Synthesis of C-5-thioglycopyranosides and their sulfonium derivatives from 1-C-(2'-oxoalkyl)-5-S-acetylglycofuranosides

1-C-(2'-oxoalkyl)-5-S-acetylglycofuranosides of L-arabinose, D-ribose, and D-xylose were converted to 1-C-(2'-oxoalkyl)-5-thioglycopyranosides by base treatment. The transformation was achieved through beta-elimination to an acyclic alpha,beta-conjugated aldehyde (ketone or ester), followed by an intramolecular hetero-Michael addition by the 5-thiol group. The cycloaddition was highly stereoselective in favor of an equatorial 1-C-substitution. The resultant C-5-thioglycopyranosides were further converted to the sulfonium salts by treatment with cyclic sulfate and methyl iodide. Two sulfonium isomers were obtained due to the presence of both S-axial and S-equatorial substitutions. We observed that the chemical shifts of both C-1 and C-5 in the S-axial substituted sulfonium sugars are always shifted up-field (5-10 ppm) in comparison to those in the S-equatorial substitutions (deltaC 49-53 ppm vs 42-45 ppm at C-1 and 37-42 ppm vs 32-35 ppm at C-5), which provides an easy way for determination of the stereochemistry.     

Kinetics and mechanism of Ru(III) and Hg(II) co-catalyzed oxidation of D-galactose and D-ribose by N-bromoacetamide in perchloric acid

Kinetics of oxidation of reducing sugars D-galactose (Gal) and D-ribose (Rib) by N-bromoacetamide (NBA) in the presence of ruthenium(III) chloride as a homogeneous catalyst and in perchloric acid medium, using mercuric acetate as a scavenger for Br(minus sign) ions, as well as a co-catalyst, have been investigated. The kinetic results indicate that the first-order kinetics in NBA at lower concentrations tend towards zero order at its higher concentrations. The reactions follow identical kinetics, being first order in the [sugar] and [Ru(III)]. Inverse fractional order in [H(+)] and [acetamide] were observed. A positive effect of [Hg(OAc)(2)] and [Cl(minus sign)] was found, whereas a change in ionic strength (mu) has no effect on oxidation velocity. Formic acid and D-lyxonic acid (for Gal) and formic acid and L-erythronic acid (for Rib) were identified as main oxidation products of reactions. The various activation parameters have been computed and recorded. A suitable mechanism consistent with experimental findings has been proposed.     

D-核糖生产菌的选育及发酵工艺的改进

通过对菌株BX-2(Bacillus subtilis)的紫外诱变和硫酸二乙酯的诱变处理得到D-核糖高产菌株BY-5。36℃,pH6.8,250 r.m in-1条件下培养72 h,其D-核糖产量从开始的55.0 g.L-1提高到68.0 g.L-1。蔗糖和葡萄糖的混合碳源发酵,D-核糖产量达到75 g.L-1。当D-葡萄糖被蔗糖部分替代后,D-核糖生产能力得到了提高。     

Molecular cloning, expression and characterization of ribokinase of Leishmania major

Ribokinase (EC 2.1.7.15) from Leishmania major was cloned, sequenced and overexpressed in Escherichia coli. The gene expressed an active enzyme that had comparable activity to the same enzyme studied in E. coli. It specifically phosphorylated D-ribose. Under defined conditions, the Km for the substrates D-ribose and ATP were 0.3±0.04 mM and 0.2±0.02mM, respectively. The turnover numbers of the enzyme for the substrates were 10.8s~(-1) and 10.2 s~(-1), respectively. The enzyme product ribose 5-phosphate inhibited the phosphorylation of D-ribose with an apparent K_i of 0.4 mM, which is close to the K_m (0.3mM) of Dribose, suggesting that it might play a role in regulating flux through the enzyme.     

