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  • Organic Chemistry  (51)
  • Atomic and molecular structure and dynamics  (3)
  • Bradyrhizobium  (3)
  • 1
    ISSN: 1432-2048
    Keywords: Bradyrhizobium ; Electron microscopy ; Glycine (root nodules) ; High-pressure freezing ; Ultrastructure
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract High-pressure freezing of chemically untreated nodules of soybean (Glycine max (L.) Merr.), in sharp contrast to chemical fixation and prefixation, appears to preserve the ultrastructure close to the native state. This is supported by the observation that the peribacteroid membrane of high-pressure-frozen samples is tightly wrapped around the bacteroids, a finding that is fully consistent with the current views on the physiology of oxygen and metabolite transport between plant cytosol and bacteroids. In soybean root nodules, the plant tissue and the enclosed bacteria are so dissimilar that conventional aldehyde-fixation procedures are unable to preserve the overall native ultrastructure. This was demonstrated by high-pressure freezing of nodules that had been pre-fixed in glutaraldehyde at various buffer molalities: no buffer strength tested preserved all ultrastructural aspects that could be seen after high-pressure freezing of chemically untreated nodules.
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  • 2
    ISSN: 1432-072X
    Keywords: Bradyrhizobium ; Electron microscopy ; Mutants ; Nitrogen fixation ; Nodulation ; Soybean ; Symbiosis ; Transposon Tn5
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract The genome of the slow-growing Bradyrhizobium japonicum (strain 110) was mutagenized with transposon Tn5. A total of 1623 kanamycin/streptomycin resistant derivatives were screened in soybean infection tests for nodulation (Nod) and symbiotic nitrogen fixation (Fix). In this report we describe 14 strains possessing a stable, reproducible Nod+Fix- phenotype. These strains were also grown under microaerobic culture conditions to test them for free-living nitrogen fixation activity (Nif). In addition to strains having reduced Fix and Nif activities, there were also strains that had reduced symbiotic Fix activity but were Nif+ ex planta. Analysis of the genomic structure revealed that the majority of the strains had a single Tn5 insertion without any further apparent physical alteration. A few strains had additional insertions (by Tn5 or IS50), or a deletion, or had cointegrated part of the vector used for Tn5 mutagenesis. One of the insertions was found in a known nif gene (nifD) whereas all other mutations seem to affect different, hitherto unknown genes or operons. Several mutant strains had an altered nodulation phenotype, inducing numerous, small, widely distributed nodules. Light and electron microscopy revealed that most of these mutants were defective in different stages of bacteroid development and/or bacteroid persistence. The protein patterns of the mutants were inspected by two-dimensional gel electrophoresis after labelling microaerobic cultures with l-(35S)methionine. Of particular interest were mutants lacking a group of proteins the synthesis of which was known to be under oxygen control. Such strains can be regarded as potential regulatory mutants.
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  • 3
    ISSN: 1432-072X
    Keywords: Bradyrhizobium ; Gene cloning ; Heme ; Marker exchange mutagenesis ; Nitrogen fixation ; Respiration ; Symbiosis
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract Random and site-directed Tn5-induced mutagenesis of Bradyrhizobium japonicum yielded two mutations, one in strain 2960 and the other in strain 2606::Tn5-20, which mapped close to each other but in separate genes. The corresponding wild-type genes were cloned, and their approximate location on the cloned DNA was determined. Mutant 2960 was Fix- and formed green nodules on soybean, whereas strain 2606::Tn5-20 had ca. 4% of wild-type Fix activity and formed white nodules. Cytochrome oxidase assays (Nadi tests) showed a negative reaction with both mutants, indicating a functional deficiency of cytochrome c or its terminal oxidase or both. However, the mutants grew well under aerobic conditions on minimal media with different carbon sources. Furthermore, mutant 2960 had a reduced activity in hydrogen uptake, was unable to grow anaerobically with nitrate as the terminal electron acceptor and 2960-infected soybean nodules contained little, if any, functional leghemoglobin. Southern blot analysis showed that a B. japonicum heme biosynthesis mutant [strain LO505: O'Brian MR, Kirshbom PM, Maier RJ (1987) Proc Natl Acad Sci USA 84: 8390–8393] had its mutation close to the Tn5 insertion site of our mutant 2606::Tn5-20. This finding, combined with the observed phenotypes, suggested that the genes affected in mutants 2960 and 2606::Tn5-20 were involved in some steps of heme biosynthesis thus explaining the pleiotropic respiratory deficiencies of the mutants. Similar to strain LO505, the mutant 2606::Tn5-20 (but not 2960) was defective in the activity of protoporphyrinogen IX oxidase which catalyzes the penultimate step in the heme biosynthesis pathway. This suggests that one of the two cloned genes may code for this enzyme.
