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PubMed1992

Structural analysis and comparison of cobrotoxin and cardiotoxins by near-IR Fourier transform Raman spectroscopy.

Venom toxins were isolated from Formosan cobra (Naja naja atra) by cation-exchange chromatography. The near-IR FT-Raman analytical method has been applied to the characterization and classification of the toxin components in their lyophilized forms. Structural analysis and comparison of various purified toxin fractions were made with respect to their amino acid compositions and near-IR Fourier-transform Raman spectra. The results indicate that the major secondary structure of cobra toxins including cobrotoxin and various cardiotoxins is mainly anti-parallel beta-pleated sheet as judged by the Raman signals at 1238 cm-1 (amide III) and 1671 cm-1 (amide I). It is also found that the relative Raman signal intensities of Tyr, Phe, Trp and Met residues in purified toxins correlate very well with the structural data obtained from amino acid analysis. The advantage and improvement of applying the near-IR FT-Raman spectroscopy to the unambiguous classification and comparison of venom toxins are evident and the discrepancies with previous Raman studies on these venom toxins are also revealed and discussed.

Animals↗

PubMed1986

Structural analysis and immunogenicity of Pseudomonas aeruginosa immunotype 2 high molecular weight polysaccharide.

We analyzed high molecular weight polysaccharide (PS) from the Fisher immunotype 2 (IT-2) strain of Pseudomonas aeruginosa for molecular composition and structure, then determined its immunogenicity in healthy adults. The PS was composed of 2-acetamido-2,6-dideoxygalactose (N-acetyl fucosamine) and glucose in a molar ratio of 2:1. Structural analysis by carbon-13 and proton nuclear magnetic resonance confirmed that the high molecular weight PS was structurally identical to that of the O-specific side chain of the lipopolysaccharide. PS differed from this material in molecular size. Immunization of 19 adult volunteers with doses of 50-100 micrograms of PS resulted in significant rises (P less than 0.04-P less than 0.0001) in binding antibody levels and killing antibody titers 2 and 4 wk postimmunization. The only reaction to the vaccine was localized tenderness at the immunization site. Analysis of the immunoglobulin isotype response to the vaccine showed a rise in specific serum IgG and IgA antibodies. Heterologous responses to other P. aeruginosa PS antigens were not seen. The antibody levels attained by vaccination were comparable with those in acute-phase serum samples of patients who survived sepsis with IT-2 P. aeruginosa and were significantly higher (P less than 0.03) than specific antibody levels in bacteremic patients who died. These results confirm that PS is a high molecular weight, immunogenic form of the P. aeruginosa IT-2 serotype antigen, eliciting levels of type-specific antibody comparable with those seen among patients surviving an episode of P. aeruginosa sepsis.

Adult↗

PubMed1992

Structural analysis of three prokaryotic 5S rRNA species and selected 5S rRNA--ribosomal-protein complexes by means of Pb(II)-induced hydrolysis.

Lead ions have been applied to the structural analysis of 5S rRNA from Thermus thermophilus, Bacillus stearothermophilus and Escherichia coli. Based on the distribution of Pb(II)-induced cleavages, some minor modifications of the consensus secondary structure model of 5S rRNA are proposed. They include the possible base pairing between nucleotides at positions 11 and 109, as well as changes in secondary interactions within the helix B region. The 'prokaryotic arm' region is completely resistant to hydrolysis in the three RNA species, suggesting that it is a relatively stable, highly ordered structure. Hydrolysis of E. coli 5S rRNA complexed with ribosomal protein L18 shows, besides the shielding effect of the bound protein, a highly enhanced cleavage between A108 and A109. It supports the concept that the major L18-induced conformational change involves the junction of helices A, B and D.

Autoradiography↗

PubMed1988

Crystallographic structure analysis of lamprey hemoglobin from anomalous dispersion of synchrotron radiation.

The molecular structure of lamprey hemoglobin was previously determined and refined by conventional crystallographic analysis. In this study, the structural analysis has been repeated in the course of developing the method of multiwavelength anomalous diffraction (MAD) for phase determination. New experimental and analytical procedures that were devised to perform this determination should have general applicability. These include an experimental design to optimize signal strength and reduce systematic errors, experimental evaluation of anomalous scattering factors, and a least-squares procedure for analyzing the MAD data. MAD phases for the structure at 3 A resolution are as accurate overall as the multiple isomorphous replacement (MIR) phases determined previously.