三齿草藤(Vicia bungei Ohwi)凝集素糖组分的高效液相色谱分析

本文报道经亲和层析纯化的三齿草藤凝集素(VBL)的糖含量和糖组分的测定结果。经酚-硫酸法测得VBL的总糖含量为4.7％。应用高效液相色谱法对一系列已知标准单糖的定性定量分析条件进行了探索,选用乙腈-水-甲醇=60:30:5体系作流动相,YWG-NH_2作固定相,在高效液相色谱仪中测出VBL含有核糖和鼠李糖,二者摩尔数之比为9.4:1。     

D-核糖发酵过程中底物抑制及补料的研究

研究了初始葡萄糖浓度对D -核糖发酵的影响 ,证实了较高的葡萄糖浓度对D -核糖发酵的抑制作用 ,并确定了较为适宜的初始葡萄糖浓度为 1 0 0g·L-1 或 1 5 0g·L-1 。前者条件下D -核糖的转化率和生产强度均达最大 ,分别为 32 8g·kg-1 和0 .6 8g·L-1 ·h-1 ;后者条件下D -核糖的产量达最大值 39.4 8g·L-1 。针对底物抑制现象 ,研究了补料工艺对D -核糖发酵的影响 ,确定发酵 2 4h后补加 5 0g·L-1 的葡萄糖为较优的补料工艺 ,在此工艺条件下最终D -核糖产量相对于对照组提高了 4 8.3%。     

Interaction of spin-labeled inhibitors of the vacuolar H+-ATPase with the transmembrane Vo-sector

The osteoclast variant of the vacuolar H⁺-ATPase (V-ATPase) is a potential therapeutic target for combating the excessive bone resorption that is involved in osteoporosis. The most potent in a series of synthetic inhibitors based on 5-(5,6-dichloro-2-indolyl)-2-methoxy-2,4-pentadienamide (INDOL0) has demonstrated specificity for the osteoclast enzyme, over other V-ATPases. Interaction of two nitroxide spin-labeled derivatives (INDOL6 and INDOL5) with the V-ATPase is studied here by using the transport-active 16-kDa proteolipid analog of subunit c from the hepatopancreas of Nephrops norvegicus, in conjunction with electron paramagnetic resonance (EPR) spectroscopy. Analogous experiments are also performed with vacuolar membranes from Saccharomyces cerevisiae, in which subunit c of the V-ATPase is replaced functionally by the Nephrops 16-kDa proteolipid. The INDOL5 derivative is designed to optimize detection of interaction with the V-ATPase by EPR. In membranous preparations of the Nephrops 16-kDa proteolipid, the EPR spectra of INDOL5 contain a motionally restricted component that arises from direct association of the indolyl inhibitor with the transmembrane domain of the proteolipid subunit c. A similar, but considerably smaller, motionally restricted population is detected in the EPR spectra of the INDOL6 derivative in vacuolar membranes, in addition to the larger population from INDOL6 in the fluid bilayer regions of the membrane. The potent classical V-ATPase inhibitor concanamycin A at high concentrations induces motional restriction of INDOL5, which masks the spectral effects of displacement at lower concentrations of concanamycin A. The INDOL6 derivative, which is closest to the parent INDOL0 inhibitor, displays limited subtype specificity for the osteoclast V-ATPase, with an IC₅₀ in the 10-nanomolar range.     

Characterization of D-ribose biosynthesis in Bacillus subtilis JY200 deficient in transketolase gene

D-Ribose is a functional five-carbon sugar, which has been used for the commercial production of riboflavin. Mechanisms of d-ribose biosynthesis from xylose were investigated in the genetically engineered Bacillus subtilis JY200 with a deficiency in transketolase. A transketolase gene (tkt) disruption cassette in plasmid pUNKC was introduced into the chromosomal tkt gene in the wild type B. subtilis 168. Analysis of culture broth by thin layer chromatography confirmed that the disruption of tkt allowed B. subtilis JY200 to produce d-ribose. In a batch culture of B. subtilis JY200, a loss of cell viability was observed after glucose depletion. Fed-batch cultivation by feeding 400 gl(-1) glucose solution as a co-substrate was carried out to supply energy to xylose metabolism and to maintain cell viability throughout cultivation. Fed-batch cultivation of B. subtilis JY200 in a complex medium containing 11 gl(-1) xylose and 5 gl(-1) glucose initially gave the best result of 10.1 gl(-1)D-ribose concentration, 0.24 gg(-1)D-ribose yield and 0.29 gl(-1)h(-1) productivity, corresponding to 40-, 5- and 12-fold increases compared with those in the batch culture. A kinetic study of D-ribose production in fed-batch cultivations of B. subtilis JY200 suggested that xylose uptake might be critical to maximize D-ribose biosynthesis from xylose.     

