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F A Ferrone

Publications and source records attributed to F A Ferrone.

At least 37 records · Page 2Linked to original sources
PubMed1990

Allosteric kinetics and equilibria differ for carbon monoxide and oxygen binding to hemoglobin.

We have measured the forward and reverse rates of the allosteric transition between R (relaxed) and T (tense) quaternary structures for oxyhemoglobin A from which a single oxygen molecule was removed in pH 7, phosphate buffer, using the method of modulated excitation (Ferrone, F.A., and J.J. Hopfield. 1976. Proc. Natl. Acad. Sci. USA. 73:4497-4501 and Ferrone, F.A., A.J. Martino, and S. Basak. 1985. Biophys. J. 48:269-282). Despite the low quantum yield, which necessitated large light levels and an associated temperature rise, the data was of superior quality to the equivalent experiment with CO as a ligand, permitting comparison between the allosteric behavior of hemoglobin with different ligands. Qualitatively, the T structure is favored more strongly in triligated oxyhemoglobin than triligated carboxyhemoglobin. The rates for the allosteric transition with oxygen bound were essentially temperature independent, whereas for CO both the R----T and T----R rates increased with temperature, having an activation energy of 2.2 and 2.8 kcal, respectively. The R----T rate was higher for O2 than for CO being 3 x 10(3) s-1 vs. 1.6 x 10(3) s-1 for HbCO at 25 degrees C. The T----R rate for HbO2 was only 2 x 10(3) s-1, vs 4.2 x 10(3) s-1 for HbCO, giving an equilibrium constant between the structures greater than unity (L3 = 1.5). The data suggest that there may be some allosteric inequality between the subunits, but do not require (or rule out) ligand binding heterogeneity. The ligand-dependent differences are compatible with stereochemical studies of HbCO and HbO2. However,the large population of T species with three oxygen molecules bound is much greater than predicted by precision equilibrium studies and a generalized Szabo-Karplus model (Lee, A. W., M. Karplus, C. Poyart, and E. Bursaux. 1988. Biochemistry.27:1285-1301) or by the allosteric model of DiCera (Di Cera, E., C. H. Robert, and S. J. Gill. 1987. Biochemistry.26:4003-4008).

Allosteric Regulation↗
PubMed1990

Theoretical description of the spatial dependence of sickle hemoglobin polymerization.

We have generalized the double nucleation mechanism of Ferrone et al. (Ferrone, F. A., J. Hofrichter, H. Sunshine, and W. A. Eaton. 1980. Biophys. J. 32:361-377; Ferrone, F. A., J. Hofrichter, and W. A. Eaton. 1985. J. Mol. Biol. 183:611-631) to describe the spatial dependence of the radial growth of polymer domains of sickle hemoglobin. Although this extended model requires the consideration of effects such as monomer diffusion, which are irrelevant to a spatially uniform description, no new adjustable parameters are required because diffusion constants are known independently. We find that monomer diffusion into the growing domain can keep the net unpolymerized monomer concentration approximately constant, and in that limit we present an analytic solution of the model. The model shows the features reported by Basak, S., F. A. Ferrone, and J. T. Wang (1988. Biophys J. 54:829-843) and provides a new means of determining the rate of polymer growth. When spatially integrated, the model exhibits the exponential growth seen in previous studies, although molecular parameters derived from analysis of the kinetics assuming uniformity must be modified in some cases to account for the spatially nonuniform growth. The model developed here can be easily adapted to any spatially dependent polymerization process.

Hemoglobin, Sickle↗
PubMed1990

Monomer diffusion into polymer domains in sickle hemoglobin.

The gelation of sickle hemoglobin includes the formation of spherulitic arrays of polymers, known as polymer domains, which are an intrinsic result of the polymer formation mechanism. We have observed the diffusion of monomers into domains as they form, which substantially increases the total concentration of hemoglobin within the domain. The maximum total concentration attained is comparable with the pellet concentration of 0.5-0.55 g/cm3 obtained in sedimentation experiments. The half time for this process is approximately 50 s for domains of 25 microns radius, and is approximately independent of temperature. The shape of the diffusion progress curves as well as the deduced diffusion constants, and their weak temperature dependence are consistent with a simple model of hemoglobin monomer diffusion into the domain.

