Heterodimerization of thyroid hormone (TH) receptor with H-2RIIBP (RXR beta) enhances DNA binding and TH-dependent transcriptional activation.

Steroid/TH receptors mediate transcriptional induction of promoters containing hormone response elements (HREs) through an unclear mechanism that involves receptor binding to both hormone and a HRE. Here we demonstrate that both HRE binding and the transcriptional inducing activities of one member of this family, TH receptor, were markedly enhanced by heterodimerization with H-2RIIBP, a non-TH-binding member of the steroid hormone receptor superfamily. H-2RIIBP, the mouse homologue of human retinoic acid-related receptor, was shown to form stable heterodimers with the TH receptor either in solution or when bound to a TH response element. The results presented indicate that it might be necessary for the TH receptor or other members of this superfamily to have specific partners for heterodimer formation to elicit maximal hormone-specific gene regulation from particular HREs.

Thermodynamics of reversible monomer-dimer association of tubulin.

The equilibrium between the rat brain tubulin alpha beta dimer and the dissociated alpha and beta monomers has been studied by analytical ultracentrifugation with use of a new method employing short solution columns, allowing rapid equilibration and hence short runs, minimizing tubulin decay. Simultaneous analysis of the equilibrium concentration distributions of three different initial concentrations of tubulin provides clear evidence of a single equilibrium characterized by an association constant, Ka, of 4.9 X 10(6) M-1 (Kd = 2 X 10(-7) M) at 5 degrees, corresponding to a standard free energy change on association delta G degrees = -8.5 kcal mol-1. Colchicine and GDP both stabilize the dimer against dissociation, increasing the Ka values (at 4.5 degrees C) to 20 X 10(6) and 16 X 10(6) M-1, respectively. Temperature dependence of association was examined with multiple three-concentration runs at temperatures from 2 to 30 degrees C. The van't Hoff plot was linear, yielding positive values for the enthalpy and entropy changes on association, delta S degrees = 38.1 +/- 2.4 cal deg-1 mol-1 and delta H degrees = 2.1 +/- 0.7 kcal mol-1, and a small or zero value for the heat capacity change on association, delta C p degrees. The entropically driven association of tubulin monomers is discussed in terms of the suggested importance of hydrophobic interactions to the stability of the monomer association and is compared to the thermodynamics of dimer polymerization.

Easily assembled digital data acquisition system for the analytical ultracentrifuge.

A system for the acquisition of digital data from the analytical ultracentrifuge which uses a commercially available data acquisition board, a standard IBM compatible personal computer (PC), and an interface circuit has been developed. The system uses the signal from the standard Beckman scanner. Preliminary analysis and data reduction are performed at the PC within minutes of data acquisition using simple commercially available software, and final data fitting is performed with a mainframe computer. Procedures are described which allow approach to equilibrium to be followed and attainment of equilibrium to be demonstrated. Data density of approximately 200 points per millimeter column height (approximately 500 points per 100 microliters of sample) allows the use of short columns and hence short run times. Only 2 min are required to collect a complete scan, which is recorded in a format suitable for direct analysis by standard spreadsheet software. This allows multiple sequential scans to be quickly recorded at equilibrium and averaged to reduce noise prior to analysis. The combination of characteristics allows molecular weight determinations to be performed relatively quickly with only a few micrograms of protein. The system is inexpensive and easy to assemble given the centrifuge and a PC.

Organization of clathrin coat structures.

Clathrin (8S), when purified, polymerizes under low-pH conditions (0.1 M MES, pH 6.0-6.2) into a heterogeneous population of baskets with sedimentation coefficients ranging from 150 to 400 S. Several groups of proteins of molecular masses 180, 110, 100, 50, and 47 kDa (based on sodium dodecyl sulfate gel electrophoresis) present in the isolated coated vesicles are involved in polymerizing clathrin under physiological conditions to a homogeneous population of baskets [Zaremba, S., & Keen, J. H. (1983) J. Cell Biol. 97, 1339; Ahle, S., & Ungewickell, E. (1986) EMBO J. 5, 3143]. We now report that in 0.1 M MES, pH 6.0, where pure clathrin polymerizes by itself, the above proteins (together known as associated proteins or APs) induce polymerization of clathrin into three distinct sizes of baskets with sedimentation coefficients of 150, 220, and 300 S. Low ratios of clathrin to APs give rise to smaller sizes, whereas higher ratios give rise to predominantly the larger sizes. The smaller size baskets (150S) are intermediates in the polymerization of clathrin to larger size baskets (300S) as inferred from the dissociation of larger size baskets into smaller size baskets and the formation of larger size baskets from smaller size baskets upon the addition of pure clathrin.

