Zn(II) coordination to polyamine macrocycles containing dipyridine units. New insights into the activity of dinuclear Zn(II) complexes in phosphate ester hydrolysis

Homodinuclear copper(II) and zinc(II) complexes of a carboxylate-rich ligand as synthetic mimics of phosphoester hydrolase in aqueous solutions

The synthesis, characterization and catalytic activities of two homodinuclear Cu(II) and Zn(II) complexes of a carboxylate-rich ligand, N,N'-Bis[2-carboxybenzomethyl]-N,N' -Bis[carboxymethyl]-1,3-diaminopropan-2-ol (H₅ccdp) ligand towards the hydrolysis of (p-nitrophenyl phosphate) (PNPP) and bis(p-nitrophenyl) phosphate (BNPP) substrates in aqueous systems are described. Kinetic investigations were carried out using UV-Vis spectrophotometric techniques at 25 °C and 37 °C and different pH (7-10) conditions. The kinetic studies revealed that the turnover rate (k_cat) values among the PNPP hydrolysis systems, the highest and the lowest k_cat values were displayed by [Cu₂(ccdp)(μ-OAc)]^2- at 2.34 × 10^-6 s^-1 (pH 8 and 37 °C) and 2.13 × 10^-8 s^-1 (pH 8 and 25 °C), respectively. However, similar comparisons among the BNPP hydrolysis revealed that highest and the lowest k_cat values were displayed by [Zn₂(ccdp)(μ-OAc)]^2- at 4.64 × 10^-8 s^-1 (pH 9 and 37 °C) and 2.38 × 10^-9 (pH 9 and 25 °C). Significantly enough, the catalyst-substrate adduct species containing a metal bound PNPP and BNPP have been detected by ESI-MS techniques. Additionally, a PNPP-bound copper complex has been isolated and crystalized using single crystal X-ray diffraction technique. Based on the structural and activity information obtained in this study, reaction mechanisms for the hydrolysis of PNPP have been proposed.

Aromatic and heteroaromatic azacrown compounds: advantages and disadvantages of rigid macrocyclic ligands

Current approaches to the synthesis of aromatic and heteroaromatic azamacrocycles and their derivatives are summarized and systematized. The relationship between the structure of azacrown compounds and their complexation behaviour towards metal cations is analyzed. The diversity of practical applications of azamacrocyclic derivatives in medicine, biology and analytical and organic chemistry, as well as for the design of molecular devices is demonstrated.

The bibliography includes 307 references.

Mechanistic Studies of Homo- and Heterodinuclear Zinc Phosphoesterase Mimics: What Has Been Learned?

Phosphoesterases hydrolyze the phosphorus oxygen bond of phosphomono-, di- or triesters and are involved in various important biological processes. Carboxylate and/or hydroxido-bridged dizinc(II) sites are a widespread structural motif in this enzyme class. Much effort has been invested to unravel the mechanistic features that provide the enormous rate accelerations observed for enzymatic phosphate ester hydrolysis and much has been learned by using simple low-molecular-weight model systems for the biological dizinc(II) sites. This review summarizes the knowledge and mechanistic understanding of phosphoesterases that has been gained from biomimetic dizinc(II) complexes, showing the power as well as the limitations of model studies.

Dinuclear Lanthanide(III)-m-ODO2A-dimer Macrocyclic Complexes: Solution Speciation, DFT Calculations, Luminescence Properties, and Promoted Nitrophenyl-Phosphate Hydrolysis Rates

