Amplification of bifunctional ligands for calmodulin from a dynamic combinatorial library

A well known strategy to prepare high affinity ligands for a biological receptor is to link together low affinity ligands. DCC (dynamic combinatorial chemistry) was used to select bifunctional protein ligands with high affinity relative to the corresponding monofunctional ligands. Thiol to disulfide linkage generated a small dynamic library of bifunctional ligands in the presence of calmodulin, a protein with two independently mobile domains. The binding constant of the bifunctional ligand (disulfide) most amplified by the presence of calmodulin is nearly two orders of magnitude higher than that of the corresponding monofunctional ligand (thiol).     

Solid-phase extraction for the simultaneous preconcentration of organic (selenocystine) and inorganic [Se(IV), Se(VI)] selenium in natural waters

The recombinantly produced different forms of protein G, namely monofunctional immunoglobulin G (IgG) binding, monofunctional serum albumin (SA) binding and bifunctional IgG/SA binding proteins G, are compared with respect to their specific affinities to blood IgG and SA. The affinity mode of the recently developed high-performance monolithic disk chromatography has been used for fast quantitative investigations. Using single affinity disks as well as two discs stacked into one separation unit, one order of magnitude in adsorption capacities for IgG and SA were found both for monofunctional and bifunctional protein G forms used as specific affinity ligands. However, despite the adsorption difference observed, the measured dissociation constants of the affinity complexes seemed to be very close. The analytical procedure developed can be realized within a couple of minutes. Up-scaling of the developed technology was carried out using another type of monolithic materials, i.e. CIM affinity tubes.     

含平面胺配体的反式二价钯配合物与DNA碱基的作用

含大的平面胺配体的二价钯金属配合物在当前的抗肿瘤药物设计中代表着一类具有重要发展前途的先导结构. 由于大的平面胺配体具有较大的空间位阻, 目前主要的问题是这类化合物能否和DNA碱基结合形成单功能和双功能加合物. 我们采用密度泛函理论和等电聚焦连续极化(IEF-PCM)溶剂化模型研究了trans-PdCl2L2(L:2-羟基吡啶)的钯配合物与DNA碱基的作用. 该化合物与DNA形成单功能和双功能加合物反应的活化自由能均低于铂类抗肿瘤药. 所有反应在水溶液中均为放热反应. 结果表明, 这一大的平面胺配体不会阻碍该化合物与DNA碱基形成双功能加合物, 而且该化合物与DNA的单功能和双功能结合的速率会大于铂类化合物.     

Self‐Assembly of Conjugated Metallopolymers with Tunable Length and Controlled Regiochemistry

Self‐assembled materials can be designed to express useful optoelectronic properties; however, achieving structural control is a necessary precondition for the optimization of desired properties. Here we report a simple, metal‐templated polymerization process that generates helical metallopolymer strands over 75 repeat units long (28 kDa) from a single bifunctional monomer and Cu^I. The resulting polymer consists of a double helix of two identical conjugated organic strands enclosing a central column of metal ions. The length of this metallopolymer can be controlled by adding monofunctional subcomponents to end‐cap the conjugated ligands. The use of ditopic and bulky monotopic subcomponents, respectively, allows a head‐to‐head or head‐to‐tail double helix to be generated. Spectroscopic measurements of different polymer lengths demonstrate how control over polymer length leads to control over the electronic and luminescent properties of the resulting material, thereby enabling tunable white‐light emission.     

Monte Carlo study of supramolecular polymer fractionation: selective removal of chain stoppers by phase separation

Supramolecular polymers consist of bifunctional monomers that join and break reversibly. Supramolecular polymer solutions are often polluted by monofunctional contaminants, which drastically reduce the chain-forming capabilities of the system. Unfortunately, the monofunctional contaminants are difficult to remove due to the physical and chemical resemblance with the bifunctional counterparts. In this paper, we present a method to specifically remove the monofunctional contaminants from a supramolecular polymer solution. The general idea is to induce phase separation by decreasing the solvent quality and to remove the most dilute phase. This concept is explored by means of a recently developed Monte Carlo scheme to calculate the compositions of the coexisting liquid phases. The simulations provide a proof of principle that the proposed purification method is suitable to remove the monofunctional contaminants efficiently. The calculations indicate that, at the right experimental conditions, the vast majority of the monofunctional contaminants can be removed in this way while retaining most of the bifunctional monomers. Because of the general nature of the arguments presented here, it is to be expected that the results are applicable to a large variety of supramolecular systems. Moreover, the method is very suitable for large-scale applications because only solvent is added and no tedious chromatographic steps are required.     

