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PubMed1969

Reversible thermal conformation changes in human serum low-density lipoprotein.

Human serum beta(1) (LDL(2)) lipoprotein was preparatively divided into three subfractions on the basis of density, and the protein conformation was investigated by optical rotatory dispersion and circular dichroism. The protein conformation was found to vary substantially as a function of lipid composition and temperature in a gradual and reversible manner. Surprisingly, the reversible temperature range includes physiological temperature. From the character of the spectra, it appears that alpha-helix, disordered, and beta conformations can be present in the protein moiety. The presence of these conformations and their distribution appears to depend upon both lipid content and temperature. The importance of this conformational flexibility in its relation to the role of the lipoprotein in lipid transport is discussed.

Chemical Phenomena↗
PubMed1992

Occurrence of free D-aspartic acid in marine macroalgae.

The biologically rare D-aspartic acid was found in extracts of marine macroalgae. DL-aspartic acid was isolated from the Phaeophyta, Hizikia fusiformis, by ion-exchange chromatography, and crystallized from aqueous ethanol. It was characterized by optical-rotatory-dispersion analysis and reversed-phase HPLC analysis. The crystal consisted of equal amounts of D and L isomers. The presence of free D-aspartic acid was verified in 15 species from among 20 species of marine macroalgae by the same method (HPLC). Generally, Phaeophyta contained a high concentration of D-aspartic acid in contrast with the low concentration in Phycophyta and Rhodophyta. Particularly in Costaria costata, Hizikia fusiformis and Sargassum yezoensis, belonging to Phaeophyta, D-aspartic acid was found in concentrations proportional to those of L-aspartic acid.

Aspartic Acid↗
PubMed1975

Denaturation and proteolytic digestion of porcine low-density lipoprotein in aqueous guanidine hydrochloride solutions.

The denaturation of porcine low-density lipoprotein (LDL) in aqueous guanidine hydrochloride (GuHCl) was studied by flotation velocity experiments, optical rotatory dispersion and fluorescence spectroscopy. The denaturation of LDL occurred between 2 and 4M GuGCl, where small sigmoidal changes in iptical rotation and fluorescence intensity were noted. The hydrated density of the native LDL was 1.036g/cm-3 and this remained constant upon denaturation in 4M GuHCl. The slope of the flotation coefficient-solvent density curve was 35 per cent less for denatured LDL than for the native LDL. Since there is no indication of splitting of LDL in 4M GuHCl, it is natural to interpret the result in terms of an increase of the translational frictional coefficient by 50 per cent. The observed changes in optical rotation, fluorescence intensity and flotation coefficient in 4M GuHCl were readily reversed and native LDL was recovered after removal of GuHCl by dialysis. Proteolytic treatment of denatured LDL produced digested LDL which had a hydrated density of 1.021g/cm-3 corresponding to the loss of 30 per cent of apo-LDL. The digested LDL behaved like a compact, globular particle in aqueous NaCl solution and in 4M GuHCl. These results can best be interpreted by a model of the LDL particle in which approximately 30 per cent of apo-LDL is exposed to the solvent, such that it can be reversibly denatured by GuHCl and at the same time is easily avalable to proteolytic enzymes, whereas the rest of apo-LDL is tightly associated with lipids and possibly buried inside the lipid moiety. SDS-polyacrylamide gel electrophoresis of the digested LDL revealed four major peptide fragments with sizes ranging from 70,000 to 100,000 daltons. We believe that the method and results described in this paper will have meaningful applications in the study of membrane proteins.

Animals↗
PubMedDate not supplied

[Secondary structure of the polyhedral protein of the nuclear polyhedrosis virus of Bombyx mori and some of its fragments].

The secondary structure of polyhedral protein of the nuclear polyhedrosis virus of Bombyx mori and some of its fragments has been investigated by circular dichroism and optical rotatory dispersion. It has been shown that the protein contains 6% alpha-helices and 26% beta-structures at pH 10.5. The conversion of beta-pleated sheets to alpha-helices after the treatment with sodium dodecyl sulfate was observed. A correlation between the number of alpha-helices in the fragment BrCN-V and its ability to aggregate in aqueous solutions was observed. It was suggested that the COOH-terminal region of polypeptide chain of polyhedral protein makes a considerable contribution to the aggregation of subunits of the polyhedral protein.

