Determination of iduronic acid and glucuronic acid in sulfated chondroitin/dermatan hybrid chains by <Superscript>1</Superscript>H-nuclear magnetic resonance spectroscopy

The relative proportion of L-iduronic acid (IdoA) and D-glucuronic acid (GlcA) is of great importance for the structure–function relationship of chondroitin sulfate (CS)/dermatan sulfate (DS). However, determination of the isotypes of uronic acid residues in CS/DS is still a challenge, due to the instability of free uronic acid released by chemical degradation and its conversion to unsaturated uronic acid by digestion with bacterial eliminase. ¹H-Nuclear magnetic resonance (NMR) spectroscopy is a promising tool with which to address this issue, but the traditional method based on the assignment of the ring proton signals of IdoA and GlcA residues still has drawbacks such as the serious overlap of signals in the ¹H-NMR spectrum of CS/DS polysaccharides. We found that the proton signals of the N-acetyl group of N-acetyl-D-galactosamines in CS and DS could be clearly distinguished and accurately integrated in the one-dimensional (1D) ¹H-NMR spectrum. Based on this finding, here we report a novel, sensitive, and nondestructive 1D ¹H-NMR-based method to determine the proportion of IdoA and GlcA residues in CS/DS hybrid chains. The contributions of Fuchuan Li and Shuhei Yamada should be considered equal.     

Sequence evidence in the archaeal genomes that tRNAs emerged through the combination of ancestral genes as 5' and 3' tRNA halves

The discovery of separate 5' and 3' halves of transfer RNA (tRNA) molecules-so-called split tRNA-in the archaeal parasite Nanoarchaeum equitans made us wonder whether ancestral tRNA was encoded on 1 or 2 genes. We performed a comprehensive phylogenetic analysis of tRNAs in 45 archaeal species to explore the relationship between the three types of tRNAs (nonintronic, intronic and split). We classified 1953 mature tRNA sequences into 22 clusters. All split tRNAs have shown phylogenetic relationships with other tRNAs possessing the same anticodon. We also mimicked split tRNA by artificially separating the tRNA sequences of 7 primitive archaeal species at the anticodon and analyzed the sequence similarity and diversity of the 5' and 3' tRNA halves. Network analysis revealed specific characteristics of and topological differences between the 5' and 3' tRNA halves: the 5' half sequences were categorized into 6 distinct groups with a sequence similarity of >80%, while the 3' half sequences were categorized into 9 groups with a higher sequence similarity of >88%, suggesting different evolutionary backgrounds of the 2 halves. Furthermore, the combinations of 5' and 3' halves corresponded with the variation of amino acids in the codon table. We found not only universally conserved combinations of 5'-3' tRNA halves in tRNA(iMet), tRNA(Thr), tRNA(Ile), tRNA(Gly), tRNA(Gln), tRNA(Glu), tRNA(Asp), tRNA(Lys), tRNA(Arg) and tRNA(Leu) but also phylum-specific combinations in tRNA(Pro), tRNA(Ala), and tRNA(Trp). Our results support the idea that tRNA emerged through the combination of separate genes and explain the sequence diversity that arose during archaeal tRNA evolution.     

Structure-antibacterial activity relationship for 9-O,9'-O-demethyl (+)-virgatusin

The relationship between the antibacterial activity and structure of 9-O,9'-O-demethyl (+)-virgatusin (Virg 3) was examined. The conversion of hydroxy groups on the 9 and 9' positions to amino groups increased the activity. It was found that the 3'-methoxy group was more important for higher activity than the 4'-methoxy group on the 7'-phenyl group, and that the 3,4-methylenedioxy group on the 7-phenyl group was necessary for activity.     

The Amount of Metabolizable Glycine

Two roosters of Single Comb White Leghorn breed were fed on a formula feed containing 2-¹⁴C glycine for 16~17 days. The animals were killed and the specific activities of glycine in the tissue proteins and the purine ring of the excreted uric acid were measured. The amount of synthesized glycine in the rooster was calculated by the dilution method based on the specific activities of glycine in the liver protein and the absorbed one. The rooster absorbed about 1 g of glycine and synthesized about 10 g of glycine per day. Quantitative aspect of glycine metabolism in the rooster was discussed.     

Further Evidence for Inactivation of Fructose-1,6-bisphosphatase at the Beginning of SO2 Fumigation. Increase in Fructose-1,6-bisphosphate and Decrease in Fructose-6-phosphate in SO2-Fumigated Spinach Leaves

The substrate level of the photosynthetic reductive pentosephosphate cycle in spinach leaves during SO₂ fumigation wassurveyed. At the beginning of SO₂ fumigation, fructose-1,6-bisphosphateincreased and fructose-6-phosphate decreased, while ribulose-1,5-bisphosphateremained unchanged and 3-phosphoglyceric acid rapidly decreased.These results suggested that the inhibition of photosynthesisin spinach leaves with SO₂ might be due to inactivation of fructose-1,6-bisphosphatase. (Received May 26, 1982; Accepted September 27, 1982)     

Protein Metabolism in the Domestic Fowl

The metabolic half lives of glycine in the tissue-proteins of the rooster were determined by single oral dose of 2-C¹⁴ glycine before measuring the amount of synthesized glycine in the rooster by ?constant pool? method. The specific activity of glycine originated from the purine ring of uric acid showed the highest value for 5 hrs. after administration, following rapid decrease until 7 days, thereafter slower one.

Although the specific activity of glycine in the tissue protein (serum and liver) decreased exponentially, its trend was not distinct in the pectoral muscle, and in the early period its decrease seemed to be considerably fast (t_1/2 about 6 days).

The specific activities of glycine in the serum protein were always higher than those in the liver protein. The metabolic half livers obtained were as follows. Liver: Faster 2 days, slower 11 days. Serum: faster 2 days, slower 11 days. Pectoral muscle: faster 6 days, slower 30 days. Recovery of C¹⁴ into 4-C and 5-C in the purine ring of excreted uric acid during 24 hours after the administration of isotope was about 24%.     

Studies on cephalopod rhodopsin. Conformational changes in chromophore and protein during the photoregeneration process

The ultraviolet absorbance of squid and octopus rhodopsin changes reversibly at 234 nm and near 280 nm in the interconversion of rhodopsin and metarhodopsin. The absorbance change near 280 nm is ascribed to both protein and chromophore parts. Rhodopsin is photoregenerated from metarhodopsin via an intermediate, P380, on irradiation with yellow light (λ > 520 nm). The ultraviolet absorbance decreases in the change from rhodopsin to metarhodopsin and recovers in two steps; mostly in the process from metarhodopsin to P380 and to a lesser extent in the process from P380 to rhodopsin. P380 has a circular dichroism (CD) band at 380 nm and its magnitude is the same order as that of rhodopsin. Thus it is considered that the molecular structure of P380 is close to that of rhodopsin and that the chromophore is fixed to opsin as in rhodopsin. In the change from metarhodopsin to P380, the chromophore is isomerized from the all-trans to the 11-cis form, and the conformation of opsin changes to fit 11-cis retinal. In the change from P380 to rhodopsin, a small change in the conformation of the protein part and the protonation of the Schiff base, the primary retinal-opsin link, occur.