Production,Purification, and Characterization of D-Aminoacylase from Alcaligenes xylosoxydans subsp. xylosoxydans A-6

The best inducers for D-aminoacylase from Alcaligenes xylosoxydans subsp. xylosoxydans A-6 (Alcaligenes A-6) were a poor substrate, N-acetyl-;-methyl-D-leucine, and an inhibitor, N-acetyl-D-alloisoleucine. The enzyme has been homogeneously purified. The molecular weight of the native enzyme was estimated to be 58,000 by gel filtration. A subunit molecular weight of 52,000 was measured by SD8–PAGE, indicating that the native protein is a monomer. The isoelectric point was 5.2. The enzyme was specific to the D-isomer and hydrolyzed N-acetyl derivatives of D-leucine, D-phenylalanine, D-norleucine, D-methionine, and D-valine, and also N-formyl, N-butyryl, and N-propionyl derivatives of D-leucine. The K_m for N-acetyl-D-leucine was 9.8mM. The optimum pH and temperature were 7.0 and 50°C, respectively. The stabilities of pH and temperature were 8.1 and 40°C. D-Aminoacylases from three species of the genus Alcaligenes differ in inducer and substrate specificities, but are similar with respect to molecular weight and N-terminal amino acid sequence.     

Two gamma-bends in the backbone conformation of [D-Ala2]-leucine enkephalin in solution

The solution conformation of [D-Ala2]-leucine enkephalin in its zwitterionic form in DMSO-d6 has been monitored by one- and two-dimensional proton magnetic resonance spectroscopy at 500 MHz. The resonances from the labile amide protons and the nonlabile protons have been assigned from the shift correlated spectroscopy. The chemical shift of the amide and C-alpha protons are found to vary with temperature but in opposite directions, except the C-alpha proton of the terminal tyrosine residue. This behavior has been explained by the shifting of equilibrium between the zwitterionic and neutral forms of the [D-Ala2]-leucine enkephalin and probably conformational changes accompanying temperature variation. The low values of the temperature coefficients of leucine and glycine amide protons indicate that these protons are either intramolecularly hydrogen bonded or solvent shielded. The observation of sequential cross peaks in the nuclear Overhauser effect spectra obtained at various mixing times, tau m (200-900 ms), indicate an extended backbone, which does not corroborate with the presence of a folded structure, i.e., beta-bend type structure. The estimate of interproton distances in conjunction with the low values of temperature coefficients of the leucine and glycine amide protons and vicinal coupling constants 3JHN-C alpha H have been rationalized by the predominance of two gamma-bends in the backbone conformation of [D-Ala2]-leucine enkephalin. The gamma-bend around the D-Ala residue has phi = 80 degrees and psi = 270 degrees, while the one around Phe it has phi = 285 degrees and psi = 90 degrees.     

Poly(L-leucyl-L-ornithyl-L-leucine) and its guanidization product: synthesis and antibacterial activity

The synthesis of poly(L -leucyl-L -ornithyl-L -leucine) and of poly(L -leucyl-L -arginyl-L -leucine) is reported. The antibacterial action of the two copolymers was checked by growth inhibition experiments on Staphylococcus aureus. The activity was found to be identical with that of a disordered 1:1 copolymer of L -ornithine and L -leucine. Conversion of 75% of the ornithine residues to arginine had no effect on the antibacterial activity.     

Peptide synthesis enzymatically catalyzed in a biphasic system: Water–water–immiscible organic solvent

Synthesis of a peptide bond is suggested to be enzymatically catalysed in a biphasic system “water–water-immiscible organic solvent”. The pH dependence of the apparent equilibrium constant is studied for synthesis of N-acetyl-L -tryptophanyl-L -leucine amide from N-Acet-Trp andL -Leu-NH₂. The reaction was performed in the biphasic system ethyl acetate plus water [from 2 to 2% (v/v)] in the presence of α-chymotrypsin. The suggested approach is preparative value: with the stoichiometric ratio of the reagents, [N-Acet-L -Trp] = [L -Leu-NH₂] = 2 × 10^?3M, the yield is practically 100% (in water, with other conditions being the same, the yield is not over 01.%).     