Animals↗
PubMed1975

Broad-specificity proteinase inhibitors in Scopolia japonica (Solanaceae) cultured cells. Isolation, physicochemical properties, and inhibition kinetics.

Proteinase inhibitors were isolated from Scopolia japonica cultured cells. Isolation procedures involve concentration by a hydrophobic resin of Diaion HP-20, decolorization by Duolite A-7, affinity chromatography on trypsin-Sepharose, and Bio-Gel P-4 chromatography. It was found that the proteinase inhibitors from S. japonica cells are a mixture of at least five components. For the inhibitory components except one, amino acid analyses, measurements of sedimentation equilibrium and optical rotatory dispersion (ORD) were carried out. The inhibitors were shown to be the polypeptides with molecular weights in the range of approximately 4000 to 6000. In addition, one of them was found to have approximately 15% alpha-helical conformation by the Moffitt-Yang analysis of ORD data. The inhibitors were found to have potent inhibitory activity for trypsin, chymotrypsin, plasmin, kallikrein and pepsin but not for papain with synthetic and natural substrates. These inhibitors formed stable complexes with trypsin and chymotrypsin in an equimolar ratio, and their inhibitory mechanisms for both enzymes were of non-competitive type.

Amino Acids↗
PubMed1979

Interaction of human apohemoglobin with inositol hexaphosphate.

Experiments of sedimentation velocity and equilibrium indicate that in the presence of inositol hexaphosphate the degree of polymerization of apohemoglobin is shifted in favor of the formation of tetramers, with a maximum effect when the concentration of the polyphosphate is 1 mM. Above this concentration, a redissociation of the system into dimers is promoted. This phenomenon is probably due to the binding of inositol hexaphosphate to apohemoglobin with a stoichiometry higher than 1 mol of polyphosphate/4 subunits. The optical rotatory dispersion spectrum of apohemoglobin is also modified by its interaction with inositol hexaphosphate suggesting a small increase in the helical content of the protein. Measurements of circular dichroism in the near-UV region of the spectrum indicate that the environment of the aromatic chromophores of the protein such as tyrosine, phenyalanine, and tryptophan is not affected by the interaction. The presence of inositol hexaphosphate decreases the rate of reaction of the beta-93 cysteinyl residues of apohemoglobin with both p-mercuribenzoate and N-ethylmaleimide, suggesting a conformational change of the protein also at the level of its tertiary structure.

Apoproteins↗
PubMed1998

Spectroscopic evidence for nanosecond protein relaxation after photodissociation of myoglobin-CO.

Nanosecond time-resolved absorption and magnetic optical rotatory dispersion (MORD) measurements of photolyzed myoglobin-CO visible bands (500-650 nm) are presented. These measurements reveal a 400 ns process, spectrally distinct from ligand recombination, that accounts for 7% of the observed spectral evolution in the visible absorption bands and 4% in the MORD. The time-resolved MORD, more sensitive to heme coordination geometry than absorption, suggests that this process is most likely associated with protein relaxation on the distal side of the heme pocket, perhaps accompanying rehydration of the deoxymyoglobin photoproduct or accommodation of protein side chains to ligand escape.

Animals↗
PubMed1970

The recombination of dimers of immunoglobulin peptide chains.

1. Both the gamma and light peptide chains of human pooled and myeloma immunoglobulin G can be prepared as non-aggregating dimers at pH5.4 in 4mm-sodium acetate buffer. The dimeric state is maintained by non-covalent bonds, since the formation of interchain disulphide bonds was prevented by alkylation of the thiol groups. In the case of the light chains there is some evidence that the dimers are in equilibrium with a small amount of monomer. 2. When such dimers of the gamma and light chains are mixed at pH5.4 in 4mm-sodium acetate buffer they combine rapidly, yielding a product that resembles the original immunoglobulin G in its physicochemical and antigenic properties. However, the original optical rotatory dispersion spectrum was regained only with the homogeneous myeloma protein. The recombined pooled immunoglobulin G had a spectrum slightly different from the original, suggesting that at least some of the recombinant molecules had not regained native conformations. 3. Dimers of gamma chains stabilized by interchain disulphide bonds were able to recombine with light chains. However, light chains stabilized in the dimeric state by interchain disulphide bonds would not combine with gamma chains. 4. The chains of rabbit immunoglobulin G behave similarly to the human chains in this system, apart from the alkylated light chains showing clearer evidence of monomeric components.

