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PubMed1976

The nature of alkylurea and urea denaturation of alpha-chymotrypsinogen.

The optical rotatory dispersion of alpha-chymotrypsinogen in aqueous solution became less levorotatory upon the addition of ethyl-, propyl-, or butylurea; less negative values for the Moffitt-Yang parameter, alphao, were also obatined. This change in optical rotation of alpha-chymotrypsinogen induced by the alkylureas was similar in direction and magnitude to that observed for alcohols but was opposite to that caused by unsubstituted urea. It appears, therefore, that the alkylureas share with the alcohols an ability to rearrange alpha-chymotrypsinogen into a non-native yet regularly ordered conformation. The effectiveness of the alkylureas and alcohols as denaturants for this protein increased in the order ethyl less than propyl less than butyl derivatives. An identical rank-order was observed for the ability of the alkylureas and alcohols to diminish attractive forces between aliphatic groups, as measured by a model system based upon the extent of aggregation of glass beads coated with methyl groups. These findings indicate that the denaturing action of alkylureas for alpha-chymotrypsinogen is a function of the substituted aliphatic group and is predominantly hydrophobic in character. Non-hydrophobic interactions of unsubstituted urea with alpha-chymotrypsinogen appear to be critical for unfolding of the protein to a random-coil configuration.

1-Propanol↗
PubMed2005

Ab initio calculation of optical rotation in (P)-(+)-[4]triangulane.

Optical rotation, the angle through which plane-polarized light rotates when passed through an enantiomerically pure medium, plays a vital role in the determination of the absolute configurations of chiral molecules such as natural products. We describe new quantum mechanical methodology designed to assist in this endeavor by providing high-accuracy computational optical rotatory dispersion data for matching to experimental results. Comparison between theory and experiment for the rigid, helical molecule trispiro[2.0.0.2.1.1]nonane [also known as (P)-(+)-[4]triangulane], recently synthesized with enantiomeric purity, shows that the coupled cluster quantum chemical model provides superb agreement for optical rotation across a wide range of wavelengths (589-365 nm), with errors averaging only 1%.

Journal Article↗
PubMed2006

Time dependent density functional theory modeling of chiroptical properties of small amino acids in solution.

Time dependent density functional theory (TDDFT) and the conductor-like screening model (COSMO) of solvation were used to model the specific rotation and optical rotatory dispersion (ORD) of alanine, proline and serine solutions. Zwitterionic, cationic and anionic forms of amino acids were investigated and the results compared with experimental literature data obtained in neutral, acidic and basic conditions, respectively. It was found that TDDFT consistently underestimated the electronic excitation energies of the molecules, leading to calculated optical rotations that are of the correct sign but somewhat larger in magnitude than those of experiment. An additional challenge was encountered in the modeling of serine, an amino acid with a strong tendency to form intramolecular hydrogen bonds. The model used overestimated the extent of such hydrogen bonding for the zwitterions while possibly underestimating such bonding for the cationic form. This effect on the calculated mole fractions of the different conformers had an impact on the specific rotation.

Alanine↗
PubMed1966

The isolation of L(+)-methionine sulphoxide from the blowfly Phormia regina Meigen.

1. l(+)-Methionine sulphoxide has been isolated for the first time from a natural source, the blowfly Phormia regina. 2. The natural compound is shown to be identical with the synthetic by a number of criteria, including optical rotatory dispersion and infrared spectrum. 3. The methionine sulphoxide occurs in only a small concentration in the late larval and early pupal stages of the blowfly, but the titre increases rapidly in the later pupal stage and remains at a high level during the adult stage.

Autoanalysis↗
PubMed1973

The thermal denaturation of human oxyhaemoglobins A, A2, C and S.

1. The time-courses of thermal denaturation of human oxyhaemoglobins A, A(2), C and S at 45 degrees C were studied by following the increase in protein fluorescence. Haemoglobins S and C were less stable than haemoglobin A, whereas haemoglobin A(2) was considerably more stable. 2. The time-courses of denaturation did not follow first-order kinetics and could be fitted most simply to a co-operative scheme in which the partial denaturation of the alpha chain preceded that of the beta chain. 3. The denaturation of these haemoglobins was studied as a function of temperature by using optical rotatory dispersion. Haemoglobin A(2) was again more stable than the others. The addition of small quantities of haemoglobin A(2) had a disproportionate effect on the stability of haemoglobin C. 4. The thermodynamic parameters of the denaturation process were calculated.

Hemoglobin C↗
PubMedDate not supplied

The ionization and optical properties of oxoformycin.