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  • 4
    ISSN: 0018-019X
    Keywords: Chemistry ; Organic Chemistry
    Source: Wiley InterScience Backfile Collection 1832-2000
    Topics: Chemistry and Pharmacology
    Notes: Mono-N-substituted azamacrocycles 2-7, containing a carboxyalkyl or carboxyaryl side-chain, are obtained by reacting a five-fold excess of the macrocycle with 1 equiv. of a suitable halogenocarboxylic acid in alkaline aqueous EtOH. For halogenocarboxylic acids, which easily lactonize under alkaline conditions, a variant with the corresponding ester or nitrile as alkylating agent is also described. The salient point of this synthesis lies in the use of an excess of the macrocycle over the alkylating agent, thus reducing the amount of polyalkylation to a minimum, and in the easy separation of the excess of unreacted educt from the aminocarboxylic acid. These new ligands form Ni2+ and Cu2+ complexes, the spectral properties of which have been studied. In the case of the Cu2+ complexes with ligand 2, 3, and 6, a pH-dependent color change is observed. This is explained with an equilibrium between a species, in which the carboxylate group is bound to the metal, and one, in which it is protonated and non-coordinated. In the case of the Ni2+ complexes with the same ligands, only the species with a coordinated carboxylate was observed. In the Cu2+ and Ni2+ complexes with ligands 4 and 5, however, the carboxylate group does not coordinate at all, because of the length or the special structure of the chain.
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  • 5
    ISSN: 0018-019X
    Keywords: Chemistry ; Organic Chemistry
    Source: Wiley InterScience Backfile Collection 1832-2000
    Topics: Chemistry and Pharmacology
    Notes: The potentiometric study of the complexation of 1,4,7-triazacyclononane-l-acetic acid (1) with Cu2+ (I = 0.5 (KNO3), T = 25°) indicates the presence of the species [Cu(1)], [Cu(1)OH], [Cu(1)2], and [(Cu(1))2OH], the stability constants of which are determined. The two complexes [Cu(1)]ClO4 and [(Cu(1)2)OH]ClO4 were also characterized by X-ray structure analysis. In both cases, the Cu2+ ion is in a distorted square-pyramidal arrangement, penta-coordinated by the three N-atoms of the macrocycle, an O-atom of the carboxylate, and an additional O-atom either from a second carboxylate or from an OH-, acting as a bridge between two metal centres.
    Additional Material: 3 Ill.
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  • 6
    ISSN: 0018-019X
    Keywords: Chemistry ; Organic Chemistry
    Source: Wiley InterScience Backfile Collection 1832-2000
    Topics: Chemistry and Pharmacology
    Notes: By conventional peptide-coupling methods (C to N direction; mixed anhydride, bis(2)-oxooxazolidin-3-yl)phosphinoyl chloride (Bop-Cl), or dicyclohexylcarbodiimide (DCC), 2-amino-2-methyl-3-(methylamino)-propionic acid and 2-amino-2-ethyl-3-(methylamino)propionic acid ( = 2-amino-2-[(methylamino)methyl]butanoic acid) are incorporated in the central position of tri-, penta-, and heptapeptides (see 3-7, 21, and 22). The fragment coupling of the β -amino group of the diamino-acid moiety in a tetrapeptide led to partial epimerization, and thus, two epimeric heptapeptide derivatives were actually obtained (7 and epi-7). The final deprotection to the free heptapeptide (involving a Me3SiI cleavage of BocNH and MeOCONH, a saponification with NaOH, and HPLC purification) gave both the desired product (isopeptide 21), with the β -amino group inside the peptide backbone, and a product (peptide 22) of transpeptidation, with the α-amino group of the diamino acid incorporated and a (methylamino)methyl group as the side chain. Peptide 22 is completely converted to the isopeptide 21 by prolonged treatment with base. The heptapeptide 21 was analyzed by elaborate 2QF-COSY and NOESY NMR measurements in H2O/CD3OD at -5° (Table, Fig.); there is no indication for β -sheet or helical structures, a fact which was also confirmed by CD measurements.
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  • 7
    ISSN: 0018-019X
    Keywords: Chemistry ; Organic Chemistry
    Source: Wiley InterScience Backfile Collection 1832-2000
    Topics: Chemistry and Pharmacology
    Notes: The Cu2+ complex of 1, having a non-coordinating carboxylic group, can be reacted under the typical conditions of peptide formation with amines such as 2-methylpropylamine or (pyrid-2-yl)methylamine to give, after removal of Cu2+ with CN-, the amides 4 and 5. The Cu2+ ion is of paramount importance since it protects the four amino groups of the macrocycle so that the amide condensation can specifically be done with the exogenous amine It is also shown that the Cu2+ complex of 1 can be covalently attached to bovine serum albumin (BSA), thus opening the possibility to use this compound as a labelling agent for proteins and antibodies.