Streptavidin binding bifunctional aptamers and their interaction with low molecular weight ligands

This paper describes the measurement of the binding affinities of two bifunctional RNA aptamers to their respective ligands. The aptamers comprise either a theophylline or malachite green binding sequence fused to a streptavidin binding sequence. These bifunctional aptamers are shown to bind simultaneously to both the small ligand and to streptavidin whether in free solution or on gold surfaces. Binding isotherms for both interactions were measured by different physiochemical techniques: surface plasmon resonance, fluorescence spectroscopy and dynamic light scattering. Both qualitatively and quantitatively there is little difference in binding affinities between the bifunctional aptamers and their monofunctional components. The respective K_d values for streptavidin binding in the monofunctional aptamer and in the theophylline bifunctional aptamer were 12 nM and 65 nM, respectively whilst the K_d values for theophylline binding in the monofunctional aptamer and the streptavidin bifunctional aptamer were 300 nM and 120 nM. These results are consistent with treating each aptamer sequence as a module that can be combined with others without significant loss of function. This allows for the use of streptavidin based immobilization strategies without either the cost of biotinylated dNTPs or the variable yields associated with the chemical biotinylation of RNA.     

Synthesis of 4-functionalized terdendate pyridine-based ligands

Four different 4-functionalised pyridine-based ligands were synthesized with aminomethyl, oxazolinyl, pyrazolyl and methylimidazolyl groups at the 2- and 6-position. The nitrogens of these groups together with the pyridine nitrogen can act as terdendate ligands for metal ions. Synthetic handles on the 4-position of the pyridine group were introduced via ether or ester bonds leading to monofunctional, bifunctional and amphiphilic ligands.     

Bifunctional and monofunctional catalysis in the CNDO/2 approximation: Formamidine acid-base and base catalysed 1,3-proton transfers in propene

The bifunctional acid-base and monofunctional base catalysis by formamidine of 1,3-proton transfer reactions in propene has been studied with the CNDO/2 MO-method. Energy profiles for both types of catalysis were studied, and no reaction intermediate was found in either case. In agreement with orbital correlation considerations, bifunctional catalysis is preferred over monofunctional catalysis. Comparison is made with another reaction in which simultaneous transfer of two protons occurs. The mechanism of bifunctional monofunctional catalysis is discussed.     

Synthesis of Microporous Transition Metal Oxide Molecular Sieves with Bifunctional Templating Molecules

Systematic tuning of the micropore size in microporous transition metal oxide molecular sieves can be achieved by varying the length of the hydrocarbon chain of the diamine molecules used as templating agents. The large bifunctional molecules self-assemble with much smaller cross-sectional micellar dimensions than their monofunctional counterparts. The resulting family of porous materials offers exciting new flexibility in designing molecular sieves targeted for size selectivity and chemical functionality.     

Influence of Bis-NHC Ligand on Platinum-Catalyzed Hydrosilylation of Internal Alkynes

Synthesis and characterization of a new bifunctional N-heterocyclic carbene precursor with sterically expanded substituents is described. The obtained NHC is employed in the catalytic system for hydrosilylation of internal alkynes providing a fully selective and effective process in mild conditions under air. Comparison of the performance of the newly developed catalytic system with its analogs based on monofunctional NHC ligands proves that the presence of two metal atoms and the proper design of the steric environment around the metal center ensure a definitely greater activity in the hydrosilylation process.     