Details are given of the ultraviolet, optical rotatory dispersion and fluorescence spectra of oxoformycin. The pK of formation of the monoanion is 8.6, at 25 degrees C. As formycin B has the same pK value, the ionization of both compounds is ascribed to dissociation of a proton from N-1. Both the neutral and monoanionic forms of oxoformycin are strongly fluorescent.

Antibiotics, Antineoplastic↗
PubMed1970

Some properties of hyalin: the calcium-insoluble protein of the hyaline layer of the sea urchin egg.

The principal protein component of the hyaline layer of sea urchin eggs is the calcium-insoluble protein first described by Kane and Hersh. The protein hyalin is abnormally high in acidic amino acids, almost devoid of basic amino acids, and characteristically rich in valine and proline. Essentially all of the cysteine present is found in the disulfide form; no evidence points to intermolecular disulfide linkages. Hyalin from several species has a minimal subunit weight of about 100,000, though evidence exists for a particle three times this weight in urea or guanidine hydrochloride from one species. Optical rotatory dispersion measurements indicate no alpha-helix content, though the dispersion has unique characteristic features. Addition of small quantities of calcium causes hyalin to gel to a birefringent fibrous form. The fibrous, birefringent form of hyalin is rendered isotropic upon addition of EDTA, but the birefringence is restored with re-addition of divalent cation.

Animals↗
PubMed1993

The existence of conformationally labile (preformed) drug binding sites in human serum albumin as evidenced by optical rotation measurements.

The ability of certain drugs to induce conformational changes in human serum albumin has been examined by differential optical rotation measurements at 233 nm. At drug:protein molar ratios ([D]/[P]) of unity, the optical rotation increased, decreased or remained the same depending on the drug used. The change in the optical rotatory dispersion (ORD) signal was investigated as a function of the drug concentration. Drug-protein interactions were relatively specific. There exists at least one, and possibly more, stable preformed high affinity sites for the binding of drugs to albumin. At low [D]/[P] ratios, the ORD titration curves suggest that the high affinity sites are conformationally labile and that the albumin molecule is flexible.

Binding Sites↗
PubMed1975

Studies on 1-substituted 4-(1,2-diphenylethyl)piperazine derivatives and their analgesic activities. 1.

The preparation and analgesic activities of a series of the entitled compounds (5-22) and the optical isomers of the 1-cyclohexyl derivative 5 are described. Reactions of N,N-bis(2-chloroethyl)-1,2-diphenylethylamine (3) with ammonia and primary amines gave N-(1,2-diphenylethyl)piperazine (4) and N1-substituted derivatives (5-20, 22), respectively. The alkylation of 4 afforded 12-21. Compounds 5-18 and 22 were also obtained by the reactions of 1,2-diphenylethylamine (23) and N-substituted 2,2'-dichlorodiethylamine. Racemate 5 was resolved with (+)- or (-)-2'-nitrotartranilic acid into its optical isomers [(+)-5 and (-)-5], and the absolute configuration of (+)-5 was determined to be S configuration by the synthesis and optical rotatory dispersion measurements. The most active members in this series of compounds were 5-7, which were approximately as potent as (-)-morphine. In the case of 5, the more potent enantiomer (S)-(+)-5 has the opposite configuration to that of (-)-N,N-dimethyl-1,2-diphenylethylamine (Spa) or (-)-morphine with respect to the (C-9) asymmetric center and belongs to a new series of compounds having potent analgesic activity.

Analgesics↗
PubMedDate not supplied

[Secretion-fiber transformation in fibroin of the natural silk by polarization-optical methods].

Structural changes in fibroin molecules upon transformation of the secret into a fiber were studied by the methods of birefringence in a longitudinal hydrodynamic field, optical rotatory dispersion, and circular dichroism. Fibroin fibers were obtained by drawing out the secret from the silk-secreting gland of silkworm moth Bombux mori. In this process, the formation of a longitudinal hydrodynamic field inside the gland was observed. The experimental data obtained make it possible to assess the degree of orientation and unfolding of macromolecules, as well as the conditions of the alpha-beta structural transition in fibroin chains.

Animals↗
PubMed1975

Solution studies on heme proteins: subunit structure, dissociation, and unfolding of Lumbricus terrestris hemoglobin by the ureas.