Potentiometric speciation studies, mass spectrometry, and DFT calculations helped to predict the various structural possibilities of the dinuclear trivalent lanthanide ion (Ln^III , Ln=La, Eu, Tb, Yb, Y) complexes of a novel macrocyclic ligand, m-ODO2A-dimer (H₄ L), to correlate with their luminescence properties and the promoted BNPP and HPNP phosphodiester bond hydrolysis reaction rates. The stability constants of the dinuclear Ln₂ (m-ODO2A-dimer) complexes and various hydrolytic species confirmed by mass spectrometry were determined. DFT calculations revealed that the Y₂ LH_-1 and the Y₂ LH_-2 species tended to form structures with the respective closed- and open-form conformations. Luminescence lifetime data for the heterodimetallic TbEuL system confirmed the fluorescence resonance energy transfer from the Tb^III to Eu^III ion. The internuclear distance R_TbEu values were estimated to be in the range of 9.4-11.3 Å (pH 6.7-10.6), which were comparable to those of the DFT calculated open-form conformations. Multiple linear regression analysis of the k_obs data was performed using the equation: k_obs,corr. =k_obs -k_obs,OH =kLn2LHM->1 [Ln₂ LH_-1 ]+kLn2LH-2 [Ln₂ LH_-2 ] for the observed Ln₂ L-promoted BNPP/HPNP hydrolysis reactions in solution pH from 7 to 10.5 (Ln=Eu, Yb). The results showed that the second-order rate constants for the Eu₂ LH_-2 and Yb₂ LH_-2 species were about 50-400 times more reactive than the structural analogous Zn₂ (m-12 N₃ O-dimer) system.

Enhanced activity of trinuclear Zn(ii) complexes towards phosphate ester bond cleavage by introducing three-metal cooperativity

The catalytic efficiency (DNA binding followed by phosphate ester bond cleavage) of Zn(ii) complexes has been tuned by variation in the nuclearity, flexibility and coordination environment to explore the structure activity correlation.

Supramolecular Assembly of Uridine Monophosphate (UMP) and Thymidine Monophosphate (TMP) with a Dinuclear Copper(II) Receptor

Understanding the intermolecular interactions between nucleotides and artificial receptors is crucial to understanding the role of nucleic acids in living systems. However, direct structural evidence showing precise interactions and bonding features of a nucleoside monophosphate (NMP) with a macrocycle-based synthetic molecule has not been provided so far. Herein, we present two novel crystal structures of uridine monophosphate (UMP) and thymidine monophosphate (TMP) complexes with a macrocycle-based dinuclear receptor. Structural characterization of these complexes reveals that the receptor recognizes UMP through coordinate-covalent interactions with phosphates and π-π stackings with nucleobases and TMP through coordinate-covalent interactions with phosphate groups. Furthermore, the receptor has been shown to effectively bind nucleoside monophosphates in the order of GMP > AMP > UMP > TMP > CMP in water at physiological pH, as investigated by an indicator displacement assay.

Polyfunctional Tetraaza-Macrocyclic Ligands: Zn(II), Cu(II) Binding and Formation of Hybrid Materials with Multiwalled Carbon Nanotubes

The binding properties of HL1, HL2, and HL3 ligands toward Cu(II) and Zn(II) ions, constituted by tetraaza-macrocyclic rings decorated with pyrimidine pendants, were investigated by means of potentiometric and UV spectrophotometric measurements in aqueous solution, with the objective of using the related HL-M(II) (HL = HL1-HL3; M = Cu, Zn) complexes for the preparation of hybrid MWCNT-HL-M(II) materials based on multiwalled carbon nanotubes (MWCNTs), through an environmentally friendly noncovalent procedure. As shown by the crystal structure of [Cu(HL1)](ClO₄)₂, metal coordination takes place in the macrocyclic ring, whereas the pyrimidine residue remains available for attachment onto the surface of the MWCNTs via π-π stacking interactions. On the basis of equilibrium data showing the formation of highly stable Cu(II) complexes, the MWCNT-HL1-Cu(II) material was prepared and characterized. This compound proved very stable toward lixiviation processes (release of HL1 and/or Cu(II)); thus, it was used for the preparation of its reduced MWCNT-HL1-Cu(0) derivatives. X-ray photoelectron spectroscopy and transmission electron microscopy images showed that MWCNT-HL1-Cu(0) contains Cu(0) nanoparticles, of very small (less than 5 nm) and regular size, uniformly distributed over the surface of the MWCNTs. Also, the MWCNT-HL1-Cu(0) material proved very resistant to detachment of its components. Accordingly, both MWCNT-HL1-Cu(II) and MWCNT-HL1-Cu(0) are promising candidates for applications in heterogeneous catalysis.

