The geometries of interacting arginine-carboxyls in proteins

The geometries are reported for interacting arginine-carboxyl pairs obtained from 37 high resolution protein structures solved to a resolution of 2.0 A or better. The closest interatomic distance between the guanidinium and carboxyl is less than 4.2 A for 74 arginine and carboxyl groups, with the majority of these lying within hydrogen-bonding distance (2.6-3.0 A). Interacting pairs have been transformed into a common orientation, and arginine-carboxyl, and carboxyl-arginine geometries have been calculated. This has been defined in terms of the spherical polar angles T theta, T phi, and the angle P, between the guanidinium and carboxyl planes. Results show a clear preference for the guanidinium and carboxyl groups to be approximately coplanar, and for the carboxyl oxygens to hydrogen bond with the guanidinium nitrogens. Single nitrogen-single oxygen is the most common type of interaction, however twin nitrogen-twin oxygen interactions also occur frequently. The majority of these occur between the carboxyl oxygens and the NH1 and NE atoms of the arginine, and are only rarely observed for NH1 and NH2. The information presented may be of use in the modelling of arginine-carboxyl interactions within proteins.     

Binding of linker histones to the core nucleosome

Binding of chicken erythrocyte linker histones H1/H5 to the core nucleosome has been studied. Histones H1/H5 bind very efficiently to the isolated core nucleosome in vitro. The binding of linker histones to the core nucleosome is associated with aggregation of the particles. Approximately one molecule of linker histone binds per core nucleosome in the aggregates, irrespective of the concentration of the linker histones and the salt used. Histone H5 shows greater binding affinity to the core nucleosome as compared to H1. The carboxyl-terminal fragment of the linker histones binds strongly to the core nucleosome while the binding of the central globular domain is weak. Each core nucleosome is capable of binding two molecules of carboxyl-terminal fragment of linker histone. The core nucleosome containing one molecule of carboxyl-terminal fragment of linker histone requires higher salt concentration for aggregation while the core nucleosome containing two molecules of carboxyl-terminal fragment of linker histone can self-associate even at lower salt concentrations. On the basis of these results we are proposing a novel mechanism for the condensation of chromatin by linker histones and other related phenomena.     

Y-chromosome length heteromorphisms in Delhi infants

One hundred and seventy normal male infants from Delhi were studied using the CBG technique to estimate Y-chromosome length heteromorphisms. The median class in Y/F [Y/F = total length of the Y chromosome/average total length of the F group chromosomes (19 and 20)] distribution was 0.75-0.79. The Y/F index in infants varied from 0.60 to 1.16 with a mean of 0.81 and a standard deviation of 0.09. A high incidence for very small (53.5 percent) and small (41.2 percent) categories of Y-chromosome length heteromorphisms was observed. Data were compared with other available reports; also possible mechanisms of the Y-chromosome length heteromorphisms and their role in ethnic/racial variation as well as in developmental disturbances are discussed. It is suggested there may be a need to redefine the long and short Y chromosome in a given population while studying different clinical disorders.     

Histology of the normal and retained equine testis

Abdominal, inguinal and scrotal testes of horses were examined grossly and by light microscopy. An average of 1.5, 2.3 and 4.6 layers of spermatogenic cells, and mean seminiferous tubule diameters of approximately 66.2, 83.6 and 146.6 micron in the abdominal, inguinal and scrotal testes, respectively, were recorded. The interstitial spaces and the number of interstitial cells (of Leydig) seemed to be increased while spermatogenesis appeared to be arrested in the retained testes. Early spermatocytes were the most mature stages of the spermatogenic cells in the retained testes. An extensive vacuolation of spermatogenic cells was evident in these testes. The changes may result due to a high temperature of the abdominal environment in concert with the altered production of androgens.     

Purification and spectroscopic properties of 124-kDa oat phytochrome

A simplified procedure for the isolation and purification of 124-kDa phytochrome from etiolated Avena seedlings has been developed using the method of ammonium sulfate back-extraction. After hydroxyapatite chromatography of seedling tissue extracts, the pooled phytochrome was subjected to ammonium sulfate back-extraction instead of the usual application to an Affi-Gel Blue column. The resulting phytochrome had specific absorbance ratios (SAR = A666/A280) ranging from 0.85 to 0.95. Subsequent Bio-Gel filtration chromatography yielded highly pure 124-kDa phytochrome with SAR values ranging from 0.99 to 1.13. The absorption maxima of 124-kDa phytochrome were at 280, 379, and 666 nm for the red absorbing form of phytochrome (Pr) and at 280, 400 and 730 nm for the far-red absorbing form (Pfr). The A730/A673 ratio in Pfr was found to be 1.5 to 1.6. The mole fraction of Pfr under red light photoequilibrium was 0.88. No dark reversion was detected within 5 h at 3 degrees C. A photoreversible far-uv-circular dichroism was observable with all phytochrome preparations examined. Fluorescence and phosphorescence lifetimes were measured to further characterize the differences between the phytochromes prepared under different conditions. The Trp fluorescence and phosphorescence lifetimes of Pr and Pfr with the chromophore "X", probably polyphenolic in nature, were significantly shorter than those of phytochrome without the contaminant X. The short lifetime of the fluorescence of the Pr chromophore is attributable to X in the former.     

