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W C Johnson

Publications and source records attributed to W C Johnson.

At least 91 records · Page 5Linked to original sources
PubMed1989

The transition state transcription regulator abrB of Bacillus subtilis is a DNA binding protein.

The product of the abrB gene of Bacillus subtilis is an ambiactive repressor and activator of the transcription of genes expressed during the transition state between vegetative growth and the onset of stationary phase and sporulation. Purified AbrB protein binds specifically in a highly co-operative fashion to fragments of DNA containing the promoters it affects. DNase I footprints of the binding regions in these promoters revealed large protected areas of 50-120 nucleotides or more depending on the promoter. Methylation protection experiments gave protected guanine residues on only one face of the DNA helix. A consensus sequence could be deduced around these guanine residues that was not found around non-protected guanine residues in the footprint region. The results suggested that stationary phase functions and sporulation are repressed during active growth by AbrB and other transition state regulators by binding to the affected promoters in a concentration-dependent manner.

Bacillus subtilis↗
PubMed1989

Stomal varices: percutaneous transhepatic embolization.

Peristomal varices occasionally form in patients with chronic liver disease who have surgically created intestinal anastomoses and stomas. Hemorrhage from these varices carries an estimated mortality of 3%-4% per episode, as opposed to the 30%-40% mortality associated with gastroesophageal variceal bleeding. The cases of four patients who underwent transhepatic mesenteric vein catheterization with embolization of stomal varices for recurrent, intractable bleeding are presented. In three of the four patients there was no additional hemorrhage for at least 5 months. One patient was lost to follow-up. There were no complications. Since stomal variceal hemorrhage has a low mortality, transhepatic embolization is presented as a means of hemorrhage control when sclerotherapy fails and when shunt surgery presents an unacceptably high rate of morbidity and mortality relative to the underlying disease.

Aged↗
PubMed1988

Structure and function of the carboxyl-terminal oxygen-binding domain from the subunit of Octopus dofleini hemocyanin.

The C-terminal domain, Od-1, of the 7-domain subunit of Octopus dofleini hemocyanin has been prepared by partial trypsinolysis followed by ion-exchange chromatography. It binds oxygen reversibly and is homogeneous in molecular weight. Its physical properties have been compared with those of the subunit. The domain molecular weight is found by sedimentation equilibrium to be 4.7 X 10(4), in excellent agreement with the result recently obtained in our laboratory from cDNA sequencing of this domain [Lang, W. H. (1988) Biochemistry (preceding paper in this issue)]. It has a sedimentation coefficient of 3.8 S. Both the molecular weight and sedimentation coefficient are consistent with the domain constituting approximately one-seventh of the Mr 3.5 X 10(5) subunit. Its amino acid composition and carbohydrate content differ significantly from that of the whole subunit, confirming the heterogeneity in domains previously established on an immunological basis. Circular dichroism predicts similar secondary structure for the domain and subunit. The domain does not self-associate in the presence of Mg2+ but does bind to the whole molecule in a ratio of approximately 1 domain/subunit. The oxygen affinity of this domain is quite low. It shows intrinsic magnesium and Bohr effects similar to those of the whole molecule but of greatly reduced magnitude.

Acetylgalactosamine↗
PubMed1988

Conformational transition of hyaluronic acid in aqueous-organic solvent monitored by vacuum ultraviolet circular dichroism.

The chiroptical transition of hyaluronic acid (HA) in aqueous-organic solvent has been investigated by circular dichroism (CD) spectroscopy into the vacuum ultraviolet region. The CD of HA changes dramatically, monitoring a cooperative transition as the dielectric constant of an aqueous solution is reduced by adding organic solvents. This transition results in a high-intensity CD band at 188 nm, indicating an ordered structure in the mixed solvent. Heating HA in the mixed solvent also causes a cooperative transition, reducing the CD to that found for the polymer in aqueous solution. In contrast, heating HA in aqueous solution results in small, noncooperative changes in the CD spectrum. This indicates an unordered structure in aqueous solution. The CD as the dielectric constant is reduced exhibits isodichroic points, showing that there are only two environments for chromophores contributing to the CD. This is confirmed by singular value decomposition of CD spectra recorded as a function of solvent composition, which shows the spectra to contain only two principal components. The data describing the thermally induced transition of HA in mixed solvent are not consistent with infinite cooperativity. The van't Hoff relation yields thermodynamic parameters for the conformational transition in terms of the cooperative unit of -60 kcal mol-1 for delta H degrees and -180 eu mol-1 for delta S degrees.

Carbohydrate Conformation↗
PubMed1988

Double-stranded structure for hyaluronic acid in ethanol-aqueous solution as revealed by circular dichroism of oligomers.

