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  • 1
    ISSN: 1520-4995
    Source: ACS Legacy Archives
    Topics: Biology , Chemistry and Pharmacology
    Type of Medium: Electronic Resource
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  • 2
    ISSN: 1434-4475
    Keywords: Glyceraldehyde-3-phosphate dehydrogenase ; Lactate dehydrogenase ; Radiation damage ; Ribonuclease ; Serum albumin ; Small-angle X-ray scattering
    Source: Springer Online Journal Archives 1860-2000
    Topics: Chemistry and Pharmacology
    Description / Table of Contents: Abstract Measurements carried out withLDH andGAPDH in the presence of 2mM DTT established a strong protective effect ofDTT against the X-ray induced aggregation of these enzymes. The initial increase of $$\tilde R$$ upon irradiation ofLDH andGAPDH in the presence of 2mM DTT was found to be even lower than the increase of $$\tilde R$$ observed when serum albumin was irradiated in the absence ofDTT. However, the observed decrease of $$\bar x$$ ofLDH andGAPDH at the early stages of irradiation suggested the occurrence of fragmentation of the enzymes as another consequence of radiation damage. This finding is discussed in context with the results from previous scattering experiments and electrophoretic studies on malate synthase.
    Notes: Abstract The X-ray induced aggregation of ribonuclease, lactate dehydrogenase (LDH), glyceraldehyde-3-phosphate dehydrogenase (GAPDH) and serum albumin in aqueous solution was monitored in situ by means of small-angle X-ray scattering. The time dependence of several molecular parameters viz. the apparent radius of gyration $$\tilde R$$ , the maximum visible diameterD, the mean degree of aggregation $$\bar x$$ , and the mean radius of gyration $$\bar R$$ was used to compare the various proteins with each other and with malate synthase which has been studied previously (P. Zipper andH. Durchschlag, Radiat. and Environm. Biophys., 1980). Measurements carried out with ribonuclease,LDH and serum albumin in the absence of dithiothreitol (DTT) and withGAPDH in the presence of 0.2mM DTT established the following series for the rates of aggregation of the proteins under these conditions: ribonuclease〉LDH〉GAPDH〉serum albumin. The rate of aggregation ofGAPDH was found to be of similar magnitude as that obtained for malate synthase under comparable experimental conditions (presence of 0.2mM DTT, similar X-ray intensity) in our previous study. Within six hours from the beginning of irradiation (i.e. about the time required for the exposure of one complete scattering curve under the conditions of our experiments) the following increases of $$\tilde R$$ resulted: ribonuclease 9%,LDH 7%,GAPDH 4%, serum albumin〈1%. Changes of $$\tilde R$$ exceeding 1% are, of course, too high to be tolerated in conventional scattering experiments.
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  • 3
    Electronic Resource
    Electronic Resource
    Springer
    European biophysics journal 28 (1999), S. 510-515 
    ISSN: 1432-1017
    Keywords: Key words Bead model ; Rigid macromolecules ; Overlapping ; Diffusion coefficients ; Intrinsic viscosity
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Physics
    Notes: Abstract For the calculation of hydrodynamic properties of rigid macromolecules using bead modelling, models with overlapping beads of different sizes are used in some applications. The hydrodynamic interaction tensor between unequal overlapping beads is unknown, and an oversimplified treatment with the Oseen tensor may introduce important errors. Here we discuss some aspects of the overlapping problem, and explore an ad hoc form of the interaction tensor, proposed by Zipper and Durchschlag. We carry out a systematic numerical study of the hydrodynamic properties of a two-spheres model, showing how the Zipper-Durchschlag correction removes efficiently the numerical instabilities, and predicts the correct limits.
