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Biomedical subjects

W Traub

Publications and source records attributed to W Traub.

At least 37 records · Page 2Linked to original sources

Adenine-guanine base pairing ribosomal RNA.

Analyses of secondary structures proposed for ribosomal RNA's show that, of the different kinds of base pairs directly adjoining the ends of postulated double-helical regions, only A-G with A at the 5' end significantly exceeds the number expected for a random base distribution. An A(syn)-G(trans) hydrogen-bonded basepair is proposed. This could fit at the end of an undistorted double helix, but would prevent further base stacking, thus favoring a break in the double helix to produce a non-linear tertiary structure.

Adenine↗

The limiting collagen microfibril. The minimum structure demonstrating native axial periodicity.

Collagen fibers were grown from solutions of acid-soluble or neutral salt-soluble collagen in 0.5 M acetic acid by rapid dialysis. The collagen was obtained under conditions where protease inhibitors were present at every stage of extraction and purification. Under the conditions used, length-wise but not lateral filament growth proceeded rapidly and gel-like networks were formed, Water readily exuded from the networks. The networks were stretched to fibrous form during drying. Small-angle X-ray diffraction showed the stretched fibrils to be highly ordered, showing up to 20 orders of the 670 A meridional periodicity. Intermediate- and wide-angle photographs show equatorial reflections at a spacing corresponding to approximately 12.5 A which is related to the intermolecular distance but none related to a microfibrillar packing at the 35-40 A level. Electron microscopy of the gel networks before stretching shows the presence of thin filaments with diameters predominantly in the 35-40 A range. No cross-striated fibrils are seen in electron micrographs of either stretched fibers or unstretched fibers. Thus, intermolecular packing in accord with the 670 A axial periodicity can take place within approximately 40 A diameter thin filaments. These correspond to the structures previously postulated to be collagen 'microfibrils'.

Animals↗

Structural analysis of denaturant-protein interactions: comparison between the effects of bromoethanol and SDS on denaturation and renaturation of triclinic lysozyme.

This paper summarizes our crystallographic studies of the interaction of denaturants with cross-linked triclinic lysozyme. Electron density maps of various bromoethanol-lysozyme complexes are analyzed and compared to those reported earlier for SDS-lysozyme complexes. Despite differences in the chemical nature and size of the two denaturants their mode of interaction with the protein is quite similar, suggesting the existence of a general mechanism for binding of hydrophobic-hydrophilic denaturants to proteins. Our results are consistent with the conclusion that lysozyme consists of two domains connected by a flexible segment and that this segment represents an internal degree of freedom of the protein.

Ethanol↗

Crystallographic studies of protein denaturation and renaturation. 1. Effects of denaturants on volume and X-ray pattern of cross-linked triclinic lysozyme crystals.

Triclinic crystals of hen egg-white lysozyme cross-linked with glutaraldehyde have been treated with various denaturants and found to be susceptible to x-ray structure analysis even after major conformational changes in the protein. Cross-linked crystals were isomorphous with the native form, and electron density difference maps indicated the locations of intermolecular corss-links, but showed no appreciable differences in the protein conformation. Soaking of the cross-linked crystals in danaturant solutions of increasing concentrations caused corresponding increases in crystal volume and decreases in minimum observable x-ray spacings. These changes proved partly reversible on diluting the solutions, and measurements of crystal volume and minimums x-ray spacing were used to follow denaturation and renaturation as a function of concentration for several denaturants. Some of these, including bromoethanol and sodium dodecyl sulfate, had little effect on the crystals below critical concentrations at which there was a sharp volume increase and loss of x-ray pattern, which could, however, be regenerated to about 3.2-A resolution. Others, including KCNS and urea, caused more gradual changes, but with a smaller degree of recovery. It is suggested that at least two different denaturation mechanisms are involved with detergent-like reagents disrupting the hydrophobic interactions joining the two wings of the lysozyme molecule and hydrophilic denaturants interacting primarily with polar groups on the molecular surface.

Amino Acids↗

Crystallographic studies of protein denaturation and renaturation. 2. Sodium dodecyl sulfate induced structural changes in triclinic lysozyme.

Cross-linked triclinic lysozyme was denatured with sodium dodecyl sulfate. Removal of the denaturant resulted in a refolding of the protein to a conformation similar to but not identical with the native one. Three-dimensional x-ray diffraction data out to 3.2-A resolution were collected for two states in the refolding pathway, and appropriately weighted electron density difference maps were constructed. An analysis of these maps reveals that a sodium dodecyl sulfate molecule is trapped in the interior of the protein, and results in a separation of regions of the polypeptide chain. Our results are discussed in terms of current models for protein folding.

Binding Sites↗