Novel probes showing specific fluorescence enhancement on binding to a hexahistidine tag

The introduction of hexahistidine (His tag) is widely used as a tool for affinity purification of recombinant proteins, since the His tag binds selectively to nickel-nitrilotriacetic acid (Ni(2+)-NTA) complex. To develop efficient "turn-on" fluorescent probes for His-tagged proteins, we adopted a fluorophore displacement strategy, that is, we designed probes in which a hydroxycoumarin fluorophore is joined via a linker to a metal-NTA moiety, with which it forms a weak intramolecular complex, thereby quenching the fluorescence. In the presence of a His tag, with which the metal-NTA moiety binds strongly, the fluorophore is displaced, which results in a dramatic enhancement of fluorescence. We synthesized a series of hydroxycoumarins that were modified by various linkers with NTA (NTAC ligands), and investigated the chemical and photophysical properties of the free ligands and their metal complexes. From the viewpoint of fluorescence quenching, Ni(2+) and Co(2+) were the best metals. Fluorescence spectroscopy revealed a 1:1 binding stoichiometry for the Ni(2+) and Co(2+) complexes of NTACs in pH 7.4 aqueous buffer. As anticipated, these complexes showed weak intrinsic fluorescence, but addition of a His-tagged peptide (H-(His)(6)-Tyr-NH(2); Tyr was included to allow convenient concentration measurement) in pH 7.4 aqueous buffer resulted in up to a 22-fold increase in the fluorescence quantum yield. We found that the Co(2+) complexes showed superior properties. No fluorescence enhancement was seen in the presence of angiotensin I, which contains two nonadjacent histidine residues; this suggests that the probes are selective for the polyhistidine peptide.     

Stereospecificity and enantioselectivity in the binding of the platinum(II) complex [PtCl2(tmdz)] (tmdz = 5,5,7-trimethyl-1,4-diazacycloheptane) to dinucleotides and oligonucleotides

The two stereoisomers formed on reaction of each of the enantiomers of [PtCl2(tmdz)] with d(GpG) have been identified by using one- and two-dimensional 1H NMR spectroscopy. For both isomers formed with the R enantiomer the 3'-H8 shifts are downfield from those for the 5'-H8. For the S enantiomer the reverse is observed, showing that the bulky tmdz ligand determines the pattern of shifts. Models of these isomers generated by molecular mechanics show that the bulky tmdz ligand limits the rotation of the guanine bases and enforces right-handed (R2) canting for both isomers formed by the R enantiomer and left-handed (L1) canting for those formed by the S enantiomer. The pattern of H8 shifts is the opposite to that expected for these cantings; this suggests that other factors may play a role in determining these shifts. The interactions between the tmdz and d(GpG) ligands are also shown by molecular mechanics and the broadness of the H8 NMR signals to influence the tendency of the coordinated guanine bases to rotate about their Pt-N7 bonds. Reaction of each of the enantiomers with a 52 base-pair nucleotide, with a total of six GpG binding sites, resulted in the formation of only one of the stereoisomers in each case, the first reported case of complete stereoselectivity, or stereospecificity, in the reaction of Pt complexes with DNA. The observed stereoisomers were identified by comparison with the properties of the d(GpG) complexes. Molecular mechanics models of the adducts with duplex DNA show that the nonformation of one stereoisomer is consistent with the steric bulk of the tmdz ligand preventing closure from the monofunctional adduct to the bifunctional adduct. Enantioselectivity is also observed in that the R enantiomer forms more monofunctional adducts than bifunctional (59:41), whereas the S enantiomer forms more bifunctional adducts (27:73). The origins of this enantioselectivity must be at the level of monofunctional adduct formation and this has been investigated by molecular mechanics modelling.     

Chiral Bifunctional Phosphine‐Carboxylate Ligands for Palladium(0)‐Catalyzed Enantioselective C−H Arylation

Previous enantioselective Pd⁰‐catalyzed C?H activation reactions proceeding via the concerted metalation‐deprotonation mechanism employed either a chiral ancillary ligand, a chiral base, or a bimolecular mixture thereof. This study describes the development of new chiral bifunctional ligands based on a binaphthyl scaffold which incorporates both a phosphine and a carboxylic acid moiety. The optimal ligand provided high yields and enantioselectivities for a desymmetrizing C(sp²)?H arylation leading to 5,6‐dihydrophenanthridines, whereas the corresponding monofunctional ligands showed low enantioselectivities. The bifunctional system proved applicable to a range of substituted dihydrophenanthridines, and allowed the parallel kinetic resolution of racemic substrates.     