Animals↗
PubMed1977

Stereochemical studies of the pyruvate kinase reaction with (Z)- and (E)-phosphoenol-alpha-ketobutyrate.

(Z)-and (E)-phosphoenol-2-ketobutyrate were synthesized. [3-2H]-2-Ketobutyrates were formed from both isomers in the pyruvate kinase reaction in 2H2O and were converted to chiral propionates. Authentic (2S)-[2-2H]propionic acid was also prepared, and the optical rotatory dispersion curves of the propionates were compared. The rotation compared with standard propionate at 240 nm of sodium (2R)-[2-2H]propionate from the Z isomer was 47% (i.e., 53% was RS), and of (2S)-[2-2H]propionate from the E isomer was 29% (i.e., 71% was RS). Protonation at C-3 of the 2 si, 3 re face of the pseudosubstrates would have yielded (2R)- and (2S)-[2-2H]propionates from the Z and E analogues, respectively. An explanation offered for the nonstereoselective protonation that occurred is dissociation of the enol from the enzyme and subsequent random protonation in solution.

Animals↗
PubMed1975

Further studies on the binding of divalent cations to the phosphoglycoprotein phosvitin.

Dialysis equilibrium measurements at 25 degrees indicate that, at pH 6.8 and at a concentration of 1.0 times 10(-10) 3 M MnC12 or CoC12, phosvitin binds 113 Mn2+ and 120 Co2+. The binding is cooperative at low cation concentrations. The number of Mg2+, Ca2+, Mn2+, and Co2+ bound is not affected by temperatures of up to 60 degrees; however, the cooperactivity is enhanced. Optical rotatory dispersion and circular dichroism studies indicate that a conformational change occurs on binding of Mn2+ and Co2+ which parallels the one produced by Ca2+ and reported elsewhere [Grizzuti, K., and Perlmann, G.E. (1973), Biochemistry 12, 4399]. The conformational changes induced by Mg2+ and Mn2+ follow different paths. Upon binding of Mn2+ and Co2+ the intrinsic viscosity, [eta], of phosvitin decreases from about 0.5 to 0.03 dl/g, while Mg2+ and Ca2+ decrease [eta] to 0.048 dl/g. The ultraviolet absorption spectrum of phosvitin is altered upon binding of Ca2+, Mn2+, and Co2+, but not upon binding of Mg2+; an increase of the temperature to 60% has no further effect on the spectra.

Binding Sites↗
PubMed1969

Dehydration of prostaglandins: study by spectroscopic method.

The ultraviolet (UV) and optical rotatory dispersion (ORD) spectra of prostaglandins E(1), A(1), B(1), and their naturally derived 15-epimers are presented. The dehydration sequence E --> A --> B under acidic and basic conditions has been studied by UV and ORD. Conditions for quantitative conversion of PGE(1) to PGA(1) are described. The combination of ORD and UV affords a nondestructive assay which can determine the relative amounts of E-, A-, and B-type prostaglandins with as little as 1-2 micro g of material. The total quantity of prostaglandins can be estimated (+/-15%) in this way or, more accurately, by treatment with alkali of an aliquot (200 ng is sufficient) and determination of the change in absorbance at 278 nm.

Chemical Phenomena↗
PubMed1969

A study of the effects of reaction with formaldehyde on some optical and physical properties of reticulocyte ribosomes.

1. The optical rotatory dispersion and ultraviolet-absorption spectrum of ribosomal RNA in situ appear to be unchanged when the ribosome is dissociated into its RNA and protein moieties. 2. Reaction with 0.05% formaldehyde at 20 degrees for 2hr. ;fixes' ribosomes so that they remain intact in 1% sodium dodecyl sulphate. 3. The RNA moiety of the ribosome undergoes a conformational change when ribosomes in 8% formaldehyde are heated at 70 degrees for 10min. and cooled to 20 degrees . After this treatment no double-helical character can be detected, but neither the sedimentation coefficient nor the morphology of the ribosome determined by electron microscopy is altered. 4. It is concluded that the RNA moiety of reticulocyte ribosomes is freely accessible to formaldehyde.

Animals↗
PubMed1970

The structure of bacilysin and other products of Bacillus subtilis.

