Small-angle x-ray studies on malate synthase from baker's yeast.

Malate synthase was investigated in solution by the small-angle X-ray scattering technique. The substrate-free enzyme was shown to have a molecular weight of 186000, a radius of gyration of 3.96 nm, a maximum particle diameter of 11.2 nm, a volume of 343 nm³, a radius of gyration of the thickness of 1.04 nm, and an axial ratio of 1:0.33. The enzyme molecule undergoes small changes in overall structure upon binding substrates. Investigation of the enzyme under prolonged exposure to X-rays led to an aggregation of the enzyme and allowed statements concerning the way of aggregation and factors influencing aggregation.     

Small-angle X-ray scattering studies on the X-ray induced aggregation of malate synthase

Summary Malate synthase was investigated by the small-angle X-ray scattering technique in aqueous solution. Measurements extending for several hours revealed a continuous increase of the intensity in the innermost portion of the scattering curve. There is clear evidence that this increase was caused by an X-ray induced aggregation of enzyme particles during the performance of the small-angle X-ray scattering experiment. The monitoring of the aggregation process in situ by means of small-angle X-ray scattering led to a model of the way how the aggregation might proceed. The analysis of the scattering curves of malate synthase taken at various stages of aggregation established the retention of the thickness factor of the native enzyme and the occurrence of one and later on of two cross-section factors. The process of aggregation was also reflected by the increase of extension of the distance distribution function. According to these results, the first step of aggregation might be a linear side-by-side association of the oblate enzyme particles, a process which is followed by a twodimensional aggregation. An aggregation in the third dimension was not observed during the time covered by our experiment. The predominance of aggregation in only one or two dimensions was corroborated by comparison of appropriate theoretical scattering curves with the experimental curves. The theoretical scattering curves for this comparison were obtained by averaging over the properly weighted scattering curves calculated for various species of hypothetical aggregates. The time dependence of the apparent mean radius of gyration was used to compare the aggregation of enzyme samples that were irradiated under different experimental conditions. It turned out that by addition of dithiothreitol to the enzyme solutions as well as in the presence of the substrates (acetyl-CoA, glyoxylate) or of a substrate analogue (pyruvate) or of ethanol the rate of aggregation is reduced. Enzymic activity was found to decrease about exponentially with increasing X-ray dose. The presence of dithiothreitol or of the substrate glyoxylate or of the substrate analogue pyruvate protects the enzyme against X-ray induced inactivation. The substrate acetyl-CoA does not exhibit a comparable protective effect against inactivation. Measurements of enzymic activity and small-angle X-ray scattering on samples, which had been X-irradiated with a defined dose prior to the measurements, established two different series of efficiency for the protection of the enzyme against aggregation (pyruvate > glyoxylate > acetyl-CoA) and inactivation (glyoxylate > pyruvate > $$ " align="middle" border="0"> acetyl-CoA). The results showed that there is no direct relation between the extent of aggregation and the loss of enzymic activity.     

Spermine-DNA complexes build up metastable structures. Small-angle X-ray scattering and circular dichroism studies.

Spermine-DNA complexes have been examined by small-angle and wide-angle X-ray scattering as well as by circular dichroism studies. Condensed complexes are building up below a critical ionic strength. We have found that at one and the same ionic strength condensed complexes having two different supramolecular structures (Type I and Type II) can coexist. The structure of the condensates depends on the method of condensate formation. Phase transitions between these structures can be induced by thermal treatment. We conclude from these facts that with polyamine-DNA condensates metastable structures are of importance.     

Purification and properties of a new enzyme,propioin synthase in baker's yeast which forms propioin from propionaldehyde

The new enzyme, propioin synthase, concerned with the formation of propioin from propionaldehyde was purified 270-fold from the crude enzyme in a yield of 28% by protamine sulfate precipitation, ammonium sulfate fractionation and G-200 gel chromatography using citrate-phosphate buffer (0.1 M Na₂HPO₄–0.02 M citric acid, pH 6.8, containing 0.33 mM MgSO₄, 0.1 mM thiamine pyrophosphate, 2.5 mM MnSO₄ and 30 mM β-mercaptoethanol). The purified enzyme was homogeneous on disc gel electrophoresis. It was most active at pH 6.8–7.0 and 37°C, and stable at pH 7–8 and below 45°C. Its activity was enhanced by FeSO₄·7H₂O, MnSO₄, thiamine pyrophosphate, β-mercaptoethanol, MgSO₄, CaCO₃, and NaCl, and inhibited by AgNO₃, HgCl₂, CuSO₄, ZnSO₄, SnCl₂, NH₄Cl, (CH₃COO)₂Pb·3H₂O, iodoacetic acid, FeCl₃·6H₂O, and (NH₄)₂SO₄. Its molecular weight was 96,000 by sedimentation equilibrium, and 100,000 by Sephadex G-200 column chromatography.     