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  • 4
    Electronic Resource
    Electronic Resource
    Springer
    Monatshefte für Chemie 111 (1980), S. 1367-1390 
    ISSN: 1434-4475
    Keywords: Aggregation process, model ; Malate synthase ; Radioprotection ; Small-angle X-ray scattering ; Structure and kinetics ; X-Ray induced aggregation
    Source: Springer Online Journal Archives 1860-2000
    Topics: Chemistry and Pharmacology
    Description / Table of Contents: Zusammenfassung Röntgenkleinwinkeluntersuchungen an wäßrigen Lösungen von Malatsynthase zeigten eine mit der Meßdauer ansteigende Zunahme der Streuintensität im Innenteil der Streukurve. Dieser Intensitätsanstieg spiegelt zweifelsohne eine durch die Röntgenbestrahlung induzierte Aggregation der Enzymteilchen während der Röntgenkleinwinkelmessung wider. Diese Aggregation ist offensichtlich auf einen durch die Primärstrahlung verursachten Strahlenschaden zurückzuführen. Das Fortschreiten der Aggregation der Malatsynthase wurde mit Hilfe der Röntgenkleinwinkelstreuungin situ verfolgt. Zu diesem Zweck wurden Streukurven bei verschiedenen Aggregationsstadien aufgenommen. Die Analyse dieser Kurven zeigte die Zunahme der Teilchendimensionen, das Beibehalten des Pseudodickenfaktors des nativen Enzyms und das Auftreten eines und später zweier Pseudoquerschnittsfaktoren an. Diese Ergebnisse lieferten Hinweise, wie die Aggregation ablaufen könnte, und führten zu einem möglichen Modell für den Aggregationsvorgang. Demnach sollte auf eine eindimensionale, laterale Aggregation der oblaten Enzymteilchen eine zweidimensionale Aggregation folgen. Ein Fortschreiten der Aggregation in der dritten Dimension konnte während der Dauer des Experimentes nicht beobachtet werden. Die zeitliche Abhängigkeit molekularer Parameter, z. B. des apparenten mittleren Streumassenradius, wurde für den Vergleich der Aggregation von Enzymproben, die unter verschiedenen experimentellen Bedingungen bestrahlt wurden, herangezogen. Durch Zugabe von Dithiothreitol oder Ethanol zu den Enzymlösungen oder durch die Anwesenheit der Substrate oder eines Substratanalogen konnte die Aggregationsgeschwindigkeit herabgesetzt werden.
    Notes: Abstract Small-angle X-ray scattering measurements on malate synthase in aqueous solution revealed a continuous increase of the intensity in the innermost portion of the scattering curve with increasing measuring time. We have definite evidence that this increase reflects an X-ray induced aggregation of the enzyme particles in the course of the small-angle X-ray scattering experiment. Obviously this aggregation is a consequence of a radiation damage of the particles by the primary beam used in the scattering experiment. The aggregation process of malate synthase was monitoredin situ by smallangle X-ray scattering. For this purpose scattering curves were taken at various stages of aggregation. The analysis of these curves established the increase of the particle dimensions, the retention of the pseudo thickness factor of the native enzyme and the occurrence of one and later on of two pseudo cross-section factors. These results suggest the way how the aggregation might proceed. The results led to a tentative model of the aggregation process in which a one-dimensional side-by-side association of the oblate enzyme particles is followed by a two-dimensional aggregation. An aggregation in the third dimension was not observed during the time covered by our experiment. The time dependence of molecular parameters, for instance of the apparent mean radius of gyration, was used to compare the aggregation of enzyme samples that were irradiated under different experimental conditions. The addition of dithiothreitol to the enzyme solutions as well as the presence of the substrates or of a substrate analogue or of ethanol were found to reduce the rate of aggregation.