The subunit structure, dissociation, and unfolding of the hemoglobin of the earthworm, Lumbricus terrestris, were investigated by light scattering molecular weight methods and changes in optical rotatory dispersion (at 233 nm) and absorption in the Soret region. Urea and the alkylureas, methyl-, ethyl-, propyl-, and butylurea, were employed as the reagents to cause both dissociation and unfolding of the protein. Analysis of the light scattering data suggests that the dissociation patterns as a function of hemoglobin concentration in the various dissociating solvents can be described in quantitative terms, either as an equilibrium mixture consisting of parent duodecamers and hexamers of 3 x 10(6) and 1.5 x 10(6) molecular weight (in 1-3 M urea, 1-2 M methyl- and ethylurea, and 1 M propylurea), as a mixture of hexamers and monomers, the latter with a molecular weight of 250000 (i.e., in 4 M urea), or as a mixture of all three species of duodecamers, hexamers, and monomers, seen in 2 M propylurea. Parallel studies by optical rotation and absorption measurements indicate that there is little or no unfolding of the subunits at urea and alkylurea concentrations where complete dissociation to hexamers and extensive dissociation to monomers can be achieved. Further splitting of the monomers (A subunits) to smaller fragments of one-third to one-quarter of the molecular weight of the monomers (B subunits) is seen in the presence of 7 and 8 M urea (pH 7) and in alkaline urea to propylurea solutions. Analysis of the dissociation data of duodecamers to monomers, based on equations used in studies of the urea and amide dissociation of human hemoglobin A from our laboratory, suggests few urea and alkylurea binding sites at the areas of hexamer contacts in the associated duodecameric form of L. terrestris hemoglobin. This suggests that hydrophobic interactions are not the dominant forces that govern the state of association of L. terrestris hemoglobin relative to polar and ionic interactions. The unfolding effects of the ureas, at concentrations above the dissociation transitions, are closely similar to their effects on other globular proteins, suggesting that hydrophobic interactions play an important role in the maintenance of the folded conformation of the subunits. Use of the Peller-Flory equation, with binding constants based on free energy transfer data of hydrophobic amino acid side chains and denaturation data used in previous denaturation studies, gave a relatively good acount of the observed denaturation midpoints obtained with the various ureas supporting these conclusions.

Animals↗
PubMed2006

Coupled cluster and density functional theory studies of the vibrational contribution to the optical rotation of (S)-propylene oxide.

In a previous study (Chemical Physics Letters 2005, 401 , 385) we computed the optical rotatory dispersion of (S)-propylene oxide in gas phase and solution using the hierarchy of coupled cluster models CCS, CC2, CCSD, and CC3. Even for the highly correlated CC3 model combined with a flexible basis set, the theoretical gas-phase specific rotation at 355 nm was found to be negative in contrast to the experimental result. We argued that vibrational contributions could be crucial for obtaining a complete understanding of the experimental result. Here, we show that this indeed is the case by using coupled cluster models and density functional theory methods to calculate the vibrational contributions to the gas-phase specific rotation at 355, 589.3, and 633 nm. While density functional theory (B3LYP and SAOP functionals) overestimates the specific rotation at 355 nm by approximately 1 order of magnitude and yields an incorrect sign at 589.3 and 633 nm, the coupled cluster results are in excellent agreement with the experimentally measured optical rotations. We find that all vibrational modes contribute significantly to the optical rotation and that temperature effects must be taken into account.

Journal Article↗
PubMed2004

The earliest events in protein folding: a structural requirement for ultrafast folding in cytochrome C.

The folding dynamics of reduced cytochrome c (redcyt c) obtained from tuna heart, which contains a tryptophan residue at the site occupied by His33 in horse heart cytochrome c, was studied using nanosecond time-resolved optical rotatory dispersion spectroscopy. As observed previously for horse heart redcyt c, two time regimes were observed for secondary structure formation in tuna redcyt c: a fast (microseconds) and a slow (milliseconds) phase. However, the fast phase of tuna redcyt c folding was much slower and smaller in amplitude than the same phase in horse. The differences in the fast folding phases suggest that for horse heart redcyt c, the conformers that undergo the fastest observed folding have the His18-Fe-His33 heme configuration, which appears to be necessary, but not sufficient, to poise an unfolded chain conformation for fastest folding in redcyt c.

Animals↗
PubMed1981

Beta-structure of polypeptides in non-aqueous solutions. I. Spectral characteristics of the polypeptide backbone.

The optical rotatory features of the beta-structure of the polypeptides in non-aqueous solutions and films cast from these solutions have been investigated. The beta-structure of poly-S-benzyl-L-cysteine, poly-S-carbobenzoxy-L-cysteine and poly-S-benzyl-L-cysteine, poly-S-carbobenzoxy-L-cysteine and poly-O-carbo-bands of their films. The optical rotatory dispersion (ORD) and circular dichroism (CD) spectra of these polypeptides are found to be very similar in both film and solution. In solvents promoting the beta-structure, the polypeptides are characterized by CD troughs in the n-pi* transition region of the peptide chromophore. The ORD spectra are found to be positive in sign throughout the visible and accessible ultraviolet regions and are interpreted in terms of the possible existence of a relatively much larger positive pi-pi* CD bands as compared with the negative n-pi* band. The rotatory data obtained in the non-aqueous solution are compared with those obtained for other poly peptides in aqueous solutions, with respect to the type and extent of beta-structure present.

