Relationship between conformational flexibility and chelate cooperativity

A family of four biscarbamates (AA) and four bisphenols (DD) were synthesized, and H-bonding interactions between all AA?DD combinations were characterized using (1)H NMR titrations in carbon tetrachloride. A chemical double mutant cycle analysis shows that there are no secondary electrostatic interactions or allosteric cooperativity in these systems, and the system therefore provides an ideal platform for investigating the relationship between chemical structure and chelate cooperativity. Effective molarities (EMs) were measured for 12 different systems, where the number of rotors in the chains connecting the two H-bond sites was varied from 5 to 20. The association constants vary by less than an order of magnitude for all 12 complexes, and the variation in EM is remarkably small (0.1-0.9 M). The results provide a relationship between EM and the number of rotors in the connecting chains (r): EM ≈ 10r(-3/2). The value of 10 M is the upper limit for the value of EM for a noncovalent intramolecular interaction. Introduction of rotors reduces the value of EM from this maximum in accord with a random walk analysis of the encounter probability of the chain ends (r(-3/2)). Noncovalent EMs never reach the very high values observed for covalent processes, which places limitations on the magnitudes of the effects that one is likely to achieve through the use of chelate cooperativity in supramolecular assembly and catalysis. On the other hand, the decrease in EM due to the introduction of conformational flexibility is less dramatic than one might expect based on the behavior of covalent systems, which limits the losses in binding affinity caused by poor preorganization of the interaction sites.     

Synthesis, structure and magnetic properties of Nd3+ and Pr3+ 2D polymers with tetrafluoro-p-phthalate

Two lanthanide tetrafluoro-p-phthalate (L(2-)) complexes, Ln(L)(1.5)·DMF·H(2)O (Ln = Pr(3+) (1), Nd(3+) (2)), were synthesized using pyridine as a base. The compounds were found to be isostructural, and the structure of 1 has been determined by single crystal X-ray diffraction (monoclinic, space group C2, a = 22.194(2) ?, b = 11.4347(12) ?, c = 11.7160(12) ?, β = 94.703(2)°, V = 2963.3(5) ?(3), Z = 4). The crystal structure of 1 consists of dinuclear Pr(3+) units, which are connected by tetrafluoro-p-phthalate, forming separate 2D polymeric layers. The Ln(3+) ions in the dinuclear Ln(2) units are linked by two μ-O atoms and by two bridging O-C-O groups. The structure is porous with DMF and water molecules located between layers. Non-coordinated DMF molecules occupy about 27% of the unit cell volume. A systematic analysis of reported structures of Ln(III) polymers with p-phthalate and its derivatives shows that the ca. known 60 structures can be divided into six possible structural types depending on the presence of certain structural motifs. The magnetic properties of compounds 1 and 2 were studied. The dependence of χ(M)T on T (where χ(M) is magnetic susceptibility per dinuclear lanthanide unit) for 1 and 2 was simulated using two different models, based on: (i) the Hamiltonian ? = Δ?(z)(2)+ μ(B)g(J)H?, which utilises an axial splitting parameter Δ and temperature-independent paramagnetism (tip) and (ii) crystal field splitting. It was found that both models gave satisfactory fits, indicating that the Ln-Ln exchange interactions are small and the symmetry of the coordination environment is the main factor influencing the magnetic properties of these compounds.     

SITE-DIRECTED MUTAGENESIS OF THE LH2 LIGHT-HARVESTING COMPLEX OF Rhodobacter sphaeroides: CHANGING βLys23 TO Gin RESULTS IN A SHIFT IN THE 850 nm ABSORPTION PEAK

The present study describes the construction of a Rhodobacter sphaeroides light-harvesting (LH2) mutant in which the charged residue βSLys23 is changed by site-directed mutagenesis to a Gin residue, and the characterization of the resulting mutant complex by a range of spectroscopic techniques. In the 77 K absorption spectrum of the mutant, the peak equivalent to the 850 nm peak in the wild-type membrane is blue-shifted by approximately 18 nm to 837 nm; except for this blue-shift, the 77 K. fluorescence excitation and emission spectra and the circular dichroism spectrum of the mutant are very similar to the equivalent spectra from the wild-type membranes, suggesting that the mutation βLys23 → Gin probably does not cause any major changes in the conformation or aggregation state of these membranes. Possible causes of the 18 nm blue-shift in the absorption spectrum are discussed.     

Applications of dynamic combinatorial chemistry for the determination of effective molarity

A new strategy for determining thermodynamic effective molarities (EM) for macrocylisation reactions using dynamic combinatorial chemistry under dilute conditions is presented. At low concentrations, below the critical value, Dynamic Libraries (DLs) of bifunctional building blocks contain only cyclic species, so it is not possible to quantify the equilibria between linear and cyclic species. However, addition of a monofunctional chain stopper can be used to promote the formation of linear oligomers allowing measurement of EM for all cyclic species present in the DL. The effectiveness of this approach was demonstrated for DLs generated from mixtures of 1,3-diimine calix[4]arenes, linear diaminoalkanes and monoaminoalkanes. For macrocycles deriving from one bifunctional calixarene and one diamine, there is an alternating pattern of EM values with the number of methylene units in the diamine: odd numbers give significantly higher EMs than even numbers. For odd numbers of methylene units, the alkyl chain can adopt an extended all anti conformation, whereas for even numbers of methylene units, gauche conformations are required for cyclisation, and the associated strain reduces EM. The value of EM for the five-carbon linker indicates that this macrocycle is a strainless ring.     