The sigmoidal nature of circular dichroism (CD) changes for hyaluronic acid solutions as a function of solvent composition or temperature is studied as a function of chain length by using oligomers. We find a chain length effect with approximately nine disaccharides required for the structural transition as a function of organic solvent, which proves that the transition is cooperative with large transition enthalpy and entropy. The transition also depends on sample concentration as expected for strand association, and this was investigated in detail for oligomers 12 and 16 disaccharides long. Indeed, it was possible to prevent completely the transition in mixed solvent with sufficient dilution of these oligomers, which demonstrates strand association. The CD data in mixed solvent as a function of oligomer concentration were fit with various models for association of two and more strands. Simplex methods were used to investigate the vector space of unknowns for the models, and two-strand models were shown to consistently give a better fit. A cooperative two-strand zipper model which allows relative sliding of the chains had the smallest fitting error and produced the following thermodynamic parameters (in terms of a duplex of disaccharide units) for the ordered structure in an aqueous solution containing 45% v/v ethanol, 12.5 mM NaH2PO4, and 7.5 mM H3PO4: enthalpy of growth, -1.0 +/- 0.3 kcal mol-1; entropy of growth, -2.3 +/- 1.3 eu mol-1; enthalpy of initiation, -20 +/- 3 kcal mol-1; entropy of initiation, -71 +/- 15 eu mol-1. The results are consistent with a double-stranded and helical structure for hyaluronic acid in solutions of reduced dielectric constant.

Carbohydrate Conformation↗
PubMed1988

Supplemental oxygen and dependent positioning as adjunctive measures to improve forefoot tissue oxygenation.

Fifty-seven patients with resting pain or tissue necrosis were found to have a forefoot transcutaneous tissue oxygen (tcPO2) level less than 30 mm Hg. The adjunctive measures of foot dependency (36 cm below heart level) and nasal oxygen of 3 L/min were evaluated in these patients. In general, the improvement in tcPO2 levels with these adjunctive measures was not related to basal levels of forefoot or arm tcPO2. One can expect an increase in tcPO2 level of approximately 22 mm Hg while employing the dependent position and an additional benefit of 12 mm Hg with the administration of nasal oxygen. Of the 35 patients with a basal forefoot tcPO2 level of less than 10 mm Hg, 11 did not respond to these adjunctive measures.

Aged↗
PubMed1988

Identification of Babesia bovis merozoite surface antigens by using immune bovine sera and monoclonal antibodies.

Three Babesia bovis merozoite surface proteins with relative molecular weights of 37,000, 42,000, and 60,000 were identified by indirect immunofluorescence of live merozoites and by immunoprecipitation of 125I-surface-labeled merozoite proteins with immune bovine sera and monoclonal antibodies. These proteins were clearly of parasite origin, as evidenced by immunoprecipitation of metabolically labeled [( 35S]methionine) merozoites from cultures with specific antimerozoite monoclonal antibodies. In addition, two other proteins were identified with these methods. An 85-kilodalton protein was considered to be of parasite origin based on fluorescence reactivity with a monoclonal antibody. However, this protein was not detected after immunoprecipitation of metabolically labeled parasites, and thus, the exact nature of its origin is equivocal. A fifth protein of 145 kilodaltons was detected by immunoprecipitation after metabolic labeling but was not directly apparent on the surfaces of live merozoites. Since merozoite surface proteins may be important in the induction of protective immunity, those identified here are candidates for vaccine studies.

Animals↗
PubMed1988

Effect of anergy on in vitro sensitization with keyhole limpet hemocyanin of peripheral blood lymphocytes.

To investigate the cellular mechanisms underlying clinical anergy, studies were done to determine whether the T cells of anergic patients could be sensitized in vitro. Ten normal males and 20 male patients with peripheral vascular disease were skin-tested with seven antigens and their peripheral blood mononuclear leukocytes (PBL) isolated. The mononuclear cells were stimulated in vitro with keyhole limpet hemocyanin (KLH) for 10 days in serum-free medium (primary culture) and then restimulated with KLH for three days (secondary culture). None of the controls or patients had been sensitized previously with this antigen. Of the 30 different cell preparations we tried to sensitize, 21 responded with a stimulation index (S.I.) of 1.5 or greater after being stimulated with KLH in the secondary cultures. There was no correlation between the concentration of KLH in the primary culture, the concentration of KLH in the secondary culture, and the S.I. at the end of the secondary culture. Cell preparations from all subjects were stimulated by PHA in both the primary and secondary cultures. Whether or not a subject's PBL could be sensitized in vitro did not correlate with either the subject's response to the intradermal injection of antigens or whether the subject was a control or a patient.

Adult↗
PubMed1987

Variable selection method improves the prediction of protein secondary structure from circular dichroism spectra.

A new procedure based on the statistical method of "variable selection" is used to predict the secondary structure of proteins from circular dichroism spectra. Variable selection adds the flexibility found in the Provencher and Glöckner method (S. W. Provencher and J. Glöckner, 1981, Biochemistry 20, 33-37) to the method of Hennessey and Johnson (J. P. Hennessey and W. C. Johnson, 1981, Biochemistry 20, 1085-1094). Two analytical methods are presented for choosing a solution from the series generated by the Provencher and Glöckner method, and this improves the technique. All three methods are compared and it is shown that both the variable selection method and the improved Provencher and Glöckner methods have equivalent reliability superior to the original Hennessey and Johnson method. For the new variable selection method, correlation coefficients calculated between X-ray structure and predicted secondary structures for data measured to 178 nm are: 0.97 for alpha-helix, 0.75 for beta-sheet, 0.50 for beta-turn, and 0.89 for other structures. Although the variable selection method improves the analysis of circular dichroism data truncated at 190 nm, data measured to 178 nm gives superior results. It is shown that improving the fit to the measured CD beyond the accuracy of the data can result in poorer analyses.