Biophysical Phenomena↗
PubMed1989

Rate of allosteric change in hemoglobin measured by modulated excitation using fluorescence detection.

We have measured the forward and reverse rates of the allosteric transition of hemoglobin A with three CO molecules bound by using modulated excitation coupled with fluorescence quenching of the DPG analogue, PTS (8-hydroxy-1,3,6 pyrene trisulfonic acid). This dye is observed to bind to the T state with significantly larger affinity than to the R state, and thus provides an unequivocal marker for the molecule's conformational change. The allosteric rates obtained with the fluorescent dye (pH 7.0, bis-Tris buffer) are (3.4 +/- 1.0) x 10(3)s-1 for the R to T transition and (2.1 +/- 0.5) x 10(4)s-1 for the T to R transition. This gives an equilibrium constant L3 of 0.16 +/- 0.06. These results provide good agreement with modulated difference spectra calibrated from model compounds, arguing that there is little if any difference in the kinetics observed by the heme spectra and the kinetics of the full subunit motion. The equilibrium constant between structures (L3) is smaller in the absence of phosphates than observed in phosphate buffer (0.33). However, the rates of the allosteric transition increase in the absence of phosphates as compared with the corresponding rates in phosphate buffer of 1.0 x 10(3)s-1 and 3.0 x 10(3)s-1. The effects of inorganic phosphates on the equilibrium can be separated from the effects on kinetics. We find that phosphates also affect the dynamic behavior of hemoglobin, and the presence of 0.15 M phosphate can be viewed as raising the transition state energy between R and T conformations by approximately 0.5 kcal/mol exclusive of the T state stabilization. Dissociation constants for the dye were measured to be 104 +/- 25 microM for unligated T state and 930 +/- 300 microM for the fully ligated R state. The best fit equilibrium constant (125 +/- 40 microM) for three ligands bound does not differ significantly from that measured without ligands bound. Incidental to the measurement technique is the determination of the rates of binding and release of the dye. The association rate for binding to the T state is large, (at least 4 x 10(9) M-1 s-1) and may be diffusion limited, while the association and dissociation rates for R state binding, while not determined with precision, are clearly much smaller, of the scale of 10(5) M-1 s-1 for association.

Allosteric Regulation↗
PubMed1988

Kinetics of domain formation by sickle hemoglobin polymers.

We have monitored the growth of domains of sickle hemoglobin polymers by using temporally and spatially resolved light scattering and birefringence measured pseudosimultaneously on a 50-microns square area. Polymerization was induced and indefinitely maintained by photolysis of the carbonmonoxy derivative using an argon ion laser. Intensity of scattering and birefringence (measured as intensity transmitted through crossed polarizers) were measured using a silicon-intensified target vidicon interfaced to a computer. Polymer concentration, as inferred by light scattering, grew with primarily circular symmetry, with approximately 20% of the signal initially in a twofold symmetric pattern. In time the circular symmetry increased. A distinct decrease in the scattering signal developed which spread outward from the center of the domain. Birefringence lagged the scattering and initially grew in a twofold pattern, with the formation of a characteristic Maltese cross only appearing much later, and well after the scattering signal had peaked. Radial profiles of the domain scattering and birefringence were both approximately gaussian. We successfully modeled the decrease in scattering by fitting the profiles to a large gaussian from which a second smaller gaussian was subtracted. This second gaussian had the width of the birefringence gaussian. The width of the birefringence gaussian grew linearly in time, while the width of the scattering gaussian showed a notable acceleration. We conclude that domains form primarily as disordered arrays which align at later times. We explain the above observations, including the shape of the birefringence progress curves, as the result of an alignment transition which is solely due to a redistribution of monomers from short to long, and from entangled to radial, polymers. We present a theoretical justification for this process in an appendix. In a separate paper (Zhou, H. X., and F. A. Ferrone, manuscript submitted for publication) we show that the gaussian shapes and acceleration of the width naturally arise from a generalization of the double nucleation mechanism for sickle hemoglobin gelation (Ferrone, F. A., J. Hofrichter, H. Sunshine, and W. A. Eaton 1980. Biophys. J. 32:361-377; Ferrone, F. A., J. Hofrichter, and W. A. Eaton. 1985. J. Mol. Biol. 183:611-631).