1. Mass spectra of the trimethylsilyl derivative and the methyl ester of the N-trifluoroacetyl derivative of bacilysin indicated that the antibiotic had a molecular weight of 270. Several peaks in the spectrum of the methyl ester were consistent with the presence of an N-terminal alanine residue in the molecule. 2. The proton-magnetic-resonance spectrum of bacilysin confirmed that the antibiotic contained an epoxide group and the spin-spin splitting of the protons of the epoxide group indicated that the side chain of the epoxycyclohexanone ring was attached at C-4 and was alphabeta to the keto group. 3. The formation of an alphabeta-unsaturated ketone on reduction of bacilysin with chromous chloride also showed that the epoxide was alphabeta to the keto group. 4. The optical-rotatory-dispersion curve of bacilysin showed a positive Cotton effect. On the assumption that the reversed Octant rule for alphabeta-epoxyketones was applicable this revealed the absolute stereochemistry and enabled a definitive structure to be assigned to the molecule. 5. Similar measurements showed that substance AA1, isolated from culture supernatants, was the C-terminal amino acid of bacilysin. 6. Hydrolysis of substance P2 with leucine aminopeptidase and the mass spectrum of the methyl ester of its N-trifluoroacetyl derivative showed that this substance was l-analyl-l-alanine. 7. These results are discussed in relation to the biogenesis of bacilysin.

Alanine↗
PubMed1972

Physical properties and subunit structure of L-asparaginase isolated from Erwinia carotovora.

1. l-Asparaginases from Erwinia carotovora and Escherichia coli (EC2 enzyme) are both capable of inhibiting and eliminating certain types of tumour cells. The Er. carotovora enzyme is a more basic protein, however, and in contrast with the EC2 enzyme it contains neither tryptophan nor cystine, and disulphide bonds are therefore absent. The molecule is very stable in solution from pH3.0 to about pH12.0, and is somewhat more stable at alkaline pH than is the Esch. coli enzyme. Calculations based on a s(0) (20,w) 7.43S and a sedimentation-equilibrium molecular weight of 135000+/-10000 give a frictional ratio (f/f(0)) of 1.08. The molecular conformation is therefore very compact in solution, and the electron microscope shows the negatively stained molecules as almost spherical particles with a diameter of 7.2+/-0.7nm. 2. Sedimentation-velocity and equilibrium ultracentrifugation, in 5-8m solutions of urea and guanidinium chloride, and also electrophoresis in sodium dodecyl sulphate-polyacrylamide gel, reveal a dissociation of the native protein molecule into four subunits of similar molecular weight in the range 32500-38000. The enzymically inactive subunits can be physically reassembled into an active tetramer when urea is removed by dialysis. Although the subunit structures of the Er. carotovora enzyme and the Esch. coli enzyme molecules are similar, the secondary bonding forces holding the subunits together in the tetramer are somewhat stronger in the Er. carotovora enzyme. 3. The optical-rotatory-dispersion (o.r.d.) parameters that characterize the Cotton effects arising from ordered structure in the molecule are [m'](233)=-3522+/-74 degrees and [m'](200)=9096+/-1700 degrees . These show very marked changes as the secondary structure is disrupted and the molecule dissociates into subunits. A correlation pathway was traced on the basis of o.r.d. parameters and enzyme activity as the polypeptide chains were denatured and renatured (and reconstituted) into active molecules after the dilution of solutions in urea. Subunits resulting from treatment with sodium dodecyl sulphate do not show the typically disordered o.r.d. profile, but nevertheless they are inactive.

Amino Acids↗
PubMed1982

Ultrastructural and physicochemical studies on glycogen macromolecules from ascites hepatoma AH 13 cells. A comparison with normal adult rat muscle, liver and fetal liver glycogen.

Glycogen extracted from rat ascites hepatoma AH 13 cells was compared with that from adult rat liver, adult rat muscle, and fetal rat liver 3 days before delivery, by electron microscopic, biochemical and physicochemical techniques. The ascites hepatoma AH 13 glycogen revealed two major different types of glycogen macromolecules by sucrose discontinuous density gradient centrifugation. The glycogen of the light fraction was very similar to rat muscle glycogen macromolecules in its size and shape except that it exhibited a stronger Cotton effect on measurement of the optical rotatory dispersion and circular dichroism than the muscle glycogen. Furthermore, this light material different from normal muscle glycogen. The other glycogen which also included very small amounts of irregular particles of glycogen macromolecules was contained in the heavy fraction was very similar to the adult rat liver glycogen macromolecules which did not display the Cotton effect. Electron micrographs showing the ultrastructure of the glycogen particles extracted from the AH 13 cells by negative staining revealed a variety of size and shape, and they contained two types of glycogen macromolecules with the smaller muscle types and larger adult type of liver glycogen macromolecules. The glycogen macromolecules also formed varied irregular structures in conformation.

