amino groups of chitosan. This derivative was further modified by introducing functional (acrylamidomethyl) groups, which can form covalent bonds with cellulose under alkaline conditions, on the primary alcohol groups (C-6) of the chitosan backbone. The fiber-reactive chitosan derivative, O-acrylamidomethyl-HTCC (NMA-HTCC), showed complete bacterial reduction within 20 min at the concentration of 10ppm, when contacted with Staphylococcus aureus and Escherichia coli (1.5-2.5 x 10(5) colony forming units per milliliter [CFU/mL]).     

Structure and solution properties of enzymatically synthesized glycogen

Recently, a new enzymatic process for glycogen production was developed. In this process, short-chain amylose is used as a substrate for branching enzymes (BE, EC 2.4.1.18). The molecular weight of the enzymatically synthesized glycogen (ESG) depends on the size and concentration of the substrate. Structural and physicochemical properties of ESG were compared to those of natural source glycogen (NSG). The average chain length, interior chain length, and exterior chain length of ESG were 8.2-11.6, 2.0-3.3, and 4.2-7.6, respectively. These values were within the range of variation of NSG. The appearances of both ESG and NSG in solution were opalescent (milky white and slightly bluish). Furthermore, transmission electron microscopy and atomic force microscopy showed that ESG molecules formed spherical particles, and that there were no differences between ESG and NSG. Viscometric analyses also showed the spherical nature of both glycogens. When ESG and NSG were treated with pullulanase, a glucan-hydrolyzing enzyme known to degrade glycogen only on its surface portion, both glycogens were similarly degraded. These analyses revealed that ESG shares similar molecular shapes and surface properties with NSG.     

Structure of the Homodimeric Glycine Decarboxylase P-protein from Synechocystis sp. PCC 6803 Suggests a Mechanism for Redox Regulation

Glycine decarboxylase, or P-protein, is a pyridoxal 5′-phosphate (PLP)-dependent enzyme in one-carbon metabolism of all organisms, in the glycine and serine catabolism of vertebrates, and in the photorespiratory pathway of oxygenic phototrophs. P-protein from the cyanobacterium Synechocystis sp. PCC 6803 is an α₂ homodimer with high homology to eukaryotic P-proteins. The crystal structure of the apoenzyme shows the C terminus locked in a closed conformation by a disulfide bond between Cys⁹⁷² in the C terminus and Cys³⁵³ located in the active site. The presence of the disulfide bridge isolates the active site from solvent and hinders the binding of PLP and glycine in the active site. Variants produced by substitution of Cys⁹⁷² and Cys³⁵³ by Ser using site-directed mutagenesis have distinctly lower specific activities, supporting the crucial role of these highly conserved redox-sensitive amino acid residues for P-protein activity. Reduction of the 353–972 disulfide releases the C terminus and allows access to the active site. PLP and the substrate glycine bind in the active site of this reduced enzyme and appear to cause further conformational changes involving a flexible surface loop. The observation of the disulfide bond that acts to stabilize the closed form suggests a molecular mechanism for the redox-dependent activation of glycine decarboxylase observed earlier.     

Structure and properties of cobalt ortho-phenylenediacetate coordination polymers with rigid dipyridyl ligands

Divalent cobalt coordination polymers containing both ortho-phenylenediacetate (ophda) and rigid dipyridyl ligands 4,4′-bipyridine (bpy) or 1,2-bis(4-pyridyl)ethylene (dpee) display different topologies depending on carboxylate binding mode, tether length, and inclusion of charged species. [Co(ophda)(H₂O)(dpee)]_n (1) displays a common (4,4) grid layer motif. Use of the shorter bpy tether afforded {[Co₂(ophda)₂(bpy)₃(H₂O)₂][Co(bpy)₂(H₂O)₄](NO₃)₂·2bpy·7H₂O}_n (2) or [Co(ophda)(bpy)]_n (3) depending on cobalt precursor. Compound 2 manifests 5-connected [Co₂(ophda)₂(bpy)₃(H₂O)₂]_n pillared bilayer slabs with rare 4⁸6² SnS topology and entrained [Co(bpy)₂(H₂O)₄]²⁺ complex cations. The 3-D coordination polymer 3 has an uncommon 4,6-connected binodal (4⁴6²)(4⁴6¹⁰8) fsc topology, and shows ferromagnetic coupling (J = +1.5(2) cm⁻¹) along 1-D spiro-fused [Co(OCO)₂]_n chain submotifs.     

Structure and elastic properties of tunneling nanotubes

We investigate properties of a reported new mechanism for cell–cell interactions, tunneling nanotubes (TNT’s). TNT’s mediate actin-based transfer of vesicles and organelles and they allow signal transmission between cells. The effects of lateral pulling with polystyrene beads trapped by optical tweezers on TNT’s linking separate U-87 MG human glioblastoma cells in culture are described. This cell line was chosen for handling ease and possible pathology implications of TNT persistence in communication between cancerous cells. Observed nanotubes are shown to have the characteristic features of TNT’s. We find that pulling induces two different types of TNT bifurcations. In one of them, termed V-Y bifurcation, the TNT is first distorted into a V-shaped form, following which a new branch emerges from the apex. In the other one, termed I-D bifurcation, the pulled TNT is bent into a curved arc of increasingly broader span. Curves showing the variation of pulling force with displacement are obtained. Results yield information on TNT structure and elastic properties. Electronic supplementary material The online version of this article (doi:) contains supplementary material, which is available to authorized users.     

Group 12 metal complexes with inner-salt, bis(N,N-disubstituted amino)carbeniumdithiocarboxylate. Asymmetric stretching vibration of thiocarboxylate and reduction potential as probes for the coordination mode

A series of Group 12 metal complexes with bis(N,N-disubstituted amino)carbeniumdithiocarboxylates (RL) have prepared by the reaction of metal perchlorate with RL in EtOH or CH₂Cl_2, and characterized by the X-ray structural analysis, IR spectrum, and electrochemical measurements. The composition of metal and RL and the coordination mode, such as monodentate, chelate, and bridging or capping, depend on both the central metal ion and the substituent on the diaminocarbenium moiety. The useful criteria for the coordination mode are found to be the wavenumber of the -CS₂ asymmetric stretching vibration in the solid state, and the ligand-based reduction potential in solution.