Investigation of free base, Mg, Sn, and Zn substituted porphyrin LB films as gas sensors for organic analytes

The visible absorption spectra of various substituted porphyrin compounds both in chloroform solution and as Langmuir-Blodgett (LB) solid-state films have been investigated. The porphyrin compounds examined were the Zn, Sn, Mg, and free base derivatives of 5,10,15,20-tetrakis[3,4-bis(2-ethylhexyloxy)phenyl]-21H,23H-porphine (EHO). Changes in the absorption spectra of these materials induced by their exposure to various organic compounds are reported with a view toward determining whether this is a useful approach toward an optical gas sensor.     

Factors influencing tetranuclear [2 x 2] grid vs dinuclear side-by-side structures for silver(I) complexes of pyridazine-based bis-bidentate ligands

Silver(I) complexes of five bis-bidentate Schiff-base ligands, derived from 3,6-diformylpyridazine and substituted anilines (2,4-dimethylaniline L ( o,p - Me ); 3,5-dichloroaniline L ( m,m - Cl ); 2-aminobiphenyl L ( o - Ph ); p-toluidine L ( p - Me ); 4-aminophenol L ( p - OH ); p-anisidine L ( p - OMe )), have been prepared. The ligands have a wide range of steric and electronic properties due to variation in the extent and nature of the substitution of the aniline rings. Four of the resulting complexes were structurally characterized by X-ray crystallography: three of the four, [Ag 2( L ( o,p - Me )) 2](BF 4) 2, [Ag 2( L ( m,m - Cl )) 2](BF 4) 2 and [Ag 2( L ( o - Ph )) 2](BF 4) 2 formed dinuclear side-by-side complexes, while [Ag 4( L ( p - Me )) 4](BF 4) 4 gave a tetranuclear [2 x 2] grid. The previously reported tetranuclear [2 x 2] grid [Ag 4( L ( p - OMe )) 4](BF 4) 4 was recrystallized in the presence of benzene to see if this would alter the architecture of this complex. It did not: the [2 x 2] grid architecture was retained despite the benzene molecules of solvation. Given the flexibility of silver(I) with regard to coordination geometry, the molecular structure of these complexes is influenced mostly by the ligand rather than the metal ion. In each case, the factors which influence the molecular architecture are presented and discussed. Substituent effects on the electrostatics of the intramolecular ligand-ligand pi-pi interactions (XED2.8) account for some of the differences observed in the structures.     

On the Motion of a Dynamic System with Minimal Dissipation

The motion of a holonomic scleronomic non-conservative mechanicalsystem with minimal dissipation is considered. As applicationsof the theory several problems are studied in detail.     

Highly efficient on-DNA amide couplings promoted by micelle forming surfactants for the synthesis of DNA encoded libraries

DNA encoded libraries (DELs) represent powerful new technology for finding small molecule ligands for proteins and are increasingly being applied to hit finding in medicinal chemistry. Crucial to the synthesis of high quality DELs is the identification of chemical reactions for their assembly that proceed with very high conversion across a range of different substrates, under conditions compatible with DNA-tagged substrates. Many current chemistries used in DEL synthesis do not meet this requirement, resulting in libraries of low fidelity. Amide couplings are the most commonly used reaction in synthesis of screening libraries and also in DELs. The ability to carry out highly efficient, widely applicable amide couplings in DEL synthesis would therefore be highly desirable. We report a method for amide coupling using micelle forming surfactants, promoted by a modified linker, that is broadly applicable across a wide range of substrates. Most significantly, this works exceptionally well for coupling of DNA-conjugated carboxylic acids (N-to-C) with amines in solution, a procedure that is currently very inefficient. The optimisation of separate procedures for coupling of DNA-conjugated acids and amines by reagent screening and statistically driven optimisation is described. The generality of the method is illustrated by the application to a wide range of examples with unprecedented levels of conversion. The utility of the (N-to-C) coupling of DNA-conjugated acids in DEL synthesis is illustrated by the three cycle synthesis of a fully DNA-encoded compound by two cycles of coupling of an aminoester, with intermediate ester hydrolysis, followed by capping with an amine. This methodology will be of great utility in the synthesis of high fidelity DELs.

Highly efficient forward and reverse on-DNA amide couplings were developed exploiting hydrophobic linkers in combination with the micelle forming surfactant TPGS-750M. The method is highly effective for a wide range of substrates in the synthesis of DNA-encoded libraries.     

A minimum covariance basis for diatomic vibrational constants

An alternative semianalytical representation of diatomic vibrational energy levels to the Dunham expansion, is presented in the form of an expansion over Newton polynomials. This latter representation produces smaller variances and correlation coefficients than Dunham's representation, especially for light molecules. The method is illustrated by application to the vibrational levels of the ground state of the H₂ molecule. Extension of the method to vibrational-rotational levels is discussed briefly.