A new simple synthesis of soluble high molecular weight polyphenylenes by the cotrimerization of mono- and bifunctional terminal acetylenes

The monofunctional acetylenes, phenylacetylene and m-ethynyltoluene, were each copolymerized with diethynylbenzene in a 1:1 mole ratio by using TiCl₄/3AlEt₂Cl as cyclotrimerization catalyst. The aromatic polymers which were produced were polydisperse with a molecular weight of ～10,000. Variation of catalyst concentration had no effect on the molecular weight profile. An excess of bifunctional acetylene produced some insoluble gel but when some of the monofunctional acetylene was withheld and added only after an initial molecular weight build-up by the excess bifunctional acetylene, soluble polymers with molecular weights of approximately 50,000 were obtained in high yield, provided the overall ratio of mono- to bifunctional acetylene was maintained at 1:1. The resulting polyphenylenes were highly soluble in benzene and chlorinated solvents but gave brittle films. This was attributed to a highly branched structure resulting from a lack of specificity by the catalyst. Thermogravimetric analysis showed the polymers to have high thermal stability.     

Rhodamine 6G-based Chemosensor for the Visual Detection of Cu2＋ and Fluorescent Detection of Hg2＋ in Water

A novel water soluble chemosensor 1 based on rhodamine 6G spirolactam scaffold has been synthesized and characterized.Upon addition of a wide range of the environmentally and biologically relevant metal ions,chemosensor 1 shows a colorimetric selective Cu2＋ recognition from colorless to pink confirmed by UV-Vis absorption spectral changes,while it also exhibits a fluorometric selective Hg2＋ recognition by fluorescence spectrometry.An absorption enhancement factor over 17-fold with 1-Cu2＋ complex and a fluorescent enhancement factor over 45-fold with 1-Hg2＋ complex were observed.Their recognition mechanisms were assumed to be a 1：1 stoichiometry for 1-Cu2＋ complex and a 1：2 stoichiometry for 1-Hg2＋ complex,respectively,which were proposed to be different ligation leading to the ring-opening of rhodarnine 6G spirolactam.Furthermore,the detection limits for CU2＋ or Hg2＋ were 3.3 × 10-8 or 1.7x 10-7 mol/L,respectively.     

Buried solvent determines both anion-binding selectivity and binding stoichiometry with hydrogen-bonding receptors

[reaction: see text] The crystal structure of a tetraurea picket porphyrin-chloride anion complex has previously shown the anion to be situated between two adjacent ureas and hydrogen bonded via four NH protons (J. Am. Chem. Soc. 1998, 120, 11684-11692). The porphyrin receptor also binds a DMSO molecule and utilizes it as a participant in its anion recognition unit, in a manner similar to enzymes that bind water for use as part of their substrate recognition unit. The bound solvent molecule determines the anion-binding affinity, selectivity, and stoichiometry of binding. With a bound DMSO molecule, the tetraurea picket porphyrin is a highly selective receptor for chloride anion and binds all anions with a 1:1 binding stoichiometry. Absent the buried DMSO molecule, the receptor is selective for phosphate anion and binds chloride and phosphate anions with both 1:1 and 1:2 receptor-anion stoichiometries. Additionally, a remarkable reversal in the selectivity of anion complexation between various picket porphyrin receptors is observed, wherein the binding constant ratios change over 3 orders of magnitude as the receptor's number of urea pickets change from four to two. The latter receptor has no urea pickets available to bind to solvent after complexation with an anion. The results demonstrate that anion complexation with hydrogen-bonding receptors in a competitive solvent is enhanced when a ubiquitous solvent molecule is incorporated into the binding motif. In this way, competitive solvent adds to the overall complexation energy and thereby strengthens binding rather than weakens it, as commonly believed. The results are pertinent to drug design, for they suggest that pharmaceuticals need not be completely desolvated to selectively bind to their biological target when water can be included in the binding motif.     

Fluorescent iminodiacetamide derivatives as potential ionophores for optical zinc ion-selective sensors.