Birefringence↗
PubMed1987

Nucleation of actin polymerization by villin and elongation at subcritical monomer concentration.

We have obtained a quantitative description of villin-nucleated actin polymerization in physiological salt by determining the concentrations of free villin (V), villin-actin monomer (VA), villin-actin dimer (VA2), and villin-actin oligomer (VAn). Over a range of actin-villin ratios from 0.1 to 20 we determined the concentration of actin-bound villin by measuring the low-intensity pyrenylactin fluorescence of the two terminal actins in each villin-actin polymer. (To this end we first showed that each villin-actin oligomer and polymer contains two low-intensity pyrenylactin molecules.) We determined the concentration of free villin using a calibrated cutting activity assay. The pattern of increase in bound villin together with the pattern of increase in high-intensity pyrenylactin fluorescence with increasing G-actin concentration indicated, first, that villin-actin monomers were not formed at detectable levels even at a 12-fold villin excess over actin. Second, there was no stoichiometric villin-actin dimer formation at actin-villin ratios of 2. Instead there was an equilibrium between free villin, VA2, and VAn. Defining K1 = [VA]/[V][A] and K2 = [VA2]/[VA][A], a good fit of the data was obtained with K1 much less than K2 and a value of K1K2 = Kv = 10(12)-10(13) M-2 = [VA2]/[V][A]2, i.e., 1/Kv1/2 = (0.3-1) X 10(-6) M. We have assumed here that the monomer binding constant of VA2 to form VA3 was equal to the monomer binding constant of pointed filament ends, K infinity = 1/c infinity, obtained as described below.(ABSTRACT TRUNCATED AT 250 WORDS)

Actins↗
PubMed1987

Kinetics of actin elongation and depolymerization at the pointed end.

We measured the rate of elongation at the pointed filament end with increasing concentrations of G-actin [J(c) function] using villin-capped actin filaments of very small (actin/villin = 3, VA3) and relatively large size (actin/villin = 18, VA18) as nuclei for elongation. The measurements were made under physiological conditions in the presence of both Mg2+ and K+. In both cases the J(c) function was nonlinear. In contrast to the barbed filament end, however, the slope of the J(c) function sharply decreased rather than increased when the monomer concentration was lowered to concentrations near and below the critical concentration c infinity. At zero monomer concentration, depolymerization at the pointed end was very slow with a rate constant of 0.02 s-1 for VA18. When VA3 was used, the nonlinearity of the J(c) function was greatly exaggerated, and the nuclei elongated at actin concentrations below the independently measured critical concentration for the pointed end. This is consistent with and confirms our previous finding [Weber, A., Northrop, J., Bishop, M. F., Ferrone, F. A., & Mooseker, M. S. (1987) Biochemistry (preceding paper in the issue)] that at an actin-villin ratio of 3 a significant fraction of the villin is free and that a series of steady states exist between villin-actin complexes of increasing size and G-actin. The rate constant of elongation seems to increase with increasing G-actin concentrations because of increasing conversion of free villin into villin-actin oligomers during the period of the measurement of the initial elongation rate. The villin-actin oligomers have a much higher rate constant of actin binding than does free villin.(ABSTRACT TRUNCATED AT 250 WORDS)

Actins↗
PubMed1987

Polymer domains, gelation models and sickle cell crises.

