Identification of non-catalytic conserved regions in xylanases encoded by the xynB and xynD genes of the cellulolytic rumen anaerobe Ruminococcus flavefaciens

xynB is one of at least four genes from the cellulolytic rumen anaerobe Ruminococcus flavefaciens 17 that encode xylanase activity. The xynB gene is predicted to encode a 781-amino acid product starting with a signal peptide, followed by an amino-terminal xylanase domain which is identical at 89% and 78% of residues, respectively, to the amino-terminal xylanase domains of the bifunctional XynD and XynA enzymes from the same organism. Two separate regions within the carboxy-terminal 537 amino acids of XynB also show close similarities with domain B of XynD. These regions show no significant homology with cellulose- or xylan-binding domains from other species, or with any other sequences, and their functions are unknown. In addition a 30 to 32-residue threonine-rich region is present in both XynD and XynB. Codon usage shows a consistent pattern of bias in the three xylanase genes from R. flavefaciens that have been sequenced.     

Nuclear size and DNA content of the embryo and endosperm during their initial stages of development in Glycine max (Fabaceae)

A technique was developed for isolating embryo sacs from ovules of soybean and for separating embryo from endosperm. Image analysis and cytophotometry were used to determine the relative mass of DNA and size of nuclei of endosperm and embryo cells. Analyses were done at the globular through late heart-shaped embryo stages to correlate ploidy level or nuclear size, and differentiation in these tissues. Mean size of embryo nuclei was fairly constant through all stages studied. Ploidy condition of the embryo was stable, 95%–99% of the nuclei were distributed in a bipolar pattern by relative mass at 2C and 4C. Few embryo nuclei (3%) had ploidy levels above 4C at the late heart-shaped embryo stage. Variability in size of endosperm nuclei seemed correlated with the morphological state of these nuclei (free-nuclear vs. cellular). Most endosperm cells did not show significant polyploidy with 84%–92% of nuclei in the expected 3C–6C range, but some nuclei with elevated ploidy levels were noted during endosperm cellularization. Endosperm senescence was correlated with nuclear DNA loss over time. Polyploidy seems to have no direct role in the early differentiation of the soybean embryo and endosperm, but these stable conditions may be necessary for the early establishment of the embryo.     

Stereochemistry of residues in turning regions of helical proteins

JBIC Journal of Biological Inorganic Chemistry - We have developed a geometrical approach to quantify differences in the stereochemistry of α-helical and turning regions in four iron proteins....