Preparative separation of amino acid enantiomers as N-TFA,O-isopropyl derivatives by continuous countercurrent gas-liquid chromatography

Preparative separation of derivatives of amino acid enantiomers was carried out by a countercurrent gas–liquid chromatography (CCGLC) with chiral liquid phases, N-stearoyl-L -valine tert-butylamide and/or N-stearoyl-L -leucine tert-butylamide. In order to make effective use of these phases and also to lower the viscosity, Apiezon C was added as diluent. Through a repeated operation of a temperature gradient, purities more than 99% of leucine and α-amino butyric acid derivatives were proved to be obtained. © 1993 Wiley-Liss, Inc.     

Vibrational CD studies of the solution conformation of N-urethanyl-L-amino acid derivatives

The solution conformations of several N-urethanyl-L -amino acids in 0.2–0.002M chloroform and 0.2M dimethylsulfoxide have been investigated by using vibrational circular dichroism (VCD), ir absorption, and ¹³C-nmr spectroscopies. Both the N-carbobenzoxy (N-CBZ) and N-t-butoxycarbonyl derivatives of L -alanine, L -proline, L -valine, and L -phenylalanine, and N-CBZ-serine were studied. The ¹³C-nmr results indicate that the molecules occur predominantly as the cis isomer about the C? N peptide bond at room temperature. The interpretation of the strong VCD couplet in the carbonyl-stretching region using the degenerate coupled oscillator model is consistent with the conformational range of ? = ?60° to ?90° and ψ = 30° to 90° for molecules forming acid dimers. Conformations with an intramolecularly hydrogen-bonded C₇ ring are also present, which give rise to biased VCD features in the NH-, CH-, and C?O-stretching regions that can arise due to vibrationally generated ring currents.     

Continuous enzymatic transformation in an enzyme membrane reactor with simultaneous NAD(H) regeneration

Multienzyme reaction systems with simultaneous coenzyme regeneration have been investigated in a continuously operated membrane reactor at bench scale. NAD(H) covalently bound to polyethylene glycol with a molecular weight of 10⁴ [PEG-10,000-NAD(H)] was used as coenzyme. It could be retained in the membrane reactor together with the enzymes. L -leucine dehydrogenase (LEUDH) was used as catalyze for the reductive amination of α-ketoisocaproate (2-oxo-4-methylpentanoic acid) to L -leucine. Format dehydrogenease (FDH) was used for the regeneration of NADH. Kinetic experiments were carried out to obtain data which could be used in a kinetic model in order to predict the performance of an enzyme membrane reactor for the continuous production of L -leucine. The kinetic constants V_max and K_m of enzymes are all in the same range regardless of whether native NAD(H) or PEG-10,000-NAD(H) is used as coenzyme. L -leucine was produced continuously out of α-ketoisocaproate for 48 days; a maximal conversion of 99.7% was reached. The space-time yield was 324 mmol/L day (or 42.5 g/L day).     

Far-infrared spectra of copoly(- -amino acids)

Far-infrared spectra in the region from 700 to 200 cm^?1 were measured for the copolymers of L -alanine and glycine, those of L -alanine and L -valine, those of L -alanine and L -leucine, and those of L -alanine and L -phenylalanine. The observed spectra were interpreted on the basis of the analysis of the far-infrared spectra of the corresponding homopolymers, and the correlation between the conformations of the copolymers and the kinds of the component amino acids was discussed.     

