Structural and functional studies of ribonucleoprotein fragments isolated from Escherichia coli 50 S ribosomal subunits.

Ribonuclease digestion of 50 S-derived LiCl cores led to 22 ribonucleoprotein particles which were isolated by repeated sucrose gradient centrifugations. The protein content was determined and ranged from 2 to 28 proteins. Most of the fragments showed a unique RNA pattern as judged by acrylamide gel electrophoresis.Functional tests were performed with selected fragments. No fragment was active in the poly(U) or the peptidyl-transferase assay. Chloramphenicol binding studies revealed that in addition to the dominant role of protein L16, the protein L11 (or L6) is involved directly in the drug binding. Finally, tests for ATPase and GTPase activity showed that protein L18 is involved in GTPase activity.     

In vitro expression of Escherichia coli ribosomal protein L 10 gene: tripeptide synthesis as a measure of functional mRNA

The in vitro synthesis of the initial tripeptide, fMet-Ala-Leu, of Escherichia coli ribosomal protein L10 has been studied in a plasmid DNA-directed system using purified factors. In contrast to the synthesis of the dipeptide, fMet-Ala, described recently (N. Robakis L. Meza-Basso N. Brot, and H. Weissbach, 1981, Proc. Nat. Acad. Sci. USA78, 4261–4264), tripeptide formation leads to a stable peptidyl-tRNA:mRNA:70 S complex. Using mRNA for L10, a good correlation has been observed between the amount of tripeptide formed and the amount of fMet-tRNA bound to a mRNA:ribosome complex. These results indicate that tripeptide formation in this system can be used as a simple and specific assay for the amount of functional mRNA present.     

Regulatory effects of purine ribonucleotides on Escherichia coli adenylosuccinate synthase

Adenylosuccinate synthase (EC 6.3.4.4.) ($\text{l-aspartate + GTP + IMP}\text{→}\text{Mg}{}^{\mathrm{2+}}\text{adenylosuccinate + GDP + P}{}_{\mathrm{i}}$) is an important site for the regulation of adenylate biosynthesis. A partially purified preparation of the enzyme from Escherichia coli B showed feedback inhibition by ADP and AMP, weak positive response to the adenylate energy charge, and weak positive response to the mole fraction of GTP in the GTP + GDP pool. These responses seem to ensure that the synthesis of adenine nucleotides will be controlled appropriately in response to the level of end products and to the energy state of the cell, and to avoid the potential difficulties arising from the fact that the end products of this sequence and the indicators of the energy state of the cell are the same compounds.     

Monomeric structure of glutamyl-tRNA synthetase in Escherichia coli.

An investigation of the subunit structure of glutamyl-tRNA synthetase (EC 6.1.1.17) from Escherichia coli indicates that this enzyme is a monomer. The enzyme purified to apparent homogeneity is a single polypeptide chain with a molecular weight of 62,000 ± 3,000 and K^Glu_m ? 50 μM in the aminoacylation reaction. Analytical gel electrophoretic procedures were used to determine the molecular weight of species exhibiting glutamyl-tRNA synthetase activity in freshly prepared extracts of several strains of E. coli, which had been grown under various nutritional conditions and harvested at different stages of growth. In all cases, glutamyl-tRNA synthetase activity was associated with a protein having about the same molecular weight and K^Glu_m as the purified enzyme. Thus, no evidence of an oligomeric form of glutamyl-tRNA synthetase with a greater affinity for l-glutamate was obtained, in contrast to a previous report of J. Lapointe and D. Söll (J. Biol. Chem.247, 4966–4974, 1972).     

Inhibition of sugar uptake by ascorbic acid in Escherichia coli

The uptake of glucose by the glucose phosphotransferase system in Escherichia coli was inhibited greater than 90% by ascorbate. The uptake of the nonmetabolizable analog of glucose, methyl-alpha-glucoside, was also inhibited to the same extent, confirming that it was the transport process that was sensitive to ascorbate. Similarly, it was the transport function of mannose phosphotransferase for which mannose and nonmetabolizable 2-deoxyglucose were substrates that was partially inhibited by ascorbate. Other phosphotransferase systems, including those for the uptake of sorbitol, fructose and N-acetylglucosamine, but not mannitol, were also inhibited to varying degrees by ascorbate. The inhibitory effect on the phosphotransferase systems was reversible, required the active oxidation of ascorbate, was sensitive to the presence of free-radical scavengers, and was insensitive to uncouplers. Because ascorbate was not taken up by E. coli, it was concluded that the active inhibitory species was the ascorbate free radical and that it was interacting reversibly with a membrane component, possibly the different enzyme IIB components of the phosphotransferase systems. Ascorbate also inhibited other transport systems causing a slight reduction in the passive diffusion of glycerol, a 50% inhibition of the shock-sensitive uptake of maltose, and a complete inhibition of the proton-symport uptake of lactose. Radical scavengers had little or no effect on the inhibition of these systems.     