Molecular characterization of the AP180 coated vesicle assembly protein.

Recently, a new clathrin assembly protein (AP180) has been purified from coated vesicles of bovine brain (Ahle & Ungewickell, 1986). This protein has been shown to promote polymerization of clathrin into a homogeneous population of baskets under conditions where pure clathrin does not polymerize by itself. We have purified this protein from coated vesicles by a simpler method than has been reported. The method involves a gel filtration step on a Sephacryl S-300 column, in 0.5 M Tris-HCl, pH 8.0, and a hydroxylapatite column eluted with 10 mM sodium phosphate/0.5 M Tris-HCl, pH 7.0. By running SDS gels over an extended period of time (5-15% gradient gel, 10 mA for the first 12 h followed by 20 mA for the next 3-4 h) after the marker dye entered the electrode buffer, we have been able to separate AP180 from clathrin heavy chain on the gels. This enabled us to determine its stoichiometry to clathrin heavy chains in isolated coated vesicles and assembled baskets, and was helpful in the purification procedure. The apparent molecular weight of the pure protein on SDS gels was about 180,000, yet gel filtration yielded values of about 120,000. Thus, we undertook the molecular weight determination by another independent method, sedimentation equilibrium analysis, and found a molecular weight of 115,000 and a sedimentation coefficient of 3.50 +/- 0.05 S. Circular dichroism data revealed that it has 30% helical structure, 14% beta-structure, 27% beta-sheet, and the rest random peptides.(ABSTRACT TRUNCATED AT 250 WORDS)

Deep-etch visualization of 27S clathrin: a tetrahedral tetramer.

It has recently been reported that 8S clathrin trimers or "triskelions" form larger 27S oligomers upon dialysis into low ionic strength buffers (Prasad, K., R. E. Lippoldt, H. Edelhoch, and M. S. Lewis, 1986, Biochemistry, 25:5214-5219). Here, deep-etch electron microscopy of the 27S species reveals that they are closed tetrahedra composed of four clathrin triskelions. This was determined by two approaches. First, standard quick-freezing and freeze-etching of unfixed 27S species suspended in 2 mM 2-(N-morpholino)ethane sulfonic acid (MES) buffer, pH 5.9, yielded unambiguous images of tetrahedra that measured 33 nm on each edge. Second, the technique of freeze-drying molecules on mica (Heuser, J. E., 1983, J. Mol. Biol., 169:155-195) was modified to overcome the low affinity of mica in 2 mM MES, by pretreating the mica with polylysine. Thereafter, 27S species adsorbed avidly to it and collapsed into characteristic configurations containing four globular domains, each linked to the others by three approximately 33-nm struts. The globular domains look like vertices of deep-etched clathrin triskelions and the links, numbering 12 in all, look like four sets of triskelion legs. New light scattering and equilibrium centrifugation data confirm that 27S polymer is four times as massive as one clathrin triskelion. We conclude that in conditions that do not favor the formation of standard clathrin cages, low affinity interactions lead to closed, symmetrical assemblies of four triskelions, each of which assumes a unique puckered, straight-legged configuration to create the edges of a tetrahedron. Tetrahedra are similar in construction to the cubic octomers of clathrin recently found in ammonium sulfate solutions (Sorger, P. K., R. A. Crowther, J. T. Finch, and B. M. F. Pearse, 1986, J. Cell Biol., 103:1213-1219) but are still smaller, involving only half as many clathrin triskelions.

Purification and characterization of a molecular weight 100,000 coat protein from coated vesicles obtained from bovine brain.