Copolymerization kinetics of N-carboxyanhydrides of some α-amino acids: Influence of nature of amino acids

Studies on copolymerization kinetics of N-carboxyanhydride (NCA) of O-acetyl-L -tyrosine (T) with NCAs of L -valine (V) and glycine (G) were carried out in dioxane at 25°C with n-butylamine as initiator. The reactivity ratios for the VT system were found to be r_V:r_T:0.57:0.22; and for the GT system, r_G:r_T:0.26:0.42. A comparison of this data with that obtained when L -analine was used in place of L -valine or glycine showed that in the three systems, the reactivity ratio of the amino acid residue with a greater tendency to form ordered secondary structure was greater than that of its comonomer. Among the variable comonomers (glycine, L -alanine, L -valine) of O-acetyl-L -tyrosine, it is again L -alanine, whose tendency to form helical structure is very high, that has the greater reactivity ratio.     

Structure in solution of protected homo-oligopeptides of L-valine,L-isoleucine,and L-phenylalanine: An infrared absorption study

Monodisperesed, N-and C-Protected homo-oligopeptides [number (n) of resides from 2 to 5] of L -valine, L -isoleucine, and L -phenylalnine were studied by ir absorption spectroscopy between 1200 and 350 cm^?1 at various solvents. The solvents and chain-length effects were examined for non-hydrogen-bonded peptide groups. The frequencies of the self-associated species are consistent with a model derived from the amide data. Self-association species are consistent with a model derived from the amide data. Self-association is favored by higher values of n = 2, the peptide is insoluble when more than two chains are bonded. For n = 3, 4, several chains may be associated by sliding along one another and remain soluble. For n = 2, the peptide is insoluble when more than two chains are bonded. For n = 3, 4, several chains may be associated by sliding along one another and remain slouble. For n = 5, the effect of n is to favour a model in which two chains exactly face each other so that the peptide precipitates at relatively low concentration.     

Plant sexual systems, dichogamy, and herkogamy in the Venezuelan Central Plain

Sexual system, temporal variation in sex expression, and herkogamy were evaluated in 210 plant species in the Venezuelan Central Plain (VCP). This analysis was conducted considering the life forms, habitats, flowering time, pollination systems, and dispersal syndromes of the plant species. Hermaphrodite species dominated the community (75.2%; N=158), followed by monoecious taxa (17.1%; N=36), and then dioecious (7.6; N=16). Most species were adichogamous (=homogamous) (75.2%; N=155), followed by protandrous (16.5%; N=34), and protogynous (8.3%; N=17). The frequency of herkogamous species was higher (N=124; 60.2%) than the non-herkogamous (N=82; 39.8%). The three reproductive traits interacted significantly in a way that complements their effectiveness in promoting cross-pollination and avoidance of pollen–stigma interference: hermaphrodite-adichogamous species occurred in similar frequency to herkogamous and non-herkogamous species; monoecious-adichogamous species were mostly herkogamous, and all hermaphrodite, functionally dioecious-adichogamous, species were herkogamous. Sexual system, herkogamy, and dichogamy are associated with habitats in the savanna-forest mosaic of the VCP. The proportion of dioecious species decreased from trees to annual herbs and from forest to disturbed areas. Dichogamous species were most frequent for herbaceous plants, and non-herkogamous species dominated in annual herbs. The frequency of herkogamous species decreased from forest to disturbed areas. Sexual system was significantly associated with pollination system. Most dioecious and monoecious species had generalist pollination. A three-factor log linear analysis indicated that for any combination significantly. Sexual systems and herkogamy were associated with the respective seed dispersal syndrome. Most dioecious and herkogamous species were dispersed by frugivores, while monoecious plants tended to be dispersed by granivores and wind. Flowering time of dioecious species peaked during the dry–rainy transition period, whereas that of monoecious species was greatest during the rainy season. Therefore, specific biotic and abiotic conditions may enforce the occurrence of unisexuality in the community. In a similar way, dichogamous species tend to flower during the rainy season, associated with herbaceous life form and wind pollination. These results are discussed in the context of evolutionary and ecological trends.     

Variations in the turn-forming characteristics of N-acyl proline units.