Thermodynamic properties of nucleotide reductase reactions

Recent thermodynamic measurements have made it possible to calculate the apparent equilibrium constants of the ribonucleoside diphosphate reductase reaction and the ribonucleoside triphosphate reductase reaction with various reducing agents. Third law heat capacity measurements on crystals of d-ribose and other calorimetric measurements make it possible to calculate Delta(f)G degrees for D-ribose and two species of D-ribose 5-phosphate. The experimental value of the apparent equilibrium constant K' for the deoxyribose-phosphate aldolase reaction makes it possible to calculate the standard Gibbs energies of formation Delta(f)G degrees for two protonation states of 2'-deoxy-D-ribose 5-phosphate. This shows that Delta(f)G degrees (2'-deoxy-D-ribose 5-phosphate(2)(-)) - Delta(f)G degrees (D-ribose 5-phosphate(2)(-)) = 147.86 kJ mol(-1) at 298.15 K and zero ionic strength in dilute aqueous solutions. This difference between reduced and oxidized forms is expected to apply to D-ribose, D-ribose 1-phosphate, ribonucleosides, and ribonucleotides in general. This expectation is supported by two other enzyme-catalyzed reactions for which apparent equilibrium constants have been determined. The availability of Delta(f)G degrees values for the species of 2'-deoxy-D-ribose and its derivatives makes it possible to calculate standard transformed Gibbs energies of formation of these reactants, apparent equilibrium constants for their reactions, changes in the binding of hydrogen ions in these reactions, and standard apparent reduction potentials of the half reactions involved as a function of pH and ionic strength at 298.15 K. The apparent equilibrium constant for ADP + thioredoxin(red) = 2'-deoxyADP + H(2)O + thioredoxin(ox) is 1.4 x 10(11) at 298.15 K, pH 7, and 0.25 M ionic strength.     

Purification, crystallization, and properties of D-ribose isomerase from Mycobacterium smegmatis.

D-Ribose isomerase, which catalyzes the conversion of D-ribose to D-ribulose, was purified from extracts of Mycobacterium smegmatis grown on D-ribose. The purified enzyme crystalized as hexagonal plates from a 44% solution of ammonium sulfate. The enzyme was homogenous by disc gel electrophoresis and ultracentrifugal analysis. The molecular weight of the enzyme was between 145,000 and 174,000 by sedimentation equilibrium analysis. Its sedimentation constant of 8.7 S indicates it is globular. On the basis of sodium dodecyl sulfate gel electrophoresis in the presence of Mn2+, the enzyme is probably composed of 4 identical subunits of molecular weight about 42,000 to 44,000. The enzyme was specific for sugars having the same configuration as D-ribose at carbon atoms 1 to 3. Thus, the enzyme could also utilize L-lyxose, D-allose, and L-rhamnose as substrates. The Km for D-ribose was 4 mM and for L-lyxose it was 5.3 mM. The enzyme required a divalent cation for activity with optimum activity being shown with Mn2+. the Km for the various cations was as follows: Mn2+, 1 times 10(-7) M, Co2+, 4 times 10(-7) M, and Mg2+, 1.8 times 10(-5) M. The pH optimum for the enzyme was 7.5 to 8.5. Polyols did not inhibit the enzyme to any great extent. The product of the reaction was identified as D-ribulose by thin layer chromatography and by preparation of the O-nitrophenylhydrazone derivative.     

Prokaryotic Expression, Identification and Bioinformatics Analysis of the Mycobacterium tuberculosis Rv3807c Gene Encoding the Putative Enzyme Committed to Decaprenylphosphoryl-d-arabinose Synthesis