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  • 5
    ISSN: 1434-4475
    Keywords: Aggregation ; Inactivation ; Malate Synthase ; Radioprotection ; Small-Angle X-Ray Scattering ; X-Ray Damage
    Source: Springer Online Journal Archives 1860-2000
    Topics: Chemistry and Pharmacology
    Description / Table of Contents: Zusammenfassung Die durch Röntgenbestrahlung in wäßriger Lösung induzierte Inaktivierung und Aggregation des Enzyms Malatsynthase wurden mit der Methode der Röntgenkleinwinkelstreuung und mit Enzymtests untersucht. Die Enzymaktivität nimmt mit zunehmender Dosis annähernd exponentiell ab. Die Inaktivierungsgeschwindigkeit hängt linear von der Dosisleistung ab; die Extrapolation auf Dosisleistung null ergab einen endlichen Grenzwert der Inaktivierungsgeschwindigkeitskonstante. Die InaktivierungsdosisD 37 ist eine lineare Funktion der Enzymkonzentration. Enzymtests und Röntgenkleinwinkelstreuexperimente an Proben, welche vorher bereits bestrahlt worden waren, zeigten keinen direkten Zusammenhang zwischen Aggregation und Inaktivierung. Die Substrate Glyoxylat und Acetyl-CoA sowie das Substratanaloge Pyruvat vermögen das Enzym gegen Strahlenschäden zu schützen, jedoch in unterschiedlichem Ausmß gegen Aggregation (Pyruvat 〉 Glyoxylat 〉 Acetyl-CoA) oder Inaktivierung (Glyoxylat 〉 Pyruvat ≫ Acetyl-CoA; letzteres zeigte keinen Effekt). Diese Befunde und die Schutzwirkung von Dithiothreitol gegen die Aggregation und Inaktivierung des Enzyms werden in Zusammenhang mit der Bildung von Wasserstoffperoxid diskutiert. Als weitere Erklärungen für die Schutzwirkungen werden die mögliche Abschirmung strahlenempfindlicher Gruppen des Enzyms durch die Substrate und der Einfang von Radikalen in Erwägung gezogen. Während die neuartige Anwendung der Röntgenkleinwinkelstreuung auf dem Gebiet der Radiobiologie Aufschluß über strahleninduzierte Strukturänderungen von Biopolymeren und deren Kinetik gibt, läßt sich das Auftreten von Strahlenschäden bei konventionellen Röntgenkleinwinkelmessungen an Biopolymeren durch verschiedene Vorkehrungen reduzieren.
    Notes: Abstract The X-ray induced inactivation and aggregation of the enzyme malate synthase in aqueous solution were investigated by small-angle X-ray scattering and enzymic tests. Enzymic activity decreases about exponentially with increasing dose. The rate of inactivation depends linearly on the dose rate; the extrapolation to zero dose rate yielded a finite limiting value of the rate constant of inactivation. The inactivation doseD 37 is a linear function of enzyme concentration. Enzymic tests and small-angle X-ray scattering on samples, which had been X-irradiated before the measurements, showed no direct relation between aggregation and inactivation. The substrates glyoxylate and acetyl-CoA and the substrate analogue pyruvate are able to protect the enzyme against radiation damage, however to a different extent against aggregation (pyruvate 〉 glyoxylate 〉 acetyl-CoA) or inactivation (glyoxylate 〉 pyruvate ≫ acetyl-CoA; the latter showed no effect). These findings and the protective effect of dithiothreitol against aggregation and inactivation of the enzyme are discussed in context with the formation of hydrogen peroxide. A possible shielding of radiosensitive groups of the enzyme by the substrates and scavenging are also taken into consideration as explanations for the protective effects. While the novel application of small-angle X-ray scattering in the field of radiation biology delivers information on X-ray induced structural changes of biopolymers and on their kinetics, the occurrence of radiation damages in conventional small-angle X-ray scattering measurements on biopolymers can be reduced by a variety of precautions.
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  • 6
    ISSN: 1434-4475
    Keywords: Additives ; Aggregation ; Malate synthase ; Radiation damage ; Radioprotection ; Time-resolved small-angle X-ray scattering
    Source: Springer Online Journal Archives 1860-2000
    Topics: Chemistry and Pharmacology
    Description / Table of Contents: Zusammenfassung Die röntgeninduzierte Aggregation des Sulfhydrylenzyms Malatsynthase in wäßriger Lösung wurdein situ mittels zeitaufgelöster Röntgenkleinwinkelstreuung messend verfolgt. Streuexperimente wurden in An- bzw. Abwesenheit verschiedener Zusätze durchgeführt: Formiat, Superoxiddismutase, Catalase, NaCl, Acetyl-CoA, Glyoxylat, Malat, Pyruvat, α-Ketobutyrat, Oxalacetat, Glycolat, Lactat. Die Streukurven wurden als Funktion der Bestrahlungsdauer registriert. Die Auswertung lieferte Streumassenradien, Aggregationsgrade, Abstandsverteilungsfunktionen, und daraus abgeleitete Parameter. Die Bestrahlung in Abwesenheit von Zusätzen verursachte eine starke Aggregation der Enzymteilchen. Jeder der Zusätze verminderte die Aggregation, wenn auch in unterschiedlichem Ausmaß. Der OH Fänger Formiat verringerte die Aggregation wirksam; weniger stark ausgeprägte Effekte ergaben sich für die $$O_2^{\bar .}$$ bzw. H2O2 Fänger Superoxiddismutase bzw. Catalase und für NaCl. Substrate und Substratanaloge reduzierten das Ausmaß der Aggregation besonders wirkungsvoll; der Schutzeffekt dieser Substanzen kann durch ihre zweifache Wirkung als Fänger bzw. spezifische Liganden erklärt werden. Ausgehend von diesen Ergebnissen werden einige Schlußfolgerungen für die Durchführung üblicher Röntgenkleinwinkelexperimente an Biopolymeren abgeleitet.