Nicotinamide mononucleotide adenylyltransferase. Molecular and enzymatic properties of the homogeneous enzyme from baker's yeast

Nicotinamide mononucleotide (NMN) adenylyltransferase has been purified to homogeneity from baker's yeast crude extract. The purification procedure is relatively simple and consists of high-salt extraction of enzyme activity and precipitation with poly(ethylenimine), followed by ion-exchange and dye ligand chromatography separations. The final enzyme preparation is homogeneous as judged by a single Coomassie blue stainable band when run on nondenaturating and denaturating polyacrylamide gels. The native enzyme shows a molecular weight of about 200 000, calculated by gel filtration and sucrose gradient centrifugation. The protein possesses quaternary structure and is composed of four apparently identical Mr 50 000 subunits. The absorption spectrum shows a maximum at 280 nm and a minimum at 253 nm. The isoelectric point is 6.2. Amino acid composition analysis shows the presence of 28 half-cystine residues. The same result has been obtained by titrating the enzyme in denaturating conditions with Ellman's reagent after incubation with sodium borohydride. NMN adenylyltransferase is a glycoprotein containing 2% sugar, 2 mol of alkali-labile phosphate per mole of enzyme, and 1 mol of adenine moiety per mole of enzyme. Therefore, the possibility that the enzyme is ADP-ribosylated exists. The Km values for ATP, NMN, and nicotinate mononucleotide are 0.11 mM, 0.19 nM, and 5 mM, respectively. Kinetic analysis reveals a behavior that is consistent with an ordered sequential Bi-Bi mechanism. The pH optimum is in the range 7.2-8.4.     

Purification and properties of tryptophan synthase from baker's yeast (Saccharomyces cerevisiae).

Tryptophan synthase was purified from baker's yeast. The purified enzyme exhibited one band on polyacrylamide-gel electrophoresis, had no detectable N-terminal amino acid and C-terminal alanine. The amino acid composition was close to that predicted by recent studies on the DNA sequence of the structural gene for the enzyme. Kinetic parameters for the following three activities were measured: indole-serine condensation, indolylglycerol phosphate lyase and the overall reaction of serine with 1-(indol-3-yl)glycerol 3-phosphate. The Km for indole was much lower than suggested by previous investigations, and the value of 11 microM was measured by a fluorimetric assay.     

Structure of bacteriophage T7. Small-angle X-ray and neutron scattering study.

Small-angle x-ray and neutron scattering techniques were applied to bacteriophage T7 solutions at different scattering densities. Scattering curves determined under a variety of experimental conditions were used to derive a set of parameters characterizing the shape, size, and weight of the whole phage particle and of its DNA and protein components. The T7 head has an icosahedral shape with an edge of 37.7 +/- 0.5 nm, a volume of (12.0 +/- 1.0) x 10(4) nm3, and a small tail amounting to 6--7% of the head volume. The intraphage DNA region is most probably a hollow sphere. The best fit to the data was obtained with a model in which the hollow sphere filled with a protein core with a diameter of 24 nm. The average degree of swelling (i.e., the ratio of the hydrated to the dry volume) of the particle is 2.3; the degree of swelling of the DNA component is higher, 3.2, and that of the protein part is lower, 1.2.     

Small-angle X-ray scattering studies of oxidized and reduced cytochrome oxidase from Pseudomonas aeruginosa

Small-angle X-rays scattering experiments were performed with oxidized and reduced cytochrome oxidase purified from Pseudomonas aeruginosa. The radii of gyration were calculated to be 40.5 A for the oxidized form and 37.0 A for the reduced. The longest dimension of the oxidized enzyme was 120 A while for the reduced it was 100 A. The volume of the oxidized protein was observed to be slightly greater than that of the reduced. These data indicate that there is a contraction of the structure of the enzyme during reduction of its constituent heme groups.     

Purification and some properties of malate synthase from the methylotrophic yeast Hansenula polymorpha

Abstract Malate synthase, one of the key enzymes in the glyoxylate cycle, was purified 122-fold to homogeneity from ethanol-grown Hansenula polymorpha . SDS-polyacrylamide gel electrophoresis showed that the enzyme has a subunit size of 62 000 daltons. The molecular mass of native malate synthase was determined to be 250 000 daltons by gel filtration, indicating that the enzyme is a tetramer. Cell fractionation studies and immunogold staining, carried out on ultrathin sections of ethanol-grown H. polymorpha , using malate synthase-specific antibodies, showed that malate synthase was localized in the matrix of peroxisomes.     

Studies on deoxyribonucleoprotein structure. Small-angle X-ray scattering in solutions of various ionic strengths.

The cross-sectional radius of gyration of the deoxyribonucleoprotein (DNP) threads was measured by small-angle X-ray scattering in a wide range of ionic strengths (from 0.0005 to 2 M NaCl). For DNP in a solution of low ionic strength, this value is 30 Å. The increase of ionic strength results in partial deproteinization of DNP, while the cross-sectional radius of gyration varies from 25 Å for DNP in 0.7 M NaCl to 10 Å for DNP in 2 M NaCl. It is suggested that gradual deproteinization by the increase of NaCl concentration causes conformational changes, which are associated with the alteration of the DNP superstructure. The data are interpreted on the basis of the superhelical model of DNA packing in DNP; however, the coexistence of superhelical and unfolded regions in the DNP structure is also a possibility.