We have examined intramolecular hydrogen bonding in four homologous compounds, N-acetyl-, N-propionyl-, N-i-butyryl-, and N-pivaloyl-proline-methylamide, in methylene chloride, by means of 1H-nmr and ir measurements. At room temperature, the major trans conformer of MeCO-Pro-NHMe appears to be approximately 68% intramolecularly hydrogen bonded, the trans conformers of EtCO-Pro-NHMe and i-PrCO-Pro-NHMe are approximately 75% intramolecularly hydrogen bonded, and t-BuCO-Pro-NHMe is approximately 50% intramolecularly hydrogen bonded. Thus, the internally hydrogen-bonded state (C7 or gamma-turn) is significantly less populated for the N-pivaloyl compound than for the other three molecules in this series. Variable temperature measurements indicate that for each proline derivative there is very little enthalpic difference between the intramolecularly hydrogen-bonded and nonhydrogen bonded states of the trans rotamer. Changing the N-terminal acyl group also affects intramolecular hydrogen bonding (including beta-turn formation) in end-blocked Pro-Gly dipeptides.     

Association studies of N-acetyl-amino acid N,N-dimethylamides in carbon tetrachloride

The self-association of N-acetylglycine N,N-dimethylamide, N-acetyl-L -valine N,N-dimethylamide, and N-acetyl-L -phenylalanine N,N-dimethylamide in carbon tetrachloride was investigated by using ir and ¹H-nmr methods. It was concluded from ir measurements that the associated species is the dimer formed as a result of the simultaneous formation of two intermolecular hydrogen bonds. This is supported by the results of ¹H-nmr measurements. Thermodynamic quantities for the association were determined from the temperature and concentration dependence of the NH proton chemical shifts of the sample solutions. Compared with the Gly derivative, L -Val and L -Phe derivatives have larger values of ?ΔH for association, which shows good correlation with Δv_NH values, the difference between the maxima of the monomer and dimer bands, obtained from ir spectra. This is due to the less stable monomer conformation and to the stronger intermolecular hydrogen bonding of the dimers in L -Val and L -Phe derivatives. The line shapes of both methyl proton resonances of L -Val residue and methylene proton resonances of L -Phe residue were found to vary with concentration and temperature of the sample solutions. These data indicate that the rotation about the C^α—C^β bond is restricted by the steric hindrance present in the associated dimers. All these experimental results can be related to the fact that L -Val and L -Phe derivatives have a warped framework because of the bulky side chains, whereas the Gly derivative has a planar framework.     

Initiation of somatic embryogenesis in Pinus banksiana, P. strobus, P. pinaster, and P. sylvestris at three laboratories in Canada and France

During 2002–2004, three laboratories in Canada and France collaborated to improve initiation of somatic embryogenesis (SE) in jack pine (Pinus banksiana Lamb.), eastern white pine (P. strobus L.), maritime pine (P. pinaster Ait.), and Scots pine (P.␣sylvestris L.), giving particular attention to the effects of (1) N-(2-chloro-4-pyridyl)-N′-phenylurea (CPPU) versus various concentrations of 2,4-dichlorophenoxyacetic acid (2,4-D) and benzyladenine (BA), (2) differences in basal nutrient media, i.e., macro- and microelements, and (3) gelling agent concentration. The work was carried out separately at␣each laboratory, but the details of media compositions were shared and tested on their respective species. Results indicate that the developmental stage of the zygotic embryo (ZE) and genotype effects had a large influence on SE initiation, and that genetic effects were consistent over time. Different species responded differently to PGR types and concentration, basal nutrient media, trace elements, and their combinations. Currently, our best initiation rates based on a selected group of genotypes, optimal development stage of ZE, and medium are 3.9% for jack pine, 54.6% for eastern white pine, 76.2% for maritime pine, and 19.7% for Scots pine.     