Animals↗

PubMed1987

The corrinoid from Methanobacterium thermoautotrophicum (Marburg strain). Spectroscopic structure analysis and identification as Co beta-cyano-5'-hydroxybenzimidazolyl-cobamide (factor III).

The corrinoids from Methanobacterium thermoautotrophicum were extracted as the Co-cyano derivative, which was isolated in crystalline form. A consistent set of spectroscopic data was acquired (ultraviolet/visible, circular dichroic, infrared, fast-atom-bombardment mass, 1H-NMR and 13C-NMR spectra), which allowed the structural analysis of this complete corrinoid. It was assigned the structure of the Co beta-cyano-5'-hydroxybenzimidazolyl-cobamide and was identified with Friedrich and Bernhauer's 'factor III' by comparison with an authentic sample.

Circular Dichroism↗

PubMed1989

Structural analysis of the carbohydrate chains of a mouse monoclonal IgM antibody.

A mouse monoclonal IgM antibody, directed against human blood group B determinant, was isolated from hybridoma culture growth medium. Chemical analysis indicated presence of N- and O-linked oligosaccharides. The N- and O-linked carbohydrate chains were liberated using two different conditions of reductive alkaline degradation. Structural analysis was carried out on the isolated chains using chemical analysis, 500-MHz 1H-NMR spectroscopy and fast-atom-bombardment mass spectrometry. The following composite structures of the N-linked chains were found: (formula; see text) where R = OH for biantennary structures and R = Neu5Ac alpha 2-3Gal beta 1-4 GlcNAc beta 1- or Neu5Ac alpha 2-3Gal beta 1-3[Neu5Ac alpha 2-6]GlcNAc beta 1- for triantennary structures. The O-linked oligosaccharides, found in the light chains, were shown to have the structure Neu5Ac alpha 2-3Gal beta 1-3GalNAc. The native IgM antibody could be separated on a concanavalin-A-Sepharose column into two subfractions, differing in the presence of a high-mannose-type oligosaccharide.

ABO Blood-Group System↗

PubMed1992

[Modeling in biology. Structured analysis of intracellular calcium oscillations in electrically non-excitable cells].

In this paper a systematic approach to the mathematical modeling of intracellular Ca2+ oscillations is introduced. After a structured analysis a stochastic model of the system is derived which is numerically tractable by means of a stochastic simulation. A critical discussion of theoretical models for Ca2+ oscillations reveals that not all of the proposed mechanisms are consistent with experimental data. In addition, a model for oscillatory calcium waves is presented. Uncovering these mechanisms facilitates the design of anti-mitotic drugs interfering with Ca2+ metabolism.

Animals↗

PubMed1989

Structural analysis of glycosyl-phosphatidylinositol antigens of Leishmania major.

Three glycosyl-phosphatidylinositol glycolipids recognized by antibodies from patients with cutaneous leishmaniasis were extracted from Leishmania major promastigotes by hexane:isopropanol and then purified by thin layer chromatography and LH-20 gel chromatography. Structural analysis was carried out using chemical analyses, fast atom bombardment mass spectrometry, and 1H NMR. The major structures deduced can be summarized as follows: (formula: see text) where n = 0, 1, 2; R1 = (CH2)23-CH3; R2 = (CH2)14-CH3 or (CH2)16-CH3. Alkyl-acyl substitutions in the glycerol backbone showed considerable heterogeneity. These three glycolipids belong to a relatively new class of compounds and may represent sequential steps in the biosynthesis of glycosyl-phosphatidylinositols which anchor proteins or other glycoconjugates to Leishmania cell membranes.

Animals↗

PubMed1991

Structural analysis of a glycosylphosphatidylinositol glycolipid of Leishmania donovani.

A glycosylphosphatidylinositol (GPI) glycolipid antigen recognized by sera from patients with visceral leishmaniasis was isolated from Leishmania donovani promastigotes. The carbohydrate moiety was cleaved from the lipid part by digestion with specific phosphatidylinositol phospholipase C. After separation, structural analysis was carried out on the phosphorylated inositol oligosaccharide and the alkylacyl glycerol. The following major structures were found: [formula: see text] The presence of the conserved sequence Man alpha 1-2Man alpha 1-6Man alpha 1-4GlcN-PI of glycosyl phosphatidylinositol protein anchors in this antigen may be consistent with a precursor role of Leishmania glycosyl phosphatidylinositol anchored proteins for this glycolipid.

