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Kihara, H., Nakatani, H., Hiromi, K., & Hon-Nami, K. (1977). Kinetic studies on redox reactions of hemoproteins. I. Reduction of thermoresistant cytochrome c-552 and horse heart cytochrome c by ferrocyanide. Biochim Biophys Acta, 460(3), 480–489.
Abstract: The oxidation-reduction reaction of horse heart cytochrome c and cytochrome c (552, Thermus thermophilus), which is highly thermoresistant, was studied by temperature-jump method. Ferrohexacyanide was used as reductant. (Formula: see text.) Thermodynamic and activation parameters of the reaction obtained for both cytochromes were compared with each other. The results of this showed that (1) the redox potential of cytochrome c-552, + 0.19 V, is markedly less than that of horse heart cytochrome c. (2) deltaHox of cytochrome c-552 is considerably lower than that of horse heart cytochrome c. (3) deltaSox and deltaSred of cytochrome c-552 are more negative than those of horse heart cytochrome c. (4) kred of cytochrome c-552 is much lower than that of horse heart cytochrome c at room temperature.
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Pierce, M. M., & Nall, B. T. (2000). Coupled kinetic traps in cytochrome c folding: His-heme misligation and proline isomerization. J Mol Biol, 298(5), 955–969.
Abstract: The effect of His-heme misligation on folding has been investigated for a triple mutant of yeast iso-2 cytochrome c (N26H,H33N,H39K iso-2). The variant contains a single misligating His residue at position 26, a location at which His residues are found in several cytochrome c homologues, including horse, tuna, and yeast iso-1. The amplitude for fast phase folding exhibits a strong initial pH dependence. For GdnHCl unfolded protein at an initial pH<5, the observed refolding at final pH 6 is dominated by a fast phase (tau(2f)=20 ms, alpha(2f)=90 %) that represents folding in the absence of misligation. For unfolded protein at initial pH 6, folding at final pH 6 occurs in a fast phase of reduced amplitude (alpha(2f) approximately 20 %) but the same rate (tau(2f)=20 ms), and in two slower phases (tau(m)=6-8 seconds, alpha(m) approximately 45 %; and tau(1b)=16-20 seconds, alpha(1b) approximately 35 %). Double jump experiments show that the initial pH dependence of the folding amplitudes results from a slow pH-dependent equilibrium between fast and slow folding species present in the unfolded protein. The slow equilibrium arises from coupling of the His protonation equilibrium to His-heme misligation and proline isomerization. Specifically, Pro25 is predominantly in trans in the unligated low-pH unfolded protein, but is constrained in a non-native cis isomerization state by His26-heme misligation near neutral pH. Refolding from the misligated unfolded form proceeds slowly due to the large energetic barrier required for proline isomerization and displacement of the misligated His26-heme ligand.
Keywords: Amino Acid Sequence; Amino Acid Substitution/genetics; Binding Sites; Cytochrome c Group/*chemistry/genetics/*metabolism; *Cytochromes c; Enzyme Stability/drug effects; Fluorescence; Guanidine/pharmacology; Heme/*metabolism; Histidine/genetics/*metabolism; Hydrogen-Ion Concentration; Isomerism; Kinetics; Models, Molecular; Molecular Sequence Data; Mutation/genetics; Proline/*chemistry/metabolism; Protein Conformation/drug effects; Protein Denaturation/drug effects; *Protein Folding; Protein Renaturation; Saccharomyces cerevisiae/enzymology/genetics; Sequence Alignment; Thermodynamics
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Saigo, S. (1981). Kinetic and equilibrium studies of alkaline isomerization of vertebrate cytochromes c. Biochim Biophys Acta, 669(1), 13–20.
Abstract: Equilibria and kinetics of alkaline isomerization of seven ferricytochromes c from vertebrates were studied by pH-titration and pH-jump methods in the pH region of 7-12. In the equilibrium behavior, no significant difference was detected among the cytochromes c, whereas marked differences in the kinetic behavior were observed. According to the kinetic behavior of the isomerization, the cytochromes c examined fall into three classes: Group I (horse, sheep, dog and pigeon cytochromes c), Group II (tuna and bonito cytochromes c) and Group III (rhesus monkey cytochrome c). The kinetic results are interpreted in terms of the sequential scheme: Neutral form in equilibrium with fast Transient form in equilibrium with slow Alkaline form where the neutral and alkaline forms are the species stable at neutral and alkaline pH, respectively, and the transient form is a kinetic intermediate. From comparison of the primary sequences of the seven cytochromes c and the classification of these cytochromes c, it is concluded that the amino acid substitution Phe/Tyr at the 46-th position has a major influence on the kinetic behavior. In Group II and III cytochromes c, the ionization of Tyr-46 is suggested to bring about loosening of the heme crevice and thus facilitate the ligand replacement involved in the isomerization.