Circular Dichroism↗
PubMed1975

Conformational properties of bovine plasma albumin with a cleaved internal peptide bond.

As shown previously, proteinases frequently associated with plasma albumin samples catalyze a very limited and specific cleavage of the albumin molecule when it exists in the F conformational state near pH 3.7. The primary proteolytic product, BPA, has a molecular weight similar to or identical with that of the parent protein but yields two large fragments of molecular weight approximately 46000 and 23000 on reduction. Evidence is presented here that cleavage occurs within the disulfide loop between Cys390 and Cys434 with no detectable loss of small peptides, the amino acid composition of BPA being identical with that of the parent protein within experimental error. Cleavage exposes a new amino-terminal phenylalanine residue and may occur at the Glx392-Phe393 bond although the possibility exists that it occurs at another X-Phe bond in the unsequenced region of residues 400-402. The damaged protein has a somewhat altered secondary structure as judged from optical rotatory dispersion and circular dichroism measurements, probably an approximate 15% loss in helicity. The hydrodynamic volume is increased by approximately 20%. However, various physical studies indicate the tertiary structure to be strikingly similar to that of the native protein. Of most significance is the fact that the protein still undergoes the N-F and N-B transitions, although in both cases they occur at somewhat more moderate pH than in the parent protein. Moreover a sensitivity of the N-B transition to Ca2+ is still seen and binding behavior toward the dye 8-anilino-1-naphthalenesulfonic acid is essentially unaltered. The results are best understood in terms of the concept of a multidomain structure which has been suggested frequently for plasma ablumin. Bond cleavage damages one domain but leaves the overall structure essentially unaltered except for some weakening of the interaction between domains.

Amino Acids↗
PubMed1977

Glycolipid composition of human testis at different ages and the stereochemical configuration of seminolipid.

1. The sterochemical configuration of glycerol moiety of seminolipid (1-O-alkyl-2-O-beta-D-(3'-sulfo) galactopyranosylglycerol: Ishizuka, I., Suzuki, A. and Yamakawa, T. (1973). J. Biochem. 73, 77--87) from mammalian testis was determined by measurement of optical rotatory dispersion of alkylglyceryl ether moiety, establishing the final structure of the major glycolipid from mature testis of mammals as 1-O-alkyl-2-O-beta-D-(3'-sulfo)-galactopyranosyl-sn-glycerol. 2. The simple and sensitive modification of fluorometric determination of galactolipids and sphingolipids was described. This method does not require lipid extraction from silica gel of thin-layer chromatography, and allows a quantitative assessment of the sphingoglycolipids and galactosyl glycerides using a small amount of testicular tissue. 3. Various lipid classes from human testis of varying age groups were compared. The total lipid and seminolipid content was highest in adult (40-years-old) testis amounting to 39.0 mg and 158.7 nmol/g tissue, respectively. Seminolipid was not detected in infant (2 years old) or child (9 years old) and found only at the concentration of 25.3 nmol/g in the testis of aged (60--90 years of age) supporting the postulated relation of seminolipid with spermatogenesis and sexual activity. In contrast, ganglioside content was highest in the testis of aged probably reflecting fibrosis of the testis. The main ganglioside was found to be hematoside with N-acetylneuraminic acid. Gangliosides Gm1 and GD1a were also detected.

Adult↗
PubMed2000

Probing protein unfolding through monitoring cysteine alkylation by matrix-assisted laser desorption/ionisation mass spectrometry.

Matrix-assisted laser desorption/ionisation mass spectrometry was used to monitor interaction between three proteins and two basic Immobiline chemicals (pK 10.3 and pK >12) commonly used in immobilised pH gradients (IPG). For two of the investigated proteins, the observed alkylation channels of the cysteine residues exhibited unmistakable response to their gradual denaturation following treatment with different concentrations (0-8 M) of two commonly used denaturants, urea and guanidine hydrochloride. Our assessment for protein unfolding is based on the number and relative intensity of the alkylation channels, yet the present mass spectrometry data are in good agreement with data based on optical rotatory dispersion, in which another approach was used to assess protein unfolding. Whether the present simple, fast and specific mass spectrometry method can be developed as a probe for monitoring folding/unfolding of cysteine-containing proteins can only be demonstrated by generating similar data for a larger number of proteins.

Alkylation↗