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Cosani A, Palumbo M, Terbojevich M, Peggion E. A potentiometric and CD study on the beta-random coil transition of poly-L-tyrosine in aqueous solution. INTERNATIONAL JOURNAL OF PEPTIDE AND PROTEIN RESEARCH 2009; 6:457-63. [PMID: 4455640 DOI: 10.1111/j.1399-3011.1974.tb02406.x] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/10/2023]
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Watanabe K, Muto K, Ishii T. Conformational analysis of poly(L-tyrosine) and tyrosyl oligomers based on backbone circular dichroism spectra obtained by fluorescence-detected circular dichroism. ACTA ACUST UNITED AC 1997. [DOI: 10.1002/(sici)1520-6343(1997)3:2<103::aid-bspy3>3.0.co;2-8] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
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Kimura M, Maeda H, Ikeda S. Stability of the folded-chain beta-structure of a homopolypeptide based on time-resolved potentiometric titrations. Biophys Chem 1988; 30:185-92. [PMID: 3416044 DOI: 10.1016/0301-4622(88)85015-4] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2023]
Abstract
The standard free energy change of the unimolecular conversion between the folded-chain beta-structure and random coil of uncharged poly(S-carboxymethyl-L-cysteine) was evaluated from the potentiometric titration curves extrapolated to zero time to reduce the effect of aggregation which occurred at slower rates than chain folding for most degrees of ionization. To reduce the remaining contribution from the aggregation, the results obtained at finite concentrations were further extrapolated to zero polymer concentration. A value of -(400 +/- 100) cal/mol was obtained for a sample of chain length 630. From the titration curves at the aggregation equilibrium, the total free energy change of the whole solution associated with the same conversion was determined. The contribution made by aggregation to the stability was determined from the difference between these two quantities, which turned out to be comparable with that from the unimolecular conversion.
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Affiliation(s)
- M Kimura
- Department of Chemistry, Faculty of Science, Nagoya University, Japan
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Fukada K, Maeda H, Ikeda S. Temperature-dependent β structure-random coil conversion of poly(S-carboxymethyl-l-cysteine). POLYMER 1987. [DOI: 10.1016/0032-3861(87)90296-5] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
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Maeda H. Irreversible Nature of the Stacked β-Pleated Sheets of a Model Polypeptide. BULLETIN OF THE CHEMICAL SOCIETY OF JAPAN 1987. [DOI: 10.1246/bcsj.60.3438] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
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Auer HE, Miller-Auer H. Dynamics of the disordered-beta transition in poly(L-tyrosine) determined by stopped-flow spectrometry. Biopolymers 1986; 25:1607-13. [PMID: 3768478 DOI: 10.1002/bip.360250904] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/07/2023]
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Zeiger AR, Ellis JS, Maurer PH. Synthesis and characterization of six sequential polypeptides containing tyrosine, glutamic acid, alanine, and glycine by circular dichroism and difference spectroscopy. Biopolymers 1985; 24:1215-32. [PMID: 2862928 DOI: 10.1002/bip.360240709] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.0] [Reference Citation Analysis] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/03/2023]
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Maeda H. Thermodynamic Analysis of the Potentiometric Titrations of Polypeptides Accompanying the Coil–Beta Conversion. BULLETIN OF THE CHEMICAL SOCIETY OF JAPAN 1985. [DOI: 10.1246/bcsj.58.618] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
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Auer HE, Miller-Auer H. Two classes of ?-pleated sheet conformation in poly(L-tyrosine): Evidence from solvent perturbation difference spectroscopy. Biopolymers 1982. [DOI: 10.1002/bip.360210617] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
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Hara M, Nakajima A. Anomalies in Light Scattering from Polyelectrolyte in Semi-Dilute Solution Region. Polym J 1980. [DOI: 10.1295/polymj.12.711] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
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Hara M, Nakajima A. Characteristic Behaviors of Light Scattering from Polyelectrolyte in Dilute Solution Region. Polym J 1980. [DOI: 10.1295/polymj.12.701] [Citation(s) in RCA: 15] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
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Ikeda S, Fukutome A, Imae T, Yoshida T. Circular dichroism and the pH-induced ?-coil transition of poly(S-carboxymethyl-L-cysteine) and its side-chain homolog. Biopolymers 1979. [DOI: 10.1002/bip.1979.360180210] [Citation(s) in RCA: 18] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
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St. Pierre S, Ingwall RT, Verlander MS, Goodman M. Conformational studies of sequential polypeptides containing lysine and tyrosine. Biopolymers 1978. [DOI: 10.1002/bip.1978.360170803] [Citation(s) in RCA: 25] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
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Auer HE, McKnight RP. Two classes of beta pleated-sheet conformation in poly(L-tyrosine): a model for tertiary structure in native proteins. Biochemistry 1978; 17:2798-805. [PMID: 687563 DOI: 10.1021/bi00607a015] [Citation(s) in RCA: 14] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
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Garnier A, Tosi L. Conformational studies of the copolymer poly(L-lysine,L-tyrosine) 1:1 in aqueous solution. Biopolymers 1978. [DOI: 10.1002/bip.1978.360170116] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
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Hamada F, Ishimuro Y, Hayashi T, Nakajima A. Conformation study on poly (L-tyrosine in dimethyl formamide by small-angle X-ray scattering. Biopolymers 1977; 16:2351-61. [PMID: 912005 DOI: 10.1002/bip.1977.360161102] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