A complex of acidic ribosomal proteins. Evidence of a four-to-one complex of proteins in the Bacillus stearothermophilus ribosome

Two acidic proteins from the 50 S subunit of Bacillus stearothermophilus ribosomes, namely B-L13 (homologous to Escherichia coli protein $\text{L}\text{7}\text{L}\text{12}$) and B-L8, form a complex. Radioactive B-L13, added to ribosomes before dissociation, does not appear in the complex after electrophoresis, so the (B-L13 · B-L8) complex must exist in the ribosome before dissociation. Digestion of B. stearothermophilus ribosomes with polyacrylamide-bound trypsin causes the appearance of new B-L8 and B-L13 spots on two-dimensional polyacrylamide gel electrophoresis, in a pattern which suggests that single molecules of B-L13 are being sequentially cleaved from a four-to-one complex of B-L13 and B-L8.     

Direct measurement of carbon monoxide bound to different subunits of hemoglobin A in solution and in red cells by infrared spectroscopy

Infrared spectra for carbon monoxide bound to alpha and beta subunits of human hemoglobin A have subunit differences near 1950 cm-1 and indicate that 92% of the alpha subunits exist in one conformer and 5% in a second conformer under conditions where 99% of the beta subunit is in only one conformation. The sum of the separated subunit spectra is equivalent to the alpha 2 beta 2 tetramer spectrum. CO infrared spectra indicate that CO displaces O2 from HbO2 in red cells or in solution preferentially at the beta subunits. The measurement of C-O stretch bands provides a direct method for characterization of ligand binding sites within intact cells.     

Intrinsic perturbing ability of alkanols in lipid bilayers

The proportionality constant between the equipotency concentrations of a series of solutes and the fraction of a solute in the membrane phase is directly related to the solute to lipid mol ratio. Experimental measurements of partition coefficient and of several alkanol-induced effects show that the solute/lipid mol ratlos for a series of alkanols are not constant at their equipotency concentrations. The deviations in the solute/lipid ratios are similar in the various systems, and these deviations seem to depend primarily upon the chain length and branching in alkanols. It is suggested that such intrinsic differences in the perturbing ability of alcohols arise from a specificity of interaction between alkanols and lipid bilayer. We have correlated partition coefficients (in n-octanol, in egg phosphatidylcholine liposomes, and in dipalmitoyl phosphatidylcholine liposomes) for thirteen alkanols to the equipotency concentrations for their ability to modify the order-disorder thermotropic transition in dipalmitoyl phosphatidylcholine, ability to stimulate the hydrolysis of phosphatidylcholine in a bilayer by bee venom phospholipase A₂, and for the activation of the galactoside transport system in Escherichia coli. Significant correlation is found between equipotency concentrations for perturbing the order-disorder transition, the activation of phospholipase A₂-catalyzed hydrolysis and the activation of galactoside transport system.     

Reactivity of singlet molecular oxygen with cholesterol in a phospholipid membrane matrix. A model for oxidative damage of membranes

Photooxidation of cholesterol in liposomes with hematoporphyrin sensitization has been studied. With liposomal samples in which the hematoporphyrin is incorporated in the membrane, the yield of the characteristic singlet oxygen product, 3β-hydroxycholest-6-ene 5α-hydroperoxide, was approximately 6 times greater than that observed in the samples in which the hematoporphyrin was outside the membrane. Small amounts of 3β-hydroxycholest-5-ene 7α- and 7β-hydroperoxides, radical autoxidation products, were formed in both samples. Photolysis of a dispersion of cholesterol in an aqueous solution of hematoporphyrin gave no singlet oxygen products. It is concluded from these results that endogenous singlet oxygen when formed in the phospho-lipid membrane has a sufficiently long lifetime to effect oxygenation of cholesterol; whereas exogenous singlet oxygen generated outside the membrane is quenched by solvent before appreciable diffusion into the membrane can occur.     

On the control of septation in Escherichia coli.