Spectroscopic and mechanistic studies of dinuclear metallohydrolases and their biomimetic complexes

An enhanced understanding of the metal ion binding and active site structural features of phosphoesterases such as the glycerophosphodiesterase from Enterobacter aerogenes (GpdQ), and the organophosphate degrading agent from Agrobacterium radiobacter (OpdA) have important consequences for potential applications. Coupled with investigations of the metalloenzymes, programs of study to synthesise and characterise model complexes based on these metalloenzymes can add to our understanding of structure and function of the enzymes themselves. This review summarises some of our work and illustrates the significance and contributions of model studies to knowledge in the area.

Poly[[μ-bis-(4-nitro-phen-yl) phosphato-κ(2) O,O']sodium]

The title compound, [Na(C₁₂H₈N₂O₈P)], consists of one Na⁺ cation and one bis­(p-nitro­phen­yl)phosphate anion with a considerable distortion of the phosphate tetra­hedron due to the presence of two P—O ester bonds. The anion bridges five Na⁺ cations whereby each cation is chelated by the nitro O atoms of one anion and bonded via a nitro O atom and phosphate O atoms to four other anions. This bridging arrangement leads to the formation of double layers parallel to (001). Adjacent layers are linked through weak C—H⋯O hydrogen bonds.

Structural, Kinetic, and Theoretical Studies on Models of the Zinc-Containing Phosphodiesterase Active Center: Medium-Dependent Reaction Mechanisms

Dinuclear zinc(II) complexes [Zn(2)(bpmp)(mu-OH)](ClO(4))(2) (1) and [Zn(2)(bpmp)(H(2)O)(2)](ClO(4))(3) (2) (H-BPMP=2,6-bis[bis(2-pyridylmethyl)aminomethyl]-4-methylphenol) have been synthesized, structurally characterized, and pH-driven changes in metal coordination observed. The transesterification reaction of 2-hydroxypropyl p-nitrophenyl phosphate (HPNP) in the presence of the two complexes was studied both in a water/DMSO (70:30) mixture and in DMSO. Complex 2 was not reactive whereas for 1 considerable rate enhancement of the spontaneous hydrolysis reaction was observed. A detailed mechanistic investigation by kinetic studies, spectroscopic measurements ((1)H, (31)P NMR spectroscopy), and ESI-MS analysis in conjunction with ab initio calculations was performed on 1. Based on these results, two medium-dependent mechanisms are presented and an unusual bridging phosphate intermediate is proposed for the process in DMSO.

A dizinc complex for selective fluorescence sensing of uridine and uridine-containing dinucleotides

A dizinc complex with a polyamine macrocycle is able to selectively bind and sense uridine (U) as well as the uridine-containing ribodinucleotides U(3'-5')pU and U(3'-5')pA, thanks to an exciplex emission arising from a pi-stacked complex involving the dipyridine unit and Zn(II)-bound uridine moieties.

Polyazacyclophanes incorporating two pyridine units and a heteroaromatic pendant group as potential cleaving agents of mRNA 5'-cap structure

Four hexaazacyclophanes, 16a-d, incorporating two pyridine units and a (pyridin-2-yl)methyl or (quinolin-2-yl)methyl pendant group at one of the ring N-atoms have been prepared. The key step of the synthesis is an intermolecular cyclization of N,N-bis{[6-(tosyloxymethyl)pyridin-2-yl]methyl}-2-nitrobenzenesulfonamide (7) with either tert-butyl bis{2-[(2-nitrophenylsulfonyl)amino]ethyl}carbamate (2a) or tert-butyl bis{3-[(2-nitrophenylsulfonyl)amino]propyl}carbamate (2b) in the presence of anhydrous Cs(2)CO(3). Removal of the acid-labile tert-butoxycarbonyl protection then allows attachment of the pendant group by reductive alkylation to the exposed secondary amino group, and deprotection of the remaining aliphatic ring N-atoms completes the synthesis. The ability of the cyclophanes and their dinuclear Cu(2+) and Zn(2+) complexes to cleave the mRNA cap structure, m(7)G(5')pppG(5') (1), has been studied.

