Enantioselective Syntheses of the Methylene- and Fluoromethylene-Phosphonate Analogues of 3-Phospho-D-Glyceric Acid

Abstract

The racemic methylene analogue of 3-phospho-D-glyceric acid^1–4 has been shown to be a viable substrate for the combined action of 3-phosphoglycerate kinase, PGK, and glyceraldehyde 3-phosphate dehydrogenase, GPD. We have shown that replacement of CH₂ by CHF or CF₂ in a variety of nucleotide analogues^4,5 can lead to improved Performance as enzyme substrates or inhibitors. We have therefore undertaken enantiospecific syntheses of the methylene- and fluoro-methylene-analogues of 3-phospho-D-glyceric acid to investigate their interaction with PGK and GPD and explore whether the fluorine atom in the latter can mimic an oxygen lone-pair in binding to enzymes.     

Synthesis of the Methyl, 1-Octyl,and D-Trifluoro-Acetamidophentlethyl α-Glycosides of 3,6-Di-O-(α-D-Galactopyranosyl)-D-Glucopyranose and an Acyclic Analogue Thereof

Abstract

The title trisaccharides were synthesized from a common trisaccharide thioglycoside derivative, which was, in turn, prepared from monosaccharide thioglycoside precursors. An acyclic analogue, methyl 3-O-(α-D-galacto-pyranosyl)-6-O-[(2′-hydroxyethyl)oxymethyl]-α-D-glucopyranoside, which carries a 2′-hydroxyethyloxymethyl group in place of the 6-O-galactosyl residue, was also synthesized.     

Structural Properties Governing Retention Mechanisms on Immobilized Artificial Membrane (IAM) HPLC Columns

The aims of this study were to investigate whether three commercially available immobilized artificial membrane (IAM) HPLC columns yield collinear data for neutral compounds, and whether IAM scales are distinct from the log P_oct (partition coefficient in the octanol/H₂O system) scale. With these objectives, the retention mechanisms on the IAM HPLC columns were analysed by linear solvation free‐energy relationships (LSERs). A set of 68 neutral model compounds with known solvatochromic parameters and log P_oct values was investigated, allowing a regular and broad exploration of property space. The resulting solvatochromic equations clearly indicate that the three IAM stationary phases retain small neutral solutes by a balance of intermolecular forces closely resembling those underlying partitioning in octanol/H₂O and retention on a reversed‐phase LC‐ABZ HPLC column. For all systems, the solute's size and hydrogen‐bond‐acceptor basicity are the two predominant factors, whereas dipolarity/polarisability and hydrogen‐bond‐donor acidity play only minor roles.     

Ternary β-Cyclodextrin Complexes as Models of Allosteric Effects

Two guests reacting with cyclodextrins (CDs) may form ternary complexes, in addition to the common competition of 1:1 complexes. One of the guests can really be included into the cavity of the CD, while the second guest molecule is either inserted close to the first one or attached to the outer surface of the supramolecule by H-bonding. There is a further possibility when the included guest bears a substituent outside the cavity and the second guest can interact with it. The properties of the ternary species formed are highly influenced by the solely (or primarily) included guest. The changes are attributed to the altered properties of the hydrophilic domain of the CD. The phenomena can be proved by NMR data obtained for some binary systems of -CD inclusion complexes and acetic acid and by the stability constants of the ternary complexes formed. Allosteric effects as well as coenzyme/apoenzyme/substrate interactions could be well modelled by these types of CD complexes.     

Domino metathesis of 2-azanorbornenones: a new strategy for the enatioselective synthesis of 1-azabicyclic compounds

Domino metathesis of N-alkylated derivatives of (1S)-2-azanorborn-5-en-3-one allowed for the enantioselective synthesis of pyrrolizidine, quinolizidine, pyrrolidinoazepine, and pyrrolidinoazocine derivatives in a straightforward process.     

Proton uptake of rhodobacter capsulatus reaction center mutants modified in the primary quinone environment