Animals↗

PubMed1979

[Sonographic structural analysis of circumscribed organ processes--possibilities and limitations (author's transl)].

For the clinical examination three sonographic patterns - cystic, solid and mixed - are defined. Using 8 characteristics cases the difficulties of structure analysis are discussed and the problems involved in recognizing the mixed pattern are explained.

Abscess↗

PubMed1979

Isolation and structural analysis by mass analysed ion kinetic energy spectroscopy of diverse sidechains from steroids of similar tetracyclic carbon skeletons.

The technique of mass analysed ion kinetic energy spectroscopy has been applied to the structural determination of five different substituent sidechains from five steroids of similar ring anatomy. A mass spectrometer of reversed geometry, which permits ion selection according to its mass-to-charge ratio before the ions enter the electric sector, was used to isolate the ion corresponding to the mass of each particular sidechain. Subsequent mass analysed ion kinetic energy spectra of the selected ion demonstrated daughter ions whose compositions were compatible with the structures of the model compounds. This ability to determine the structure of a specific portion of a large molecule and to permit differentiation of minor structural features in a series of compounds, whose major framework is similar, adds a new dimension to the powerful mass analysed ion kinetic energy spectroscopy technique for structural analysis of complex biological molecules.

Chemical Phenomena↗

PubMed1991

Structural analysis of proteins by laser desorption and electrospray mass spectrometry.

The development of electrospray and matrix-assisted laser desorption mass spectrometry has provided protein chemists with tools for peptide and protein structure analysis with unprecedented sensitivity and molecular weight range. The two technologies can be viewed as competitive with respect to their molecular mass determinations, but complementary with respect to their differences in instrumentation, sample preparation methods, and nature of spectra produced.

Animals↗

PubMed1992

Structural analysis of five new monosialylated oligosaccharides from human milk.

The total monosialylated oligosaccharide fraction from pooled human milk was isolated by gel filtration and ion-exchange chromatography. Further separation by HPLC using a mobile phase containing an ion-pairing reagent of triethylamine gave five new monosialylated oligosaccharides. Structural analysis was carried out by chemical analyses, fast atom bombardment mass spectrometry, and 500-MHz NMR spectroscopy. Combined structural data revealed the following new structures: [formula: see text]

Carbohydrate Conformation↗

PubMed1992

Medical knowledge for clinical problem solving: a structural analysis of clinical questions.

Despite technological advances that support wide-ranging access to and transfer of knowledge, practicing physicians continue to underutilize current biomedical literature. This paper explores the nature of clinically applicable medical knowledge through a structural analysis of clinical questions. The author analyzed a set of sixty questions, based on actual online search requests of practicing physicians, for stated and unstated needs, certainty levels, implicit and explicit assumptions, decision-making processes, and type of answer required. As a result, four states of information valuable in patient care were identified: prediagnostic assessment, diagnosis, treatment choice, and learning. These states are presented in frame-like structures that integrate declarative and procedural components of medical decision making. It is concluded that clinical problem solving requires a blend of declarative and procedural knowledge. The ratio depends, in part, upon the reasoning process underway at the time of the request. Procedural knowledge required for clinical problem solving may be absent from current biomedical journal literature or difficult to identify.

Decision Making↗

PubMed1991

Structural analysis of phospholipase A2 by near-IR Fourier transform Raman spectroscopy.

Venom toxins were isolated from Formosan cobra (Naja naja atra) by cation-exchange chromatography. Most toxin components could be obtained in relatively pure forms by single-step ion-exchange chromatography whereas an extra step of gel permeation was needed for the separation of phospholipase A2 (PLA2) from the major neurotoxic component, i.e. cobrotoxin. The newer near-IR FT-Raman analytical method has been applied to the characterization of PLA2 in their lyophilized forms. Structural analysis of PLA2 and correlation of Raman spectroscopic data with amino acid compositions were made. The results indicate that phospholipase A2 showed the Raman peak at 1659 cm-1 which is characteristic of the alpha-helical structure in this enzyme. It is also found that the relative Raman signal intensities of Tyr, Phe, Trp and Met residues in purified toxins correlate very well with the structural data obtained from amino acid analysis. The application of near-IR FT-Raman techniques in the detection of the microenvironments of the aromatic amino acids such as Tyr and Trp in the native toxins may prove useful in the investigation of the functional properties of various venom toxins.