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  • 8
    ISSN: 0018-019X
    Keywords: Chemistry ; Organic Chemistry
    Source: Wiley InterScience Backfile Collection 1832-2000
    Topics: Chemistry and Pharmacology
    Notes: By mixing acidic solutions of 1,4,8,11-tetraazacyclotetradecane (Cy) with CuX2 (X = Cl-, Br-), either the hexahalocuprates of the tetraprotonated form of the macrocycle ([CyH4] [CuX6]) or the tetrahalocuprates of its Cu2+ complex ([CuCy] [CuX4]) are obtained. The structures of the chloro derivatives are established by X-ray diffraction analysis. In [CyH4] [CuCl6], the Cu2+ is in a tetragonally distorted octahedral geometry with four short and two long Cu—Cl bonds. The tetraprotonated macrocycle is centrosymmetric, and its conformation is exodentate, so that the four ammonium groups are as far as possible from each other to minimize the electrostatic repulsion. In [CuCy] [CuCl4], the Cu2+ ion complexed by the macrocycle is surrounded by four N-atoms in a square-planar arrangement. In addition, the axial positions are occupied by two Cl- ions of two CuCl42- units, which act as bridges. The macrocycle is in the trans-III-configuration. The other Cu2+ ion is coordinated by four Cl- ions in a distorted tetrahedral geometry. IR and VIS spectra of the chloro and bromo derivatives are used to discuss the structure of the bromo species.
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  • 9
    Electronic Resource
    Electronic Resource
    New York, NY : Wiley-Blackwell
    Helvetica Chimica Acta 21 (1938), S. 51-56 
    ISSN: 0018-019X
    Keywords: Chemistry ; Organic Chemistry
    Source: Wiley InterScience Backfile Collection 1832-2000
    Topics: Chemistry and Pharmacology
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  • 10
    Electronic Resource
    Electronic Resource
    New York, NY : Wiley-Blackwell
    Helvetica Chimica Acta 78 (1995), S. 1185-1206 
    ISSN: 0018-019X
    Keywords: Chemistry ; Organic Chemistry
    Source: Wiley InterScience Backfile Collection 1832-2000
    Topics: Chemistry and Pharmacology
    Notes: Both enantiomers of tert-butyl 2-(tert-butyl)-5,5-dimethyl-4-oxoimidazolidine-1-carboxylate (11; Bbdmoic) were prepared from L-alanine (Schemes 1 and 2). The parent heterocycle, 2-tert-butyl-5,5-dimethylimidazolidin-4-one (12; from 2-aminoisobutyramide, H-Aib-NH2, and pivalaldehyde) was also available in both enantiomeric forms by resolution with O,O′-dibenzoyltartaric acid. The compound (R)- or (S)-11 was used as an auxiliary, but also as a chiral Aib building block in a dipeptide synthesis. The 3-propanoyl derivative 13 of (R)-11 was used for the preparation of enantiomerically pure 2-methyl-3-phenylpropanoic acid (enantiomer ratio (e.r.) 99.5:0.5), by benzylation of the Zn-enolate (→ 14; Scheme 3). Oxidative coupling of the bis-enolate derived from heptanedioic acid and (S)-11 (→ 23) and methanolysis of the auxiliary gave dimethyl trans-cyclopentane-1,2-dicarboxylate (26) with an e.r. of 93:7 (Scheme 5, Fig. 5). The 3-(Boc-Gly)-Bbdmoic derivative 29 was doubly deprotonated and, after addition of ZnBr2 alkylated with alkyl, benzyl, or allyl halides to give the higher amino-acid derivatives with excellent selectivities (e.r. 〉 99.5:0.5, Schemes 6 and 7). Michael additions of cuprates to [(E)-MeCH=CHCO]-Bbdmoic 36 occurred in high yields, but high diastereoselectivities were only observed with aryl cuprates (diastereoisomer ratio (d.r.) 99:1 for R = Ph, Scheme 8). Finally, 3-(Boc-CH2)-Bbdmoic 17 was alkylated through the ester Li-enolate with primary and secondary alkyl, allyl, and benzyl halides with diastereoselectivities (ds) ranging from 91 to 98%, giving acetals of Boc-Aib-Xxx-O(t-Bu) dipeptides (Scheme 4). The effectiveness of Bbdmoic is compared with that of other chiral auxiliaries previously used for the same types of transformations.
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