Mutants of E. coli defective in cell septation (ftsA to ftsG, conditional thermosensitive mutants isolated by Ricard and Hirota) were studied with respect to their membrane protein composition, murein hydrolase activities and rates of synthesis of murein and phospholipids. Three classes of mutants have been distinguished: 1) those affected in both murein and phospholipid synthesis; 2) those affected in either murein or phospholipid synthesis and 3) those affected in neither of these parameters. Overall murein hydrolase activities, after activation, is of the same order in all the mutants screened. In addition to soluble products of murein splitting, we have found insoluble products that appear to be in dynamic equilibrium with the murein of the sacculus. Endogenous levels of cyclic adenosine 3',5'-monophosphate measured after blocking septation showed no variation. This suggests that the cyclic nucleotide is not involved in the metabolic control of septation.     

A sensitive method for estimating 5-phosphoribosyl 1-pyrophosphate in Escherichia coli

A sensitive method, which uses a PRT'ase-catalysed reaction to couple PRPP with a labeled base, has been described for estimating the PRPP content of E. coli. Although the method is basically that of Henderson and Khoo (2), a new chromatographic system, which allows the complete separation of [¹⁴C]nucleoside 5′-phosphate from any contaminating [¹⁴C]-labeled base, has been devised. Further, the extraction process and the conditions for the PRT'ase reaction have both been modified for application to bacterial cultures. Finally, a choice between methods using either [¹⁴C]adenine or [¹⁴C]guanine, with their respective PRT'ase enzymes, allows for the estimation of PRPP in extracts which contain unlabeled purine or pyrimidine bases.     

Ribonucleic acid-protein crosslinking in Escherichia coli ribosomal 30S subunits by the use of two new heterobifunctional reagents: 4-azido-2,3,5,6-tetrafluoropyridine and 4-azido-3,5-dichloro-2,6-difluoropyridine

Two new heterobifunctional reagents (4-azido-2,3,5,6-tetrafluoropyridine and 4-azido-3,5-dichloro-2,6-difluoropyridinel were synthesized and used to crosslink RNA to protein in Escherichia coli ribosomal 30S subunits. The maximal yield of crosslinking of the protein moiety was evaluated as 3.5%. Only proteins S4, S7 and S9 were found to be crosslinked to the 16S RNA within the 30S subunits.     

A model reaction demonstrating alkylating properties of pyridoxol, involving an o-quinone methide intermediate

The synthesis of several specifically substituted pyridoxine derivatives 5, 6, 7, 8, 9, 10, 11, and 12, is described. A pyridoxol derived o-quinone methide, postulated as the common reaction intermediate, gives rise to the specific pyridoxol substitution encountered in these products. The mechanism is discussed as a model for a new type of pyridoxine transformation, either in known vitamin-B₆-dependent enzymatic reactions or in toxicological reactions induced by pyridoxine.     

Purification and partial characterization of hatching protease of the sea urchin, Strongylocentrotus purpuratus.

The supernatant above hatched sea urchin (Strongylocentrotus purpuratus) blastulae contains crude hatching protease, which is heterogeneous in molecular weight, solubility, charge, and density. It requires urea treatment (6 m, 22 °C, 6 h) to dissociate from the enzyme the heterogeneous population of fragments it has generated in digesting its substrate, the fertilization envelope. It can then be purified 340-fold by diethylaminoethyl-cellulose, ammonium sulfate, and Sephadex G-100. The resulting preparation, homogeneous by the criteria of gel exclusion chromatography, sodium dodecyl sulfate gel electrophoresis, and thermal inactivation, has the following properties: specific activity = 1.44 U mg^?1 (1.44 μmol min^?1 mg^?1); k_cat = 0.72 s^-1; molecular weight = 29,000; energy of activation = 12.9 kcal mol^?1 on dimethylated casein;K_m = 0.93 mgml^?1 dimethylated casein. The pure enzyme is optimally active at pH 7 to 9, 0.5 m NaCl, 10 mm Ca²⁺, and 42 °C. Purification renders the enzyme less stable to freezing and thawing and increases the rate of its thermal inactivation at 37 °C by 100-fold.     

Primary structure of human plasma fibronectin--characterization of the 6,000 dalton C-terminal fragment containing the interchain disulfide bridges

The carboxy terminal fragment of human plasma fibronectin has been isolated after tryptic digestion and separation by DEAE-cellulose chromatography and gel filtration on Sephadex G-50. It has a molecular weight of 6,000 which changes to 3,000 after reduction indicating that the fragment is a dimer. We have determined the amino acid sequence of the 6kDa fragment and showed that it contains 26 residues including two half-cystines which form two interchain disulfide bridges. The 6kDa fragment is not phosphorylated as in bovine fibronectin although its amino acid sequence is identical to that reported for bovine plasma fibronectin. When compared to the sequence deduced from a rat cDNA, one amino acid substitution can be found. It appears that the carboxyl end of fibronectin is highly conserved among species.