Amino Acids↗

PubMed1990

Isolation and structural analysis of three new disialylated oligosaccharides from human milk.

Five disialylated oligosaccharides, of which three were new compounds, were isolated from pooled human milk. The isolation procedure included gel filtration and ion-exchange chromatography and the final purification was accomplished by HPLC using a mobile phase containing triethylamine as an ion-pairing reagent. Structural analysis was carried out by chemical analyses, fast atom bombardment mass spectrometry, and 500-MHz NMR spectroscopy. The following new structures were found: (formula; see text).

Carbohydrate Conformation↗

PubMed1976

Structural analysis of phosphatidylcholines of Yoshida ascites hepatoma and liver cells from host rats fed a control and an essential fatty acid-deficient diet.

In order to study the effect of a dietetic manipulation on the phospholipid molecular structure of a poorly differentiated tumor, the phosphatidylcholines from Yoshida hepatoma cells (AH130) grown either in essential fatty acid deficient or control rats were analyzed comparatively to those from the host livers. Due to essential fatty acid deficiency, the host rat liver exhibited an increased level of mono-unsaturated 1,2-diacyl-sn-glycero-3-phosphocholines, a reduced level of the species contained linoleic acid, and the substitution of tetra- and polyunsaturated-1,2-diacyl-sn-glycero-3-phosphocholines with equivalent amounts of species containing eicosatrienoic acid. The structural analysis of the phosphatidylcholines from Yoshida hepatoma cells grown either in control or essential fatty acid deficient rats revealed the occurrence of 1-alkyl-2-acyl- together with 1,2-diacyl-sn-glycero-3-phosphocholines. The alkyl chains of ether-linked phosphatidylcholines were mainly constituted by 18 : 1, while the acyl chains were characterized by a high level of linoleic and arachidonic or eicosatrienoic acids. The 1,2-diacyl-sn-glycero-3-phosphocholines of the Yoshida hepatoma cells grown in control rats, when compared to those of the liver, showed a higher level of 1,2-disaturated, an increased proportion of mono-unsaturated and a lower proportion of tetra- and polyunsaturated species. In addition, the hepatoma cells showed the occurrence of high proportions of reverse isomeric and random species, such as 1-oleoyl-2-palmitoyl-, 1,2-dioleoyl-, 1-oleoyl-2-linoleoyl- and 1-linoleoyl-2-oleoyl-sn-glycero-3-phosphocholines, scarcely represented in the liver. Growth of Yoshida hepatoma cells in essential fatty acid deficient rats resulted in :(i) the disappearence of 1,2-diacyl-sn-glycero-3-phosphocholines containing linoleic acid; (ii) the substitution of tetra- and and polyunsaturated 1,2-diacyl-sn-glycero-3-phosphocholines with small quantities of species containing eicosatrienoic acid; (iii) an increase of of monounsaturated species, mainly 1-stearoyl-2-oleoyl- and 1-palmitoyl-2-palmitoleoyl-sn-glycero-3-phosphocholines; (iv) a remarkable increase of 1,2-dioleoyl-sn-1,2-dioleoyl-sn-glycero-3-phosphocholine.

Animals↗

PubMed1979

The CAN1 locus of Saccharomyces cerevisiae: fine-structure analysis and forward mutation rates.

A system of strains and growth media was developed to allow efficient detection of forward mutation, reversion, complementation, and suppression at the canavanine-resistance (CAN1) locus of Saccharomyces cerevisiae. Genetic fine-structure analysis revealed that the map length is at least 40, and possibly as much as 60 X-ray map units; this is the longest gene map yet reported in S. cerevisiae. Allelic complementation was not observed, despite testing of a large number of allele pairs, and alleles suppressible by the ochre suppressor SUP11 were absent from a sample of 48 spontaneous mutants and occurred infrequently (7%) among a sample of ultraviolet-induced mutants. Infrequent mutant types included canavanine-resistant mutants capable of arginine uptake and alleles thought to represent deletions or inversions. In contrast to previous reports in the literature, the spontaneous forward mutation rate at CAN1 did not increase during meiosis.

Alleles↗