The multistranded fibers formed by deoxygenated sickle hemoglobin form well ordered spherulitic arrays called domains. Employing laser photolysis of the carboxy derivative to initiate polymerization and domain formation, we have monitored the evolution of the spatial character of domains by light scattering and birefringence. Spatial growth is analyzed by observing a 62.5 microns square area of the sample and storing the image as 2500 discrete elements. Domain formation appears to consist of two phases. In the early phase even symmetric domains are not radially isotropic. Although the domain expands during this period, the internal polymer density as inferred by the light scattering intensity also increases. In the second phase, the domain becomes structurally symmetric and spatially homogeneous, and changes in the scattered intensity including pronounced overshoots occur uniformly across the monitored region. In this phase, the birefringence increases as the scattering decreases, with the same apparent rate.

Birefringence↗
PubMed1986

Allosteric interpretation of the measurement of cooperative free energy in cyanomethemoglobin.

The experimentally resolved cooperative energies in partially ligated cyanomethemoglobin [F. R. Smith & G. K. Ackers (1985) Proc. Natl. Acad. Sci. USA 82, 5347-5351] have been compared with the predictions of an allosteric description of hemoglobin. A pattern of energetics similar to that observed (a "combinatorial switch") arises naturally from such an analysis using parameters in excellent agreement with other determinations. Although the energies for 2 of the 10 ligation states (namely, doubly ligated asymmetric tetramers) differ from the predictions, the remaining 8 of the 10 states exhibit excellent quantitative agreement with an allosteric description. This explains the discrepancy between previous analyses, which had found cyanomethemoglobin to be allosteric, and provides support for the basic allosteric concept that quaternary structure is the primary modifier for ligand affinity in hemoglobin.

Allosteric Regulation↗
PubMed1985

Kinetics of sickle hemoglobin polymerization. I. Studies using temperature-jump and laser photolysis techniques.

Using a combination of laser photolysis and temperature-jump techniques, the kinetics of hemoglobin S polymerization have been studied over a wide range of delay times (10(-3) to 10(5)s), concentrations (0.2 to 0.4 g/cm3) and temperatures (5 to 50 degrees C). A slow temperature-jump technique was used to induce polymerization in samples with delay times between 10(2) seconds and 10(5) seconds by heating a solution of completely deoxygenated hemoglobin S. For samples with shorter delay times, polymerization was induced by photodissociating the carbon monoxide complex in small volumes (10(-9) cm3) using a microspectrophotometer equipped with a cw argon ion laser. The photolysis technique is described in some detail because of its importance in studying hemoglobin S polymerization at physiological concentrations and temperatures. In order, to establish conditions for complete photodissociation with minimal laser heating, a series of control experiments on normal human hemoglobin was performed and theoretically modeled. The concentration dependence of the tenth time is found to decrease with increasing hemoglobin S concentration. In the range 0.2 to 0.3 g/cm3, the tenth time varies as the 36th power of the hemoglobin S concentration, while in the range 0.3 to 0.4 g/cm3 it decreases to 16th power. As the tenth times become shorter, the progress curves broaden, with the onset of polymerization becoming less abrupt. For tenth times greater than about 30 seconds, measurements with the laser photolysis technique on small volumes yield highly irreproducible tenth times, but superimposable progress curves, indicating stochastic behavior. The initial part of the progress curves from both temperature-jump and laser photolysis experiments is well fit with an equation for the concentration of polymerized monomer, delta (t) = A[cosh (Bt) -1], which results from integration of the linearized rate equations for the double nucleation mechanism described in the accompanying paper (Ferrone et al., 1985). The dependence of the parameters A and B on temperature and concentration is obtained from fitting over 300 progress curves. The rate B has a large concentration dependence, varying at 25 degrees C from about 10(-4) S-1 at 0.2 g/cm3 to about 100 s-1 at 0.4 g/cm3.

Hemoglobin, Sickle↗
PubMed1985

Kinetics of sickle hemoglobin polymerization. II. A double nucleation mechanism.