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Yamamoto H, Hayakawa T. Synthesis and conformational study of poly(l-β-3,4-dihydroxyphenyl-α-alanine). POLYMER 1977. [DOI: 10.1016/0032-3861(77)90001-5] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
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Peggion E, Cosani A, Palumbo M, Terbojevich M. A potentiometric and CD investigation on the conformational properties of poly(L-p-aminophenylalanine) in aqueous solution. Biopolymers 1976; 15:2227-39. [PMID: 990405 DOI: 10.1002/bip.1976.360151110] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.0] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022]
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Auer HE, Patton E. Kinetics of the disordered chain-to-beta transformation of poly(L-tyrosine) in aqueous solution. Biophys Chem 1976; 4:15-21. [PMID: 2346 DOI: 10.1016/0301-4622(76)80002-6] [Citation(s) in RCA: 20] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Abstract
The kinetics of the transformation of poly(L-tyrosine) from the disordered chain to the intramolecular beta structure in aqueous solution has been studied. The reaction is induced by an isothermal pH jump and is followed by conventional circular dichroism methods. Upon application of curve-fitting procedures, it is found that the kinetics are poorly represented by a single first-order process, but a two-step sequential first-order equation is adequate. Sharp pH-dependent maxima in the phenomenological rate constants and in the fractional amplitude of the rapid step were found. It is proposed to attribute these phenomena to a transition in initial states which is shown to occur over the same pH range within the domain of the disordered-to-beta transition. No sigmoid transient curves were observed, indicating that no slow nucleation events are discernible in this system. These observations contrast strikingly with the mechanism elaborated for beta formation in (Lys)n [R. Hartman et al., J. Mol. Biol. 90 (1974) 415].
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Wen KJ, Woody RW. Conformational studies of poly(L-tyrosine). A helix-coil transition in dimethyl sulfoxide-dichloroacetic acid mixtures. Biopolymers 1975. [DOI: 10.1002/bip.1975.360140905] [Citation(s) in RCA: 13] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
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Hamori E, Iio T, Senior MB, Gutierrez PL. Kinetic investigation of unfolding and partial refolding of a crab satellite (dA-dT)n. Biochemistry 1975; 14:3618-25. [PMID: 240385 DOI: 10.1021/bi00687a016] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Abstract
Crab (dA-dT)n was isolated from the testes of Cancer borealis by a procedure involving separation of DNA and segregation of the satellite fraction by Hg2+ binding/Cs2SO4 density gradient ultracentrifugation. The titration of crab (dA-dT)n samples at 10 degrees indicated a sharp absorbance change at pH 11.98 in agreement with the pHm value observed for synthetic poly(dA-dT) under identical conditions. The reversal of the titration, however, resulted only in about 50% recovery of the original absorbance (at 260 nm) in marked contrast to the complete reversibility of the synthetic material. pH-jump experiments were carried out for the purpose of characterizing the rates and mechanisms of conformational transitions brought about by changes in the solution environment. It was found that the disintegration of the putative native structure of crab (dA-dT)n starts with a very fast reaction (occurring within the 6-msec deadtime of the instrument and comprising 65% of the total absorbance change) and it is completed via a slower first-order reaction (k = 66 sec minus 1). It is postulated that the first process is due to the rapid untwisting of end regions and, perhaps, some short hairpin-like helical branches present on the macromolecules. The second reaction is believed to be the end-to-end type unwinding of the double-helical backbone of crab (dA-dT)n. In the presence of low concentration (3 mug/ml) of Hg2+ ions the overall rate of disintegration process decreased drastically. pH jumps from pH values above pHm to values below were used to study the rates of absorbance changes corresponding to the refolding of the strands of denatured crab (DA-dT)n. A concentration independent process consisting of two phases was observed. The first phase was a gradual nonexponential process spanning the first second of the reaction, and the other, a very slow first-order process characterized by the rate constant value of 0.053 sec minus 1. It is proposed that the first part of the process (involving about 24% of nucleotide residues) is an intramolecular formation of helical hairpins (frequently interrupted by mismatching bases) and the second part is a manifestation of some association of the extant unpaired bases during the folding of the branched structure. Refolded crab (dA-dT)n samples when subjected again to pH greater than pHm in the stopped-flow apparatus displayed not the disintegration pattern of the native crab (dA-dT)n but rather that of synthetic poly(dA-dT. The marked facility of crab (dA-dT)n macromolecules for rapid conformational transitions induced by slight changes in the solution environment might be relevant to the biological function of this DNA.
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Iio T, Hickey TM, Lee YN, Hamori E. Kinetic studies of the conformation changes of poly(deoxyadenylate-thymidylate). Biochemistry 1974; 13:2915-23. [PMID: 4407784 DOI: 10.1021/bi00711a022] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/10/2023]
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Maeda H, Ikeda S. Phase separation in the beta-coil transition of poly-S-carboxyethyl-L-cysteine. Biopolymers 1973. [DOI: 10.1002/bip.1973.360120916] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
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Adler AJ, Greenfield NJ, Fasman GD. Circular dichroism and optical rotatory dispersion of proteins and polypeptides. Methods Enzymol 1973; 27:675-735. [PMID: 4797940 DOI: 10.1016/s0076-6879(73)27030-1] [Citation(s) in RCA: 397] [Impact Index Per Article: 7.8] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/12/2023]
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