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Hasumi, H. (1980). Kinetic studies on isomerization of ferricytochrome c in alkaline and acid pH ranges by the circular dichroism stopped-flow method. Biochim Biophys Acta, 626(2), 265–276.
Abstract: The isomerization of horse-heart ferricytochrome c caused by varying pH was kinetically studied by using circular dichroism (CD) and optical absorption stopped-flow techniques. In the pH range of 7--13, the existence of the three different forms of ferricytochrome c (pH less than 10, pH 10--12, and pH greater than 12) was indicated from the statistical difference CD spectra. On the basis of analyses of the stopped-flow traces in the near-ultraviolet and Soret wavelength regions, the isomerization of ferricytochrome c from neutral form to the above three alkaline forms was interpreted as follows (1) below pH 10, the replacement of the intrinsic ligand of methionine residue by lysine residue occurs; (2) between pH 10 and 12, the uncoupling of the polypeptide chain from close proximity of the heme group occurs first, followed by the interconversion of the intrinsic ligands; and (3) above pH 12, hydroxide form of ferricytochrome c is formed, though the replacement of the intrinsic ligand by extrinsic ligands may occur via different routes from those below pH 12. The CD changes at 288 nm and in the Soret region caused by the pH-jump (down) from pH 6.0 to 1.6 were compared with the appearance of the 620-nm absorption band ascribed to the formation of the high-spin form of ferricytochrome c. Both CD and absorption changes indicated that the isomerization at pH 1.6 consisted of two processes: one proceeded within the dead-time (about 2 ms) of the stopped-flow apparatus and the other proceeded at a determinable rate with the apparatus. On the basis of these results, the isomerization of ferricytochrome c at pH 1.6 was explained as follows: (1) the transition from the low-spin form to the high-spin forms occurs within about 2 ms, the dead-time of the stopped-flow apparatus; and (2) the polypeptide chain is unfolded after the formation of the high-spin form.
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Wilson, M. T., Silvestrini, M. C., Morpurgo, L., & Brunori, M. (1979). Electron transfer kinetics between Rhus vernicifera stellacyanin and cytochrome c (horse heart cytochrome c and Pseudomonas cytochrome c551). J Inorg Biochem, 11(2), 95–100.
Abstract: The electron transfer reactions between Rhus vernicifera stellacyanin and either horse heart cytochrome c or Pseudomonas aeruginosa cytochrome c551 were investigated by rapid reaction techniques. The time course of electron transfer is monophasic under all conditions, and thus consistent with a simple formulation of the reaction. Both stopped-flow and temperature-jump experiments yield equilibrium constants in reasonable agreement with values calculated from the redox potentials. The differences in reaction rate between the two cytochromes and stellacyanin are discussed in terms of the Marcus theory.
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Tsong, T. Y. (1977). Conformational relaxations of urea- and guanidine hydrochloride-unfolded ferricytochrome c. J Biol Chem, 252(24), 8778–8780.
Abstract: Several recent studies of protein the unfolded proteins. In urea- and guanidine HCl-unfolded ferricytochrome c (horse heart), an acid-induced spin state transformation of the heme group has been detected by the heme absorptions, Trp-59 fluorescence, and the intrinsic viscosity of protein. Kinetics of this second conformational transition, by the temperature jump and stopped flow methods, are complex. One rapid reaction (tau1), pH-independent, occurs in a 50-mus range; the second reaction (tau2), in a 1-ms range, depends linearly upon pH and is faster at the alkaline side; a third reaction (tau3), in a 1-s range, shows a sigmoidal transition at pH 5.1 and is faster at the acidic side. The results are consistent with a kinetic scheme which involves protein conformational changes in the transformation of the heme coordination state. The kinetics, along with previous equilibrium studies, indicate that ligand or charge interactions within a protein molecule are not completely prohibited even in strongly denaturing conditions, such as in high concentrations of urea and guanidine HCl. Thus, local structures of peptide chain associated with these interactions can exist in the unfolded protein.