A double nucleation mechanism for the polymerization of sickle hemoglobin is described. The mechanism accounts for all of the major kinetic observations: the appearance of a delay, the high concentration dependence of the delay time, and the stochastic behavior of slowly polymerizing samples in small volumes. The mechanism postulates that there are two pathways for polymer formation: polymerization is initiated by homogeneous nucleation in the solution phase, followed by nucleation of additional polymers on the surface of existing ones. This second pathway is called heterogeneous nucleation. Since the surface of polymers is continuously increasing with time, heterogeneous nucleation provides a mechanism for the extreme autocatalysis that is manifested as an apparent delay in the kinetic progress curves. In this mechanism, each spherulitic domain of polymers is considered to be initiated by a single homogeneous nucleation event. The mechanism explains the irreproducibility of the delay time for single domain formation as arising from stochastic fluctuations in the time at which the homogeneous nucleus for the first polymer is formed. Integration of the linearized rate equations that describe this model results in a simple kinetic form: A[cosh(Bt)-1] (Bishop & Ferrone, 1984). In the accompanying paper (Ferrone et al., 1985) it was shown that the initial 10 to 15% of progress curves, with delay times varying from a few milliseconds to over 10(5) seconds, is well fit by this equation. In this paper, we present an approximate statistical thermodynamic treatment of the equilibrium nucleation processes that shows how the nucleus sizes and nucleation equilibrium constants depend on monomer concentration. The equilibrium model results in expressions for B and B2A as a function of monomer concentration in terms of five adjustable parameters: the bimolecular addition rate of a monomer to the growing aggregate, the fraction of polymerized monomers that serve as heterogeneous nucleation sites, the free energy of intermolecular bonding within the polymer, and two parameters that describe the free energy change as a function of size for the bonding of the heterogeneous nucleus to a polymer surface. This model provides an excellent fit to the data for B and B2A as a function of concentration using physically reasonable parameters. The model also correctly predicts the time regime in which stochastic behavior is observed for polymerization in small volumes.

Hemoglobin, Sickle↗
PubMed1985

Conformational kinetics of triligated hemoglobin.

We have used the method of modulated excitation (Ferrone, F.A., and J.J. Hopfield, 1976, Proc. Natl. Acad. Sci. USA. 73:4497-4501), with an improved apparatus and a revised analytical procedure, to measure the rate of conformational change between the oxy (R) and deoxy (T) conformations of triligated carboxy-hemoglobin A at pH 6.5 and 7.0. We have found the rates to be kRT = 1.2 X 10(3) s-1 and kTR = 3.5 X 10(3) s-1 for pH 6.5, while for pH 7.0, kRT = 1.0 X 10(3) s-1, and kTR = 3.0 X 10(3) s-1. The value for L3, the equilibrium constant between conformations, was virtually unchanged between pH 6.5 and 7.0. While the rates measured here differ from those obtained in the original use of this method, these new rates are fully consistent with the original data when analyzed by the revised procedures presented here. When taken with other kinetic and equilibrium data, our measurements suggest that the transition state between structures is dominated by the behavior of the T quaternary structure. Finally, a spectral feature near the HbCO Soret peak has been observed that we ascribe to an allosteric perturbation of the spectra of the liganded hemes.

Carboxyhemoglobin↗
PubMed1984

Kinetics of nucleation-controlled polymerization. A perturbation treatment for use with a secondary pathway.

We present a perturbation method for analyzing nucleation-controlled polymerization augmented by a secondary pathway for polymer growth. With this method, the solution to the kinetic equations assumes a simple analytic closed form that can easily be used in fitting data. So long as the formation of polymers by the secondary pathway depends linearly on the concentration of monomers polymerized, the form of the solutions is the same. This permits the analysis of augmented growth models with a minimum number of modeling assumptions, and thus makes it readily possible to distinguish between a variety of secondary processes (heterogeneous nucleation, lateral growth, and fragmentation). In addition, the parameters of the homogeneous process, such as the homogeneous nucleus size, can be determined independent of the nature of the secondary mechanism. We describe applications of this method to the polymerization of actin, collagen, and sickle hemoglobin. We present an extensive analysis of data on actin polymerization (Wegner, A., and P. Savko, 1982, Biochemistry, 21:1909-1913) to illustrate the use of the method. Although our conclusions generally agree with theirs, we find that lateral growth describes the secondary pathway better than the fragmentation model originally proposed. We also show how this method can be used to study the degree of polymerization, the parentage of polymers, and the behavior of polymers in cycling experiments.

Actins↗
PubMed1982

Kinetics of sickle haemoglobin polymerization in single red cells.

Kinetic studies on solutions of purified haemoglobin S indicate that the rate of intracellular polymerization is an important variable in the pathophysiology of sickle cell disease. Until now, however, no experimental technique has been available to measure directly the kinetics of intracellular polymerization. Indirect methods, which use visual determination of cellular shape changes or changes in filterability of red cell suspensions, have given apparently conflicting results. Here we report our initial results on the application of a laser-photolysis, light scattering technique to measure directly the kinetics of haemoglobin S polymerization in single red cells. In our experiment, deoxyhaemoglobin S is rapidly formed by photolysing the carbon monoxide complex with an argon ion laser focused inside the cell, and the change in scattered light is used to detect the appearance of polymer. We find a very wide distribution of delay times, ranging from 1 ms to greater than 100 s, indicating that the polymerization inside red cells proceeds by the same nucleation and growth mechanism as in solutions of purified haemoglobin S.

Erythrocytes↗
PubMed1980

Kinetic studies on photolysis-induced gelation of sickle cell hemoglobin suggest a new mechanism.

The kinetics of deoxyhemoglobin S gelation have been investigated using photolytic dissociation of the carbon monoxide complex to initiate the process. Measurements over a wide range of times, 10(-3)-10(4) show that both the concentration dependence of the tenth-time (i.e., the time required to complete one-tenth the reaction) and the time dependence of the process decrease as gelation speeds up. In slowly gelling samples, where single domains of polymers are formed in the small sample volumes employed with this technique (1-2 x 10(-9) cm3), there is a marked increase in the variability of the tenth-times. These results are explained by a mechanism in which gelation is initiated by homogeneous nucleation of polymers in the bulk solution phase, followed by heterogeneous nucleation on the surface of existing polymers. At the lowest concentrations, homogeneous nucleation is so improbable that stochastic behavior is observed in the small sample volumes, and heterogeneous nucleation is the dominant pathway for polymer formation, thereby accounting for the high time dependence. At the highest concentrations homogeneous nucleation becomes much more probable, and the time dependence decreases. The decrease in concentration dependence of the tenth-time with increasing concentration results from a decrease in size of both the homogeneous and heterogeneous critical nuclei. The model rationalizes the major observations on the kinetics of gelation of deoxyhemoglobin S, and is readily testable by further experiments.

Carboxyhemoglobin↗
PubMed1976

Rate of quaternary structure change in hemoglobin measured by modulated excitation.

Using a novel technique of modulated photo-dissociation of carbon monoxide from hemoglobin, we have obtained the rates for conversion between the two quaternary states, R, and T, at 3-fold ligation. Our measurements at pH 7 and 22 degrees give rates of 780 +/- 40 sec-1 for going from R to T, and 2500 +/- 200 sec-1 from T to R. This yields an equilibrium constant of 0.31 +/- 0.04, which is in good agreement with previous estimates. The degree of agreement between this equilibrium constant and that predicted from the allosteric model provides a new, quantitative test of the allosteric description. A sequential model for the change in structure was found incompatible with the data, even if kinetic subunit inequivalence was assumed. The technique described here is quite general and can be used as long as the system under investigation can be repetitively excited in a regime in which it responds linearly to the excitation.

Allosteric Regulation↗