Fluorescent sensor molecules were synthesized by conjugation of iminodiacetamide derivatives with fluorescent moieties of different structures and their UV-visible and fluorescent properties were characterized in acetonitrile solvent. The fluorescent measurements revealed that the N-(2-naphthyl) and N-phenyl derivatives exhibit a distinct zinc ion-selectivity over alkali and alkaline earth metal ions, while N-(anthrylmethyl) and N-(3-methoxyphenyl) derivatives do not possess any ion-selectivities. In contrast to the fluorescent measurements, all ligands show Zn(2+) selectivity over Ca(2+) and Mg(2+) ions in plasticized PVC membranes using potentiometric signal transduction. This observation found for N-(anthrylmethyl) and N-(3-methoxyphenyl) derivatives can be ascribed to the more hindered interaction between the signalling group of the ionophore and the central metal ion in PVC membranes than in acetonitrile solution upon complexation. From the fluorescent measurements it can also be concluded that the ligands with metal ions form complexes mainly with 2:1 stoichiometry (L(2)M). On complex formation a considerable decrease in the fluorescent intensity was observed for all ligands except the N-(anthrylmethyl) derivative, where a 25 - 30 fold fluorescence enhancement was found, which is explained by the photoinduced electron transfer (PET) mechanism. All ionophores exhibited serious hydrogen ion interference, therefore complexation-induced spectral changes were measured in aprotic acetonitrile solution.     

Nucleation-elongation polymerization under imbalanced stoichiometry

As a result of the helical structure of the polymeric product, the folding-driven polymerization of oligo(m-phenyleneethynylene) imines in solution should inherently show nucleation-elongation in chain growth. Here, we present evidence for this behavior based on results of polymerizations conducted under conditions of imbalanced stoichiometry. Because the polymerization proceeds via imine metathesis between a pair of bifunctional monomers of types A-A and B-B, the molar ratio of the polymerizing functional groups can be arbitrarily varied. Alternatively, stoichiometry can be controlled by the addition of a monofunctional oligomer. Similar results were obtained in both cases whereby the molecular weight distribution was significantly different from that expected for classical step-growth polymerizations. At equilibrium, high molecular weight polymers were observed to coexist with the monomer in excess. Thermodynamic equilibrium was established by showing that the same distribution was reached starting either from a monomer mixture or from high polymers to which one monomer was added. These results are in great contrast to the low molecular weight oligomers that were produced when the reaction was conducted by melt condensation of bifunctional aldehyde and amine monomers, a polymerization that apparently proceeds without the nucleation event. An equilibrium model that captures the features of nucleation-elongation under conditions of imbalanced stoichiometry qualitatively supports the monomer-polymer distribution observed experimentally.     

Exploring the Subtle Effect of Aliphatic Ring Size on Minor Actinide-Extraction Properties and Metal Ion Speciation in Bis-1,2,4-Triazine Ligands

The synthesis and evaluation of three novel bis-1,2,4-triazine ligands containing five-membered aliphatic rings are reported. Compared to the more hydrophobic ligands 1 – 3 containing six-membered aliphatic rings, the distribution ratios for relevant f-block metal ions were approximately one order of magnitude lower in each case. Ligand 10 showed an efficient, selective and rapid separation of Am^III and Cm^III from nitric acid. The speciation of the ligands with trivalent f-block metal ions was probed using NMR titrations and competition experiments, time-resolved laser fluorescence spectroscopy and X-ray crystallography. While the tetradentate ligands 8 and 10 formed Ln^III complexes of the same stoichiometry as their more hydrophobic analogues 2 and 3 , significant differences in speciation were observed between the two classes of ligand, with a lower percentage of the extracted 1:2 complexes being formed for ligands 8 and 10 . The structures of the solid state 1:1 and 1:2 complexes formed by 8 and 10 with Y^III, Lu^III and Pr^III are very similar to those formed by 2 and 3 with Ln^III. Ligand 10 forms Cm^III and Eu^III 1:2 complexes that are thermodynamically less stable than those formed by ligand 3 , suggesting that less hydrophobic ligands form less stable An^III complexes. Thus, it has been shown for the first time how tuning the cyclic aliphatic part of these ligands leads to subtle changes in their metal ion speciation, complex stability and metal extraction affinity.     

Synthesis of Multivalent Galactosides as Targeting Ligand for Gene Delivery

A series of novel bifunctional glycolipid ligands designed to bind with high affinity and specificity to the asialoglycoprotein receptor (ASGP-R) has been synthesized and assayed in vitro on human hepatoma cells, HepG2, derived from parenchymal liver cells. The compounds bear five β-linked Gal moieties linked to the core scaffold, hexa-antennary alcohol, for interaction with the binding site of the ASGP-R. The liposome/DNA complexes containing the glycolipid ligands are efficiently recognized by ASGP-R and exhibited high affinity and transfection activity.