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Le Pendu, Y., Guilhem, C., Briedermann, L., Maublanc, M. - L., & Gerard, J. - F. (2000). Interactions and associations between age and sex classes in mouflon sheep (Ovis gmelini) during winter. Behav. Process., 52(2-3), 97–107.
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Valone, T. J. (1989). Group foraging, public information, and patch estimation. Oikos, 56(3), 357–363.
Abstract: Public information is information about the quality of a patch that can be obtained by observing the foraging success of other individuals in that patch. I examine the influence of the use of public information on patch departure and foraging efficiency of group members. When groups depart a patch with the first individual to leave, the use of public information can prevent the underutilization of resource patches.
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Bayly, K. L., Evans, C. S., & Taylor, A. (2006). Measuring social structure: A comparison of eight dominance indices. Behav. Process., 73(1), 1–12.
Abstract: Measurement of social status is an important component of many behavioural studies. A variety of techniques have been developed and adopted, but while there have been some analyses of index properties using simulated data, the rationale for selecting a method remains poorly documented. As a first step in exploring the implications of index choice, we compared the characteristics of eight popular indices by applying each to the same data set from interactions between male fowl Gallus gallus, the system in which social hierarchies were first described. Data from eight social groups, observed over four successive breeding seasons, were analysed to determine whether different indices produced consistent dominance scores. These scores were then used in tests of the relation between social status and crowing to explore whether index choice affected the results obtained. We also examined the pattern of dominance index use over the last decade to infer whether this has likely been influenced by tradition, or by taxa of study animal. Overall agreement among methods was good when groups of birds had perfectly linear hierarchies, but results diverged when social structure was more complex, with either intransitive triads or reversals. While all regression analyses revealed a positive relationship between dominance and vocal behaviour, there were substantial differences in the amount of variance accounted for, even though the original data were identical in every case. Index selection can hence perturb estimates of the importance of dominance, relative to other factors. We also found that several methods have been adopted only by particular research teams, while the use of others has been taxonomically constrained, patterns implying that indices have not always been chosen solely upon their merits. Taken together, our results read as a cautionary tale. We suggest that selection of a dominance index requires careful consideration both of algorithm properties and of the factors affecting social status in the system of interest.
Keywords: Social status; Methods; Behaviour in groups
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Connor, R. C., Wells, R. S., Mann, J., & Read, A. J. (2000). The bottlenose dolphin: Social relationships in a fission-fusion society. In J. Mann, R. C. Connor, P. L. Tyack, & H. Whitehead (Eds.), Cetacean Societies: Field Studies of Dolphins and Whales. (pp. 91–126). Chicago: University of Chicago Press.
Abstract: Book Description
“Part review, part testament to extraordinary dedication, and part call to get involved, Cetacean Societies highlights the achievements of behavioral ecologists inspired by the challenges of cetaceans and committed to the exploration of a new world.”-from the preface by Richard Wrangham Long-lived, slow to reproduce, and often hidden beneath the water's surface, whales and dolphins (cetaceans) have remained elusive subjects for scientific study even though they have fascinated humans for centuries. Until recently, much of what we knew about cetaceans came from commercial sources such as whalers and trainers for dolphin acts. Innovative research methods and persistent efforts, however, have begun to penetrate the depths to reveal tantalizing glimpses of the lives of these mammals in their natural habitats. Cetacean Societies presents the first comprehensive synthesis and review of these new studies. Groups of chapters focus on the history of cetacean behavioral research and methodology; state-of-the-art reviews of information on four of the most-studied species: bottlenose dolphins, killer whales, sperm whales, and humpback whales; and summaries of major topics, including group living, male and female reproductive strategies, communication, and conservation drawn from comparative research on a wide range of species. Written by some of the world's leading cetacean scientists, this landmark volume will benefit not just students of cetology but also researchers in other areas of behavioral and conservation ecology as well as anyone with a serious interest in the world of whales and dolphins. Contributors are Robin Baird, Phillip Clapham, Jenny Christal, Richard Connor, Janet Mann, Andrew Read, Randall Reeves, Amy Samuels, Peter Tyack, Linda Weilgart, Hal Whitehead, Randall S. Wells, and Richard Wrangham. |