    Notes: Abstract The X-ray induced aggregation of the sulfhydryl enzyme malate synthase in aqueous solution was monitoredin situ by time-resolved small-angle X-ray scattering. Experiments were performed in the absence/presence of various additives: formate, superoxide dismutase, catalase, NaCl, acetyl-CoA, glyoxylate, malate, pyruvate, α-ketobutyrate, oxaloacetate, glycollate, lactate. The scattering curves were measured as a function of the time of irradiation and were analysed in terms of radii of gyration, degrees of aggregation, distance distribution functions, and parameters derived therefrom. Irradiation in the absence of additives resulted in a strong aggregation of enzyme particles. Each of the additives impeded aggregation, however to a different extent. The OH scavenger formate reduced aggregation efficiently; less pronounced effects were registered for superoxide dismutase and/or catalase (the scavengers for $$O_2^{\bar .}$$ and H2O2), and for NaCl. Very pronounced diminutions of the aggregation phenomena were provided by substrates or analogues; the efficiency of these substances as radioprotectors may be explained by their action as both scavengers and specific ligands. Based on these results some implications for the performance of conventional small-angle X-ray scattering experiments on biopolymers are derived.
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  • 7
    ISSN: 0006-3525
    Keywords: hemoglobin ; hexagonal bilayer ; Lumbricus ; electron microscopy ; three-dimensional reconstruction ; small-angle x-ray scattering ; three-dimensional models ; Chemistry ; Polymer and Materials Science
    Source: Wiley InterScience Backfile Collection 1832-2000
    Topics: Chemistry and Pharmacology
    Notes: The quaternary structure of Lumbricus terrestris hemoglobin was investigated by small-angle x-ray scattering (SAXS). Based on the SAXS data from several independent experiments, a three-dimensional (3D) consensus model was established to simulate the solution structure of this complex protein at low resolution (about 3 nm) and to yield the particle dimensions. The model is built up from a large number of small spheres of different weights, a result of the two-step procedure used to calculate the SAXS model. It accounts for the arrangement of 12 subunits in a hexagonal bilayer structure and for an additional central unit of cylinder-like shape. This model provides an excellent fit of the experimental scattering curve of the protein up to h = 1 nm-1 and a nearly perfect fit of the experimental distance distribution function p(r) in the whole range. Scattering curves and p(r) functions were also calculated for low-resolution models based on 3D reconstructions obtained by cryoelectron microscopy (EM). The calculated functions of these models also provide a very good fit of the experimental scattering curve (even at h 〉 1 nm-1) and p(r) function, if hydration is taken into account and the original model coordinates are slightly rescaled. The comparison of models reveals that both the SAXS-based and the EM-based model lead to a similar simulation of the protein structure and to similar particle dimensions. The essential differences between the models concern the hexagonal bilayer arrangement (eclipsed in the SAXS model, one layer slightly rotated in the EM model), and the mass distribution, mainly on the surface and in the central part of the protein complex. © John Wiley & Sons, Inc. Biopoly 45: 289-298, 1998
    Additional Material: 4 Ill.
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  • 8
    Publication Date: 2003-08-01
    Print ISSN: 0175-7571
    Electronic ISSN: 1432-1017
    Topics: Biology , Physics
    Published by Springer
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  • 9
    Publication Date: 2009-03-24
    Print ISSN: 0175-7571
    Electronic ISSN: 1432-1017
    Topics: Biology , Physics
    Published by Springer
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  • 10
    Publication Date: 2009-03-12
    Print ISSN: 0175-7571
    Electronic ISSN: 1432-1017
    Topics: Biology , Physics
    Published by Springer
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