New Ras CAAX mimetics: Design, synthesis, antiproliferative activity, and RAS prenylation inhibition

Mimetics of the C-terminal CAAX tetrapeptide of Ras protein were designed replacing cysteine (C) by 2-hydroxymethylbenzodioxane or 2-aminomethylbenzodioxane, respectively etherified and amidified with 2′-methyl or 2′-methoxy substituted 2-carboxy-4-hydroxybiphenyl and 2,4-dicarboxybiphenyl. These pluri-substituted biphenyl systems, used as internal spacer and AA dipeptide bioisoster, were linked to the methyl ester of l-methionine, glycine or l-leucine by an amide bond. The resultant twelve pairs of stereoisomers at the dioxane C-2 were tested for antiproliferative effect finding the maximum activity for derivatives with methyleneoxy linker between benzodioxane and 2′-methylbiphenyl. Of these compounds, the one with terminal methionine and S configuration proved a good Ras prenylation inhibitor in a cell-based assay.     

Detection of a single,metal-independent aminopeptidase activity in polymyxin-extracts from Escherichia coli B

Summary The supernatant of Escherichia coli B autolysed in the presence of polymyxin B contains a single, metal-independent aminopeptidase activity (E.C.-group 3.4.1). The enzyme cleaves the 4-nitroanilides of L-alanine, L-lysine, L-leucine, glycine, and weakly L-phenylalanine. The corresponding N-acetyl-L-alanine-, L-glutamic acid- and L-cysteine-derivatives are not attacked.Dedicated to Dr. Hans Poschenrieder on the occasion of his 75th birthday.     

Waterlogging and fire impacts on nitrogen availability and utilization in a subtropical wet heathland (wallum)

Protein, amino acids and ammonium were the main forms of soluble soil nitrogen in the soil solution of a subtropical heathland (wallum). After fire, soil ammonium and nitrate increased 90- and 60-fold, respectively. Despite this increase in nitrate availability after fire, wallum species exhibited uniformly low nitrate reductase activities and low leaf and xylem nitrate. During waterlogging soil amino acids increased, particularly γ-aminobutyric acid (GABA) which accounted for over 50% of amino nitrogen. Non-mycorrhizal wallum species were significantly (P < 0.05) ¹⁵N-enriched (0.3–4.3‰) compared to species with mycorrhizal associations (ericoid-type, ecto-, va-mycorrhizal) which were strongly depleted in ¹⁵N (-6.3 to -1.8‰). Lignotubers and roots had δ¹⁵N signatures similar to that of the leaves of respective species. The exceptions were fine roots of ecto-, ecto/va-, and ericoid type mycorrhizal species which were enriched in ¹⁵N (0.1–2.4‰). The 5¹⁵N signatures of δ¹⁵N_{total soil N} and δ¹⁵N_{soil NH4+} were in the range 3.7–4.5‰, whereas δ¹⁵N_{soil NO3?} was significantly (P < 0.05) more enriched in ¹⁵N (9.2–9.8‰). It is proposed that there is discrimination against ¹⁵N during transfer of nitrogen from fungal to plant partner. Roots of selected species incorporated nitrogen sources in the order of preference: ammonium > glycine > nitrate. The exception were proteoid roots of Hakea (Proteaceae) which incorporated equal amounts of glycine and ammonium.     

Nitrogen Transfer Between Plants: A 15N Natural Abundance Study with Crop and Weed Species

An increasing amount of evidence indicates that N can be transferred between plants. Nonetheless, a number of fundamental questions remain. A series of experiments was initiated in the field to examine N transfer between N₂-fixing soybean (Glycine max [L.] Merr.) varieties and a non-nodulating soybean, and between N₂-fixing peanut (Arachis hypogaea L.) or soybean and neighboring weed species. The experiments were conducted in soils with low N fertilities and used differences in N accumulation and/or ¹⁵N natural abundance to estimate N transfer. Mixtures of N₂-fixing and non-nod soybean indicated that substantial inter-plant N transfer occurred. Amounts were variable, ranging from negligible levels to 48% of the N found in the non-nod at maturity. Transfer did not appear to strongly penalize the N₂-fixing donor plants. But, in cases where high amounts of N were transferred, N content of donors was noticeably lowered. Differences were evident in the amount of N transferred from different N₂-fixing donor genotypes. Results of experiments with N₂-fixing crops and the weed species prickly sida (Sida spinosa L.) and sicklepod (Senna obtusifolia [L.] Irwin & Barneby) also indicated substantial N transfer occurred over a 60-day period, with amounts accounting for 30–80% of the N present in the weeds. Transfer of N, however, was generally very low in weed species that are known to be non-hosts for arbuscular mycorrhizae (yellow nutsedge, Cyperus esculentus L. and Palmer amaranth, Amaranthus palmeri [S.] Watson). The results are consistent with the view that N transfer occurs primarily through mycorrhizal hyphal networks, and they reveal that N transfer may be a contributing factor to weed problems in N₂-fixing crops in low N fertility conditions.     