Decaprenylphosphoryl-d-arabinofuranosyl (DPA), the immediate donor for the polymerized d-Araf residues of mycobacterial arabinan, is synthesized from 5-phosphoribose-1-diphosphate (PRPP) in three-step reactions. (i) PRPP is transferred to decaprenyl-phosphate (DP) to form decaprenylphosphoryl-d-5-phosphoribose (DPPR). (ii) DPPR is dephosphorylated to form decaprenylphosphoryl-d-ribose (DPR). (iii) DPR is formed to DPA by the epimerase. Mycobacterium tuberculosis Rv3806c and heteromeric Rv3790/Rv3791 have been identified as the PRPP: decaprenyl-phosphate 5-phosphoribosyltransferase and the epimerase respectively. Rv3807c, however, as the candidate of phospholipid phosphatase, catalyzing the biosynthesis of decapreny-l-phosphoryl-ribose (DPR) from decaprenylphosphoryl-β-d-5-phosphoribose by dephosphorylating, has no direct experimental evidence of its essentiality in any species of mycobacterium. In this study, Rv3807c gene was amplified from the genome of M. tuberculosis H37Rv by PCR, and was successfully expressed in Escherichia coli BL21 (DE3) via the recombinant plasmid pColdII-Rv3807c. The resulting protein with the 6× His-tag was identified by SDS-PAGE and Western blotting. The protein was predicted through bioinformatics to contain three transmembrane domains, the N-terminal peptide, and a core structure with phosphatidic acid phosphatase type2/haloperoxidase. This study provides biochemical and bioinformatics evidence for the importance of Rv3807c in mycobacteria, and further functional studies will be conducted for validating Rv3807c as a promising phospholipid phosphatase in the synthetic pathway of DPA.     

The entry of D-ribose into some yeasts of the genus Pichia.

The utilization of D-ribose by yeasts of the genus Pichia was examined with respect to aerobic growth, respiration and entry of ribose into the cells. Pichia etchellsii (CBS2011) could respire D-ribose, but not use it for aerobic growth. Pichia fermentans (CBS187) neither respired nor grew on D-ribose, though it entered the cells of this yeast either by simple diffusion, or possibly, by the D-glucose carrier, this having a very low affinity for D-ribose. Pichia pinus (CBS5097) respired and grew on D-ribose; kinetic evidence is given for this yeast having two ribose carriers, one inducible and the other constitutive.     

Studies on enolization of aldehydo-aldose derivatives

Acetylation of the 2,3-O-isopropylidene derivative (1) of D-glyceraldehyde with hot acetic anhydride in the presence of sodium acetate give a mixture of (Z)- and (E)-enol acetates (2 and 3), together with the acetylated racemic aldehydrol (4) of 1. Likewise, the acyclic aldehydo 2,3:4,5-diisopropylidene acetals of D- and L-arabinose, D-xylose, and D-ribose underwent conversion into enol acetates, with the (Z) isomers preponderating, and convertible photochemically into the corresponding (E) isomers. Under other conditions of acetylation, the aldehydo derivatives were converted into the corresponding aldehydrol diacetates.     

Syntheses of 19-[O-(carboxymethyl)oxime] haptens of epipregnanolone and pregnanolone

O-(Carboxymethyl)oximes 1 and 2 derived from two epimeric 5beta-pregnanolones (3beta-hydroxy-5beta-pregnan-20-one and 3alpha-hydroxy-5beta-pregnan-20-one) in position 19 were prepared. Two synthetic routes were employed, both using protection of the 20-keto group after reduction into the (20R)-alcohol in the form of acetate. In the first route, (20R)-19-hydroxy-5beta-pregnan-3beta,20-diyl diacetate (3) was transformed into the corresponding 19-[O-(carboxymethyl)oxime] methyl ester 6, then deacetylated by acid and partially silylated with tert-butyldimethylsilyl chloride. The desired 3-O-silylated derivative 8 was separated, oxidized to the 20-ketone and protecting groups were sequentially removed to give the first title hapten 1. The second route started from (20R)-19-hydroxy-3-oxopregn-4-en-20-yl acetate (11), which was hydrogenated in the presence of base to the 5beta-pregnan-3-one derivative 12, protected in position 19 with tert-butyldimethylsilyl group and reduced with borohydride. The prevailing 3alpha-alcohol 15 was separated, protected in position 3 with a methoxymethyl group, deprotected in position 19 and transformed into the 19-[O-(carboxymethyl)oxime] 19. After deacetylation, esterification with diazomethane and oxidation in position 20, the pregnanolone skeleton was regenerated. Final deprotection steps gave the second title hapten 2. Both haptens, i.e., (19E)-3beta- and -3alpha-hydroxy-20-oxo-5beta-pregnan-19-al 19-[O-(carboxymethyl)oxime], were designed for the development of immunoassays of the corresponding parent neuroactive steroids.     