Circular Dichroism↗
PubMed1987

Vacuum UV circular dichroism is diagnostic for the left-handed Z form of poly [d(A-C).d(G-T)] and other polydeoxynucleotides.

Circular dichroism spectra are extended into the vacuum UV to about 178 nm for four polydeoxynucleotides of various sequences capable of assuming the left-handed Z form. It is found that each of these polymers, including those with brominated bases and those with the four different bases, have a characteristic negative feature at short wavelengths when in the Z form. In contrast, the B form only has a positive band between 180 and 200 nm. Furthermore, a blue shift of the short wavelength crossover is diagnostic of the B- to Z-form transition for all polymers studied so far. These results confirm that poly[d(A-C).d(G-T)] can assume the Z form in solution at low concentration.

Circular Dichroism↗
PubMed1987

The conformation of T4 bacteriophage dihydrofolate reductase from circular dichroism.

The secondary and tertiary structure of T4 bacteriophage dihydrofolate reductase is investigated by vacuum ultraviolet circular dichroism (CD) spectroscopy and probability analysis of the primary amino acid sequence. The far ultraviolet CD spectrum of the enzyme in the range of 260-178 nm is analyzed by the generalized inverse and variable selection methods developed by our laboratory. Variable selection yields an average content of 26% alpha-helix, 21% antiparallel beta-sheet, 10% parallel beta-sheet, 20% beta-turns, and 32% "other" structures within the T4 protein. The characteristic peaks of the CD spectrum indicate that the enzyme has a lot of antiparallel beta-sheet, which is typical of the alpha + beta tertiary class of globular proteins. The secondary structure of the protein is also analyzed by using four statistical methods on the amino acid sequence. Although the secondary structures predicted by each individual statistical method vary to a considerable extent, the fractions of each structure jointly predicted by a majority of the methods are in excellent agreement with our CD analysis. The alternating arrangement for some segments of alpha-helix and beta-sheet predicted from primary structure to be within the enzyme is characteristic of proteins containing parallel beta-sheet. This supports our conclusion that the protein contains both parallel and antiparallel beta-sheet structures, but finding both types of beta-sheet also means that the protein may have the variation on alpha/beta tertiary structure recently found in EcoRI endonuclease and thymidylate synthase. These observations, in conjunction with other physical properties of the T4 reductase, suggest that the enzyme perhaps shares an evolution in common with the dihydrofolate reductases derived from type I R-plasmids rather than with the host-cell protein.

Circular Dichroism↗
PubMed1987

Structural properties of porcine submaxillary gland apomucin.

Porcine submaxillary gland mucin was deglycosylated with a mixture of pure glycosidases to give apomucin containing less than 1% carbohydrate. The resulting apomucin freed of glycosidases was found to contain nine amino acids: threonine, serine, glutamic acid, proline, glycine, alanine, valine, isoleucine, and arginine. Serine, threonine, glycine, and alanine comprise 77% of the composition. The molecular weight of apomucin was 96,500 as determined by gel filtration in guanidine hydrochloride. Its Stokes radius was greater than 68.6 A, a far larger value than expected for a globular protein with Mr = 96,500. Circular dichroism spectroscopy of apomucin suggests that it contains 42% aperiodic or "other" structure, 40% beta-turns, 10% antiparallel pleated sheet, and 8% helical structures. The predicted secondary structure of a 50-residue peptide from ovine submaxillary gland mucin resembles the circular dichroism predictions, being dominated by turns that would lead to an extended nonglobular structure. Analysis for the secondary structure of a 36-residue tryptic peptide derived from porcine submaxillary gland apomucin predicts a similar structure. It is concluded that apomucin is likely devoid of traditional secondary structure and serves as a scaffold upon which oligosaccharides are added in O-glycosidic linkage. When sufficient sialic acid is present in the oligosaccharides, native highly viscous mucin containing about two-thirds carbohydrate by weight is obtained.

Amino Acid Sequence↗
PubMed1987

Structural characterization of the trypsin-resistant core in the nuclear sperm-specific protein from Spisula solidissima.

Trypsin digestion of the protamine-like protein from Spisula solidissima has revealed the existence of an internal resistant core. The peptide contains 75 amino acid residues, and its primary structure shows some conserved sequences that are common to those found in the core of the somatic histone H5 from chicken erythrocytes. The secondary structure of this core exhibits 33% antiparallel beta-sheet, 18% beta-turns, 37% random coil, and only 10% alpha-helix, in contrast to histone H5. Hydrodynamic measurements indicate a compact globular assembly for the tertiary structure of this peptide, when compared to the more extended shape observed for the whole protein. The possible relatedness of this protein to the histone H1 family is discussed.

Amino Acid Sequence↗