Plant species identity surpasses species richness as a key driver of N2O emissions from grassland

Grassland ecosystems worldwide not only provide many important ecosystem services but they also function as a major source of the greenhouse gas nitrous oxide (N₂O), especially in response to nitrogen deposition by grazing animals. To explore the role of plants as mediators of these emissions, we tested whether and how N₂O emissions are dependent on grass species richness and/or specific grass species composition in the absence and presence of urine deposition. We hypothesized that: (i) N₂O emissions relate negatively to plant productivity; (ii) four‐species mixtures have lower emissions than monocultures (as they are expected to be more productive); (iii) emissions are lowest in combinations of species with diverging root morphology and high root biomass; and (iv) the identity of the key species that reduce N₂O emissions is dependent on urine deposition. We established monocultures and two‐ and four‐species mixtures of common grass species with diverging functional traits: Lolium perenne L. (Lp), Festuca arundinacea Schreb. (Fa), Phleum pratense L. (Php) and Poa trivialis L. (Pt), and quantified N₂O emissions for 42 days. We found no relation between plant species richness and N₂O emissions. However, N₂O emissions were significantly reduced in specific plant species combinations. In the absence of urine, plant communities of Fa+Php acted as a sink for N₂O, whereas the monocultures of these species constituted a N₂O source. With urine application Lp+Pt plant communities reduced (P < 0.001) N₂O emissions by 44% compared to monocultures of Lp. Reductions in N₂O emissions by species mixtures could be explained by total biomass productivity and by complementarity in root morphology. This study shows that plant species composition is a key component underlying N₂O emissions from grassland ecosystems. Selection of specific grass species combinations in the context of the expected nitrogen deposition regimes may therefore provide a key for mitigation of N₂O emissions.     

Effects of grazing on photosynthetic characteristics of major steppe species in the Xilin River Basin,Inner Mongolia,China

Species composition and photosynthetic characteristics of dominant species of ungrazed plot (UG), overgrazed plot (OG), and restored grazed plot (RG) were determined in the Xilin River Basin, Inner Mongolia, China. Both heavily grazing and restoration significantly affected the composition of different species and life forms. Leymus chinensis, Stipa grandis, and Cleistogenes polyphylla, three dominant perennial grasses in UG plot, contributed 58.9 % aboveground biomass to that of whole community, and showed higher net photosynthetic rate (P _N), transpiration rate (E), and intrinsic water-use efficiency (WUE). In OG plot, relative biomass of L. chinensis and S. grandis significantly decreased, while relative biomass of three shrubs/sub-shrubs, Caragana microphylla, Artemisia frigida, and Kochia prostrata, obviously increased. Heavy grazing significantly decreased P _N, E, and WUE of L. chinensis and S. grandis, while shrubs/sub-shrubs showed significantly higher photosynthetic activity and WUE than the grasses. After 18-year restoration, photosynthetic activities of L. chinensis and S. grandis were significantly higher than those in the OG plot. The proportion of L. chinensis, S. grandis, and C. microphylla significantly increased, and relative biomass of C. polyphylla, A. frigida, and K. prostrata markedly declined in RG plot. We found close relationships between physiological properties of species and their competitive advantage in different land use types. Higher photosynthetic capability means more contribution to total biomass. The variations in physiological characteristics of plants could partly explain the changes in species composition during degrading and restoring processes of Inner Mongolia typical steppes.