A dye-binding assay for measurement of the binding of Cu(II) to proteins

We analysed the theory of the coupled equilibria between a metal ion, a metal ion-binding dye and a metal ion-binding protein in order to develop a procedure for estimating the apparent affinity constant of a metal ion:protein complex. This can be done by analysing from measurements of the change in the concentration of the metal ion:dye complex with variation in the concentration of either the metal ion or the protein. Using experimentally determined values for the affinity constant of Cu(II) for the dye, 2-(5-bromo-2-pyridylaxo)-5-(N-propyl-N-sulfopropylamino) aniline (5-Br-PSAA), this procedure was used to estimate the apparent affinity constants for formation of Cu(II):transthyretin, yielding values which were in agreement with literature values. An apparent affinity constant for Cu(II) binding to α-synuclein of ∼1 × 10⁹ M⁻¹ was obtained from measurements of tyrosine fluorescence quenching by Cu(II). This value was in good agreement with that obtained using 5-Br-PSAA. Our analysis and data therefore show that measurement of changes in the equilibria between Cu(II) and 5-Br-PSAA by Cu(II)-binding proteins provides a general procedure for estimating the affinities of proteins for Cu(II).     

pH - Specific synthesis, spectroscopic, and structural characterization of an assembly of species between Co(II) and N,N-bis(phosphonomethyl)glycine. Gaining insight into metal-ion phosphonate interactions in aqueous Co(II)-organophosphonate systems

Cobalt involvement in chemical and metallobiological processes entails largely unknown reactivity pathways with a variety of ligands. Such ligands include phosphonate and carboxylate-containing metal ion binders. In an attempt to investigate the nature and properties of species arising from aqueous interactions between Co(II) and N,N-bis(phosphonomethyl)-glycine (H₅NTA2P), reactions between the two led to an assembly of species in (NH₄)₄[Co(H₂O)₆][(H₂O)₂Co(HNTA2P)Co(NH₃)₂(H₂O)₃]₂[Co(NTA2P)(H₂O)₂]₂ · 10H₂O · 1.36CH₃CH₂OH (1) at pH ∼ 5.5. The analytical, spectroscopic and X-ray data on 1 reveal mononuclear and dinuclear complexes of Co(II) surrounded by oxygens, belonging to terminal carboxylates, phosphonates and bound water molecules, and nitrogen atoms from coordinated ammonia and H_xNTA2P^q− (x = 1, q = 4; x = 0, q = 5) ligands. Worth noting is the variable protonation state of the bound diphosphonate ligand and its ability to bridge two Co(II) centers with ostensibly differing coordination spheres. The assembly of three Co(II) species of variable nuclearity and composition attests to the importance of pH-specific conditions, under which “capturing” of more than one species can be achieved for a given Co(II):H₅NTA2P stoichiometry in the presence of ammonia. Collectively, 1 provides a rare glimpse of a “slice” of the aqueous speciation of the binary Co(II)-H₅NTA2P system, while its lattice composition projects key structural features in Co(II)-carboxyphosphonate materials.     

Practical synthesis of D-cyclopent-2-enone, the key intermediate of carbocyclic nucleosides

An efficient and practical method for the synthesis of (4R,5R)-4,5-O-isopropylidene-cyclopent-2-enone was developed from D-ribose by using a ring-closing metathesis reaction.     

紫外诱变原生质体选育D-核糖生产菌株

以D-核糖产生菌枯草芽孢杆(Bacillus subtilis)B941为出发菌株,采用紫外诱变原生质体的方法,获得了4株可以在含有6．0％D-核糖的培养基上生长的D-核糖高产菌株,其摇瓶发酵产糖达55．0g／L左右。通过摇瓶发酵试验,研究了D-核糖高产菌株Buvp-24的遗传稳定性。研究结果表明,经多次传代,菌株Buvp-24的发酵产糖能力及对发酵产物D-核糖的耐受性没有改变,有望应用于工业生产中。