Flash-induced absorbance spectroscopy was used to analyze the proton uptake and electron transfer properties of photosynthetic reaction centers (RC) of Rhodobacter capsulatus that have been genetically modified near the primary quinone electron acceptor (Q(A)). M246Ala and M247Ala, which are symmetry-related to the positions of two acidic groups, L212Glu and L213Asp, in the secondary quinone electron acceptor (QB) protein environment, have been mutated to Glu and Asp, respectively. The pH dependence of the stoichiometry of proton uptake upon formation of the P+Q(A)- (H+/P+Q(A)-) and PQ(A) (H+/Q(A)-) (P is the primary electron donor, a noncovalently linked bacteriochlorophyll dimer) states have been measured in the M246Ala --> Glu and the M247Ala --> Asp mutant RC, in the M246Ala-M247Ala --> Glu-Asp double mutant and in the wild type (WT). Our results show that the introduction of an acidic group (Glu or Asp) in the QA protein region induces notable additional proton uptake over a large pH region (approximately 6-9), which reflects a delocalized response of the protein to the formation of Q(A)-. This may indicate the existence of a widely spread proton reservoir in the cytoplasmic region of the protein. Interestingly, the pH titration curves of the proton release caused by the formation of P+ (H+/P+: difference between H+/P+Q(A)- and H+/PQ(A)- curves) are nearly superimposable in the WT and the M246Ala --> Glu mutant RC, but substantial additional proton release is detected between pH 7 and 9 in the M247Ala --> Asp mutant RC. This effect can be accounted for by an increased proton release by the P+ environment in the M247Ala --> Asp mutant. The M247Ala --> Asp mutation reveals the existence of an energetic and conformational coupling between donor and acceptor sides of the RC at a distance of nearly 30A.     

Iodine concentration in different human brain parts

Iodine is one of the most important essential elements as demonstrated by the fact that its deficiency can cause goitre. Nevertheless, quantitative data on its concentration in biological materials, especially in the human brain, are scarce. There is therefore a demand for accurate and reliable information on iodine in these types of samples. The purpose of the present work was to determine the concentration of total iodine in some control human brain parts by rapid radiochemical neutron activation analysis. Our second goal was to determine I distribution between lipid fraction and in brain tissue without lipid by applying two types of solvent extraction methods. The results were checked by the analysis of biological standard reference materials with certified or literature values for iodine and good agreement was found.     

A versatile toolbox for variable DNA functionalization at high density

To broaden the applicability of chemically modified DNAs in nano- and biotechnology, material science, sensor development, and molecular recognition, strategies are required for introducing a large variety of different modifications into the same nucleic acid sequence at once. Here, we investigate the scope and limits for obtaining functionalized dsDNA by primer extension and PCR, using a broad variety of chemically modified deoxynucleotide triphosphates (dNTPs), DNA polymerases, and templates. All natural nucleobases in each strand were substituted with up to four different base-modified analogues. We studied the sequence dependence of enzymatic amplification to yield high-density functionalized DNA (fDNA) from modified dNTPs, and of fDNA templates, and found that GC-rich sequences are amplified with decreased efficiency as compared to AT-rich ones. There is also a strong dependence on the polymerase used. While family A polymerases generally performed poorly on "demanding" templates containing consecutive stretches of a particular base, family B polymerases were better suited for this purpose, in particular Pwo and Vent (exo-) DNA polymerase. A systematic analysis of fDNAs modified at increasing densities by CD spectroscopy revealed that single modified bases do not alter the overall B-type DNA structure, regardless of their chemical nature. A density of three modified bases induces conformational changes in the double helix, reflected by an inversion of the CD spectra. Our study provides a basis for establishing a generally applicable toolbox of enzymes, templates, and monomers for generating high-density functionalized DNAs for a broad range of applications.     

Characterization of Lippia sidoides oil extract-b-cyclodextrin complexes using combined thermoanalytical techniques

Thermoanalytical techniques, being rapid and un-expensive have been used for the investigation of the cyclodextrin inclusion complexes for three decades. The conventional thermoanalytical techniques (TG and DTA/DSC) follow the thermal properties of the uncomplexed compounds. Consequently, the inclusion complex formation as well as the liberation of the entrapped guest cannot be followed. Monitoring the products of the thermal fragmentation of parent cyclodextrin and the included molecule(s), applying TG-MS combined technique provides evidence concerning the inclusion complex formation, and besides, gives selective signal to follow the decomposition of the cyclodextrin inclusion complexes. b-cyclodextrin inclusion complexes of Thymol and Lippia sidoides Cham essential oil extract have been prepared and investigated using conventional and combined (TG-MS) thermoanalytical techniques. The evolved gas analysis proved the inclusion complex formation between the host and guests. By the evaluation of the experimental results the elaboration of the entrapped guests from the cyclodextrin cavity could be followed. This revised version was published online in July 2006 with corrections to the Cover Date.     

Model-free kinetics applied to regeneration of coked alumina

Thermogravimetry is proposed to study the alumina catalyst regeneration deactivated by coke, after being used in the transformation of styrene in a fixed bed continuous flow reactor. The model-free kinetic approach has been applied to data for the thermal oxidation of carbonaceous deposits on the catalyst. The activation energy (E) was calculated as a function of a (conversion) and T (temperature), by using Vyazovkin model-free kinetic method, allowing to estimate time required to remove coke at a given temperature. This revised version was published online in August 2006 with corrections to the Cover Date.