Synthesis and reactivity of a C3-symmetric trinuclear zinc(ii) hydroxide catalyst efficient at phosphate diester transesterification

Inspired by trinuclear Zn(II) sites in enzymatic systems, a ligand system containing three preorganized (2-pyridyl)methyl piperazine moieties anchored onto a rigid C3-symmetric triphenoxymethane platform has been developed for preorganizing three zinc ions into an environment conducive to intramolecular interaction. Zinc(II) binding by this ligand has been analyzed by means of potentiometric measurements in 50% (v/v) CH3CN-H2O solutions. Subsequently a C3-symmetric trinuclear Zn(II) hydroxide complex of the C3-symmetric ligand was synthesized and fully characterized using NMR spectroscopy and X-ray crystallography. This complex induces a 16,900-fold rate enhancement in the catalytic cyclization of the RNA model substrate, 2-hydroxypropyl-p-nitrophenyl phosphate (HPNP, pH 6.7, 25 degrees C) over the uncatalyzed reaction with multiple catalyst turnovers. The observed differences in the pH-rate profile can be attributed to the varying concentration of various trinuclear zinc species. The trinuclear Zn(II) catalyst exhibits a higher hydrolytic activity compared to its mononuclear analogue. The reactivity and structural features of this trinuclear Zn(II) complex will be discussed.

Phosphodiester modification by zinc metalated adenine polymer with carboxyl pendants

This report describes a novel carboxyl pendant containing adenylated polymeric template, its metalation with Zn (II), and manifestation of catalytic activity for the hydrolysis of model phosphodiester, bis(p-nitrophenyl) phosphate (bNPP), and plasmid cleavage. Observation of a bell-shaped pH-K(obs) profile suggested influence of pH variation over hydrolysis rate. This metalated polymer also afforded facile relaxation of pBR322 supercoiled DNA, with an interesting reusability feature intricately associated with heterogeneous catalysis.

Di- and Trinuclear Complexes Derived from Hexakis(2-pyridyloxy)cyclotriphosphazene. Unusual P−O Bond Cleavage in the Formation of [{(L‘CuCl)2(Co(NO3)}Cl] (L‘ = N3P3(OC5H4N)5(O))

Hexakis(2-pyridyloxy)cyclotriphosphazene (L) is an efficient multisite coordination ligand which binds with transition metal ions to produce dinuclear (homo- and heterometallic) complexes [L(CuCl)(CoCl3)], [L(CuCl)(ZnCl3)], [L(CoCl)(ZnCl3)], and [L(ZnCl2)2]. In these dinuclear derivatives the cyclophosphazene ligand utilizes from five to six nitrogen coordination sites out of the maximum of nine available sites. Further, the spacer oxygen that separates the pyridyl moiety from the cyclophosphazene ring ensures minimum steric strain to the cyclophosphazene ring upon coordination. This is reflected in the near planarity of the cyclophosphazene ring in all the dinuclear derivatives. In the dinuclear heterobimetallic derivatives one of the metal ions [Cu(II) or Co(II)] is hexacoordinate and is bound by the cyclophosphazene in a eta5-gem-N5 mode. The other metal ion in these heterobimetallic derivatives [Co(II) or Zn(II)] is tetracoordinate and is bound in an eta(1)-N(1) fashion. In the homobimetallic derivative, [L(ZnCl2)2], one of the zinc ions is five-coordinate (eta3-nongem-N3), while the other zinc ion is tetracoordinate(eta2-gem-N2). The reaction of L with CuCl2 followed by Co(NO3)2.6H2O yields a trinuclear heterobimetallic complex [{(L'CuCl)2Co(NO3)}Cl] [L' = N3P3(OC5H4N)5(O)]. In the formation of this compound an unusual P-O bond cleavage involving one of the phosphorus-pyridyloxy bonds is observed. The molecular structure of [{(L'CuCl)2Co(NO3)}Cl] [L' = N3P3(OC5H4N)5(O)] reveals that each of the two the P-O-cleaved L' ligands is involved in binding to Cu(II) to generate the motif L'CuCl. Two such units are bridged by a Co(II) ion. The coordination environment around the bridging Co(II) ion contains four oxygen (two P-O units, one chelating nitrate) and two nitrogen atoms (pyridyloxy nitrogens).