A protein designated as a 100-kDa protein on the basis of sodium dodecyl sulfate gel electrophoresis was purified from coated vesicles obtained from bovine brain, with uncoated vesicles as starting material. Two gel filtration steps, one involving 0.5 M tris(hydroxymethyl)aminomethane, pH 8.0, buffer, and the other 0.01 M tris(hydroxymethyl)aminomethane, pH 8.0, and 3 M urea buffer, were employed. The purified protein has a native molecular weight of 114,000 as determined by sedimentation equilibrium analysis. Circular dichroism data showed that the protein has 28% helical structure, 29% beta-structure, and 15% beta-turns, and the rest is random coil. Addition of the purified protein to clathrin results in the polymerization of clathrin to homogeneous size baskets of sedimentation velocity 150 S. A scan of the Coomassie Blue stained electrophoresis gels of the polymerized baskets shows that, for every clathrin trimer, there is approximately one 100-kDa protein molecule.

An intermediate polymer in the assembly of clathrin baskets.

Clathrin (8 S) is known to polymerize into two varieties of basket structures (150 S or 300 S) under the normal buffer conditions [100 mM 2-(N-morpholino)ethanesulfonic acid (Mes), pH 5.9-6.7] used for the isolation of coated vesicles. However, it is now observed that under very low salt conditions (2 mM Mes, pH 5.9), it forms a homogeneous species with a sedimentation coefficient of 27 S. Increasing the salt concentration to 50 mM Mes completely converts all the 27S species into 150S baskets. Sedimentation equilibrium data show that this 27S species has a molecular weight that is 6 times that of the clathrin protomer and is the result of highly cooperative reversible self-association of the 8S protomer. Light-scattering studies show that the stabilities of 27S species and baskets (150 S or 300 S) are comparable. Fluorescent labeling of sulfhydryl groups with N-(1-anilinonaphthalenyl)maleimide indicates that the conformation of clathrin in 27S species and baskets (150 S or 300 S) is similar. Trypsin digestion reveals that in the 27S species clathrin has a conformation differing from that in both the 8S species and baskets.

Coat formation in coated vesicles.

The proteins of Mr 100 000-110 000 present in the protein coat of coated vesicles have been shown to facilitate formation of a homogeneous small-size basket (coat) when added to clathrin [Zaremba, S., & Keen, J.H. (1983) J. Cell Biol. 97, 1339]. We have prepared this protein of coat proteins by two different methods and shown that they are very important for the binding of clathrin to uncoated vesicles to form coated vesicles. By labeling the three components (clathrin, 100 000-110 000 proteins, and uncoated vesicles) with different fluorescent markers and analyzing their distribution on sucrose gradients, we have been able to determine the composition of the products formed. In the presence of the 100 000-100 000 fraction of coat proteins, not only does the size distribution of the clathrin basket become uniform but also the rate of polymerization is strongly increased.

The stability and transitions of tryptic-digested clathrin.

The pH-dependence of dissociation of trypsin-digested baskets has been determined by light scattering and compared with that of undigested baskets. Essentially no difference was found between the two types of baskets. The molecular transitions of clathrin derived from digested baskets have been studied by fluorescence spectra and polarization measurements and compared with those of undigested baskets. The transitions in both forms of clathrin were very similar. It is clear, therefore, that removal of about 1/3 of the mass from the distal portions of the arms of the clathrin triskelion does not affect its structural transitions. The interactions between clathrin molecules in the basket structure and those within the molecule appear, therefore, to remain intact in the smaller clathrin chains remaining after tryptic digestion. The function of the distal portion of the clathrin chain still awaits elucidation.

Structural characterization of labeled clathrin and coated vesicles.