Inheritance and expression of tissue-specific catalase activity during development and aging in mice

The catalase activity in the liver, kidney, lung, and blood hemolysate was measured in newborn, 21-, 70-, 175-, and greater than 400-day-old mice from the strains BALB/c, Csb, C3H/HeSnJ, C3H/S, C57BL/6J, SW, and 129/ReJ. Catalase activity was found to be highest in the liver (approximately 0.33 U/mg protein) followed by the kidney (approximately 0.13 U/mg protein), lung (approximately 0.05 U/mg protein), and blood hemolysate (approximately 0.03 U/mg protein). ANOVA analysis indicated significant differences in enzyme activity among strains and age groups studied. The developmental profiles of enzyme activity were tissue and strain specific. Catalase activity in the blood, for example, was generally higher at birth and at old age, whereas the kidney catalase activity was low at birth and increased substantially with age. Strains could be classified as normal (129/ReJ, BALB/c, C3H/HeSnJ, C3H/S), hypocatalasemic (C57BL/6J, SW), and acatalasemic (Csb) with respect to enzyme activity and it was on this basis that the inheritance of the catalase phenotype was studied using appropriate crosses. The enzyme activity level in each tissue appears to be governed by a unique set of genetic regulators/modifiers that interact with a single structural gene (Cs) or its product to produce the catalase phenotype. Some of these (e.g., Ce-1 and Ce-2) have been previously described but based on the results of various crosses reported here, more must exist that remain still uncharacterized at the molecular level. Models proposed for the inheritance of the catalase phenotype vary in complexity from single allelic differences between strains (e.g., BALB/c x Csb; blood) to a system of multiple interacting genetic determinants (e.g., BALB/c x Csb; liver) each having dominant (e.g., C57BL/6J over BALB/c; liver) and recessive components (e.g., gene(s) conferring the acatalasemic phenotype in BALB/c x Csb; blood and kidney). Such results are important and offer an interesting model to further characterize aspects of eukaryotic gene regulation.     

Cytolytic activity and immunological similarity of the Bacillus thuringiensis subsp. israelensis and Bacillus thuringiensis subsp. morrisoni isolate PG-14 toxins.

The parasporal bodies of the mosquitocidal isolates of Bacillus thuringiensis subsp. israelensis and B. thuringiensis subsp. morrisoni isolate PG-14 were compared with regard to their hemolytic and cytolytic activities and the immunological relatedness of the 28- and 65-kilodalton (kDa) proteins that occur in both subspecies. The alkali-solubilized parasporal bodies of B. thuringiensis subsp. israelensis caused 50% lysis of human erythrocytes at 1.14 micrograms/ml, whereas those of B. thuringiensis subsp. morrisoni caused similar lysis at 1.84 micrograms/ml. Preincubation of solubilized parasporal bodies with dioleolyl phosphatidylcholine significantly inhibited the hemolytic activity of both supspecies. In cytolytic assays against Aedes albopictus cells, the toxin concentrations causing 50% lysis for B. thuringiensis subsp. israelensis and B. thuringiensis subsp. morrisoni were 1.87 and 11.98 micrograms/ml, respectively. Polyclonal antibodies raised separately against the 25-kDa protein (a tryptic digest of the 28-kDa protein) or the 65-kDa protein of B. thuringiensis subsp. israelensis cross-reacted, respectively, with the 28- and the 65-kDa proteins of B. thuringiensis subsp. morrisoni. However, neither of these antibodies cross-reacted with the 135-kDa protein of either subspecies. These results indicate that the mosquitocidal and hemolytic properties of B. thuringiensis subsp. israelensis and B. thuringiensis subsp. morrisoni isolate PG-14 are probably due to the biologically related proteins that are present in the parasporal bodies of both subspecies. The lower hemolytic activity of the B. thuringiensis subsp. morrisoni may be due to the presence of lower levels of the 28-kDa protein in that subspecies.(ABSTRACT TRUNCATED AT 250 WORDS)     

NMR studies of cytochrome P-450scc. Effects of steroid binding on water proton access to the active site of the ferric enzyme

Water proton relaxation rates of various complexes of cholesterol side chain cleavage cytochrome P-450 (-450scc) were investigated to gain information about the structure and dynamics of the steroid binding site. In all cases bulk water protons were found to be in rapid exchange with protons near the paramagnetic Fe3+ center, and the long electron spin relaxation time of the heme iron, tau s approximately 0.3 ns, resulted in fast relaxation rates. For the steroid-free enzyme, the closest approach of exchangeable protons is approximately 2.5 A, a distance consistent with a water molecule binding directly to the heme iron or rapidly exchanging with a coordinated ligand. When cholesterol was bound, the distance increased to approximately 4 A, indicative of displacement of water from the immediate coordination sphere of the heme but still in close proximity to the active site. For the complex with (22R)-22-hydroxycholesterol, a distance of approximately 2.7 A is observed, suggesting a reorganization of the active site when this intermediate is formed from cholesterol. Complexes of P-450scc with the competitive inhibitors (22R)-22-aminocholesterol, 22-amino-23,24-bisnor-5-cholen-3 beta-ol, or (20R)-20-phenyl-5-pregnene-3 beta,20-diol, also yielded distances