Animals↗
PubMed1971

Independent folding of the variable and constant halves of a lambda immunoglobulin light chain.

Optical rotatory dispersion and circular dichroism studies of a lambda immunoglobulin light chain and its variable and constant halves are reported. The two fragments, which have been extensively characterized, were isolated after proteolytic digestion of the lambda-chain. A dichroism band at 217 nm, previously found to be characteristic of all immunoglobulins, was given by both the variable and constant halves. In other respects, the fragments yielded clearly different spectra, reflecting differences in their conformations. Comparisons of the theoretical curves calculated for an equimolar mixture of the fragments with the corresponding curves measured for the lambda-chain showed that most of the minimal conformational changes accompany cleavage of the polypeptide into its halves. This suggests that in the intact light chain, the variable and constant parts exist as independently folded regions.

Amino Acids↗
PubMed1976

beta Structure of aqueous staphylococcal enterotoxin B by spectropolarimetry and sequence-based conformational predictions.

Conformations of the globular protein staphylococcal enterotoxin B have been examined experimentally by ultraviolet circular dichroism (CD) and visible optical rotatory dispersion (ORD). Chen-Yang-Chau analysis (Chen, Y.-H., Yang, J.T., and Chau, K. H. (1974), Biochemistry 13, 3350) of the far-ultraviolet CD spectrum of native enterotoxin B revealed (assuming an average helix length of 11 residues) 9% alpha helix, 38% beta structure, and 53% random coil. A fourfold increase in alpha-helix was observed for enterotoxin exposed to 0.2% sodium dodecyl sulfate, behavior typical for globular proteins of low helical content. Values of -40 to -50 for the Moffitt-Yang parameter b0 calculated from visible ORD suggested 6-13% alpha helix in native enterotoxin. Application of a new predictive model (Chou, P. Y., and Fasman, G. D. (1974), Biochemistry 13,222) to the amino acid sequence of enterotoxin B indicated 11% alpha helix, 34% beta structure, and 55% coil in native enterotoxin. The excellent agreement for the amount of alpha and beta conformation utilizing different optical and predictive methods indicates beta structure as the dominant secondary structure in native enterotoxin B. Most of the beta structure is predicted by Chou-Fasman analysis to reside in two large regions of antiparallel beta sheet involving residues 81-148 and residues 184-217. Such highly cooperative regions of anti-parallel beta sheet account for the slow unfolding of enterotoxin B in concentrated guanidine hydrochloride and rapid folding of guanidine hydrochloride denatured enterotoxin B to native conformation(s) (Warren, J.R., Spero, L., and Metzger, J. F. (1974), Biochemistry 13, 1678). A more than twofold increase in alpha-helix content with a small diminution in beta structure was detected by CD and ORD upon acidification of aqueous enterotoxin to pH 2.5. Thus, the beta structure of enterotoxin B appears to resist isothermal denaturation and constitutes a stable interior core of structure in the enterotoxin molecule.

Amino Acid Sequence↗
PubMed1975

State and reactivity of tryptophyl residues in two bacterial proteases from Sorangium sp.

The state and reactivity of tryptophyl residues in two proteolytic enzymes from Sorangium sp. were investigated by means of the following methods: spectrophotometric oxidation of tryptophans with N-bromosuccinimide, 2-hydroxy-5-nitrobenzyl bromide, and H2O2 in dioxane, optical rotatory dispersion, ultraviolet difference spectrophotometry, solvent perturbation and viscosity measurements. Out of two tryptophyl residues/molecule of alpha-lytic protease, one appears to be completely buried, while the other seems to be exposed. None of these two residues seem to be responsible for the activity of the enzyme. The beta-lytic protease undergoes an irreversible conformational transition between pH 5.0 and 3.5. Out of total four tryptophyl residues/molecule, only one is fully exposed at neutral pH. The other three are gradually exposed in the pH transition region. The degree of exposure and the dimensions of "cavities" shielding tryptophyl residues were estimated. The tryptophyl residues of of beta-lytic protease do not seem to participate in substrate binding or the active site; they are rather one of the determinants of the conformational state of the enzyme.

2-Hydroxy-5-nitrobenzyl Bromide↗