Clathrin (8 S) and coated vesicles have been covalently labeled by using the sulfhydryl-labeling fluorescent probe N-(1-anilinonaphthalene)maleimide. A large increase in energy transfer from Trp to anilinonaphthalene (AN) residues was observed in clathrin in the pH range approximately 6.5-6.0, where the rate of clathrin self-association increased rapidly. The change in energy transfer was indicative of a conformational rearrangement, which could be responsible for the initiation of the clathrin self-association reaction to form coat structure. The AN label was found in both the coat and membrane proteins after dissociation of coated vesicles at pH 8.5. The labeled coat and membrane proteins readily recombined to form coated vesicles after reducing the pH to 6.5, indicating that the labeling did not interfere with the ability of clathrin to self-associate and interact with uncoated vesicles to form coat structure. A comparison of the AN fluorescence with the Coomassie blue pattern after electrophoresis in sodium dodecyl sulfate-gels revealed that a 180,000-Da protein (clathrin) was mainly labeled in coated vesicles, while a 110,000-Da protein was also strongly labeled in uncoated vesicles. AN-labeled baskets and coated vesicles have been prepared. Trypsin digestion reduced the sedimentation rate of baskets from 150 S to 120 S and of coated vesicles from 200 S to 150 S. Gel electrophoresis of baskets and coated vesicles showed extensive conversion of clathrin (Mr 180,000) to a product of Mr approximately equal to 110,000, suggesting equivalent structural organization of the coat in coated vesicles as in baskets. In both cases, the peptide(s) released from the vesicles by digestion were essentially free of fluorescent label. In the case of the uncoated vesicles, tryptic digestion released most of the proteins remaining after coat removal.

Stability and structure of clathrin.

The effects of urea on the dissociation and structural transitions of clathrin (8 S) have been evaluated by various techniques. The dissociation of the light chains in 3 M urea has been shown by light scattering, ultracentrifugation, and column chromatography. The dissociated components still retain the capacity to form the characteristic polygonal structure of the coat after removal of the urea. At higher concentrations of urea, the secondary and tertiary structures are eliminated, as documented by various spectroscopic techniques, i.e., tryptophan polarization and emission maxima, circular dichroism, and difference spectra. Two distinct transitions are observed by all techniques, one between 3 and 6 M urea and a second one which starts at 7 M but is still incomplete by 9.6 M urea. A concentration-dependent aggregation of clathrin chains occurs in 4 and 5 M urea solutions, as observed by light scattering and sedimentation. The results indicate that there are two large, independent domains in clathrin heavy chains and that each domain may have a single, highly cooperative transition.

Organization and dynamics of lipids in bovine brain coated and uncoated vesicles.

Three characteristics have been demonstrated by the chemical analysis of bovine brain coated vesicles following removal of the coat proteins: a high protein content, a high cholesterol/lipid ratio and a high percentage of phosphatidylethanolamine amongst the phospholipids. The study of lipid bilayer organization and dynamics has been performed using the fluorescent probes pyrene and parinaric acid (cis and trans). This has allowed the study of both lateral mobility and rotational motion in the lipid bilayer of the coated and uncoated vesicles. Lateral mobility in the fluid phase of the lipid is slightly reduced by the presence of the clathrin coat, as indicated by the lower diffusion coefficient of pyrene in coated compared with uncoated vesicles. At all temperatures from 6 degrees to 30 degrees C, solid-phase domains, probed by trans parinaric acid, coexist with fluid-phase domains in the lipid bilayer. The temperature dependence of the parinaric acid lifetimes and of their amplitudes strongly suggests that the solid phase domains decrease in size with temperature, both in coated and uncoated vesicles. However, the difference in the value of the anisotropy at long times (r infinity), between coated and uncoated vesicles (a difference which is more pronounced for cis than for trans parinaric acid), indicates that the presence of the clathrin coat introduces disorder in the surrounding lipids, thus suggesting a possible role of the clathrin in the formation of the pits on the plasma membrane.

Sizes and mass distributions of clathrin-coated vesicles from bovine brain.

Clathrin-coated vesicles obtained from bovine brain have been studied by ultracentrifugation and dynamic light scattering techniques to provide information on their sedimentation and mass distributions and their average diffusion coefficients. "Uncoated" vesicles, obtained by removing the protein coat from coated vesicles, have been similarly characterized. For typical preparations, maximal values of approximately 210 and 95 S are observed for the sedimentation coefficients of coated and uncoated vesicles, respectively. Corresponding values for the average molecular weights, determined from values of average sedimentation and diffusion coefficients, are 49 X 10(6) and 13 X 10(6); values obtained by equilibrium sedimentation are 37.2 X 10(6) and 10.6 X 10(6). In order to obtain these results, some minor modifications of sedimentation and light-scattering techniques have been devised which may have application to other studies of size distributions of large particles.

Reversibility of coated vesicle dissociation.

The dissociation of the coated vesicles to clathrin and uncoated vesicles and their reassociation have been studied under various conditions. The extent of reassociation is pH dependent and increases slightly with increasing concentrations of the components. Unlike the self-association of clathrin which is strongly salt dependent, the reassociation of clathrin and uncoated vesicles is practically independent of salt concentration. The coated vesicle gradually loses its coat with increasing pH, and the dissociation process is not an all or none reaction. Ca2+ inhibits dissociation of the coated vesicles and enhances the reassociation of clathrin and uncoated vesicles. Our results show that, although many conditions result in reassociation of protein and lipid vesicle, few conditions result in vesicles of both the same size and composition as native coated vesicles.

Properties of clathrin coat structures.

Clathrin polymerizes to form characteristic coat structures (baskets) closely resembling those found on coated vesicles. Two sizes of baskets are formed from clathrin, depending on the purity of the preparation and on other factors. A protein of Mr 110 000 has been separated from clathrin by lysine-Sepharose chromatography which is needed for the formation of 150S baskets. In its absence, polymerization results in the larger size baskets, i.e., 300S. Addition of Ca2+ or Mg2+ stimulates 300S formation in the presence of the 110 000 protein.

Instability of coated vesicles in concentrated sucrose solutions.

A method of preparing homogeneous coated vesicles that eliminates the high sucrose concentrations heretofore used is presented. It is shown that sucrose at high concentrations dissociates the coat from coated vesicles. This reaction can explain the presence of empty coats observed with preparations obtained with high concentrations of sucrose. The protein and membrane lipid components have been analyzed by the intrinsic tryptophan and extrinsic diphenylhexatriene fluorescence, respectively. Analysis of mixtures of coated vesicles and baskets resolved the contributions of the two species to the fluorescence curves.

Effects of several antimalarials and phenothiazine compounds on the formation of coat structure from clathrin.

We have evaluated the effects of two phenothiazine and several antimalarial drugs on the rates of polymerization of 8S clathrin molecules to 300S coat structures. Most of the drugs investigated have been shown in other studies to inhibit receptor-mediated endocytosis through the coated pit regions of plasma membranes. The two types of drugs were found to accelerate the polymerization rate without having much effect on the size distribution of the polymer species. The activities of the drugs appear to depend on the dibasic moiety and a large, hydrophobic aromatic ring in their structures.

Effect of basic compounds on the polymerization of clathrin.

The effects of several divalent cations, various polybasic amines, and lysozyme on the rate of polymerization of 8S clathrin to the 300S coat structure have been evaluated by turbidimetric procedures. Ca2+ and Mn2+ strongly enhance the rate of polymerization. Only spermine among the naturally occurring polybasic amines had an important effect. Of the several basic proteins evaluated, only lysozyme stimulated the rate of polymerization. Some of these substances were able to increase the rate sufficiently so that polymerization occurred at physiological pH values. Without these compounds, clathrin will only polymerize at pH values of 6.8 or less.

Polymerization of clathrin protomers into basket structures.

The effects of pH, ionic strength, temperature, and protein concentration on the rate of clathrin (8 S) polymerization to form coat (or basket) structures (approximately 300 S) have been measured by turbidity. The extent of polymerization has also been evaluated under the same experimental conditions by analytical centrifugation. The characteristic polygonal structure of the re-formed coat was confirmed by electron microscopy. The rate of polymerization is sensitive to all the variables investigated. The reaction is very slow at pH approximately 7 and becomes very rapid by pH approximately 6. The polymerization is readily reversed by increasing the pH slightly. The time dependence of the polymerization does not conform to either a first- or a second-order reaction but to a higher order. Increasing temperature increases the rate but decreases the extent of reaction. Increasing the salt concentration decreases the rate. The effects of several salts on the rate follow the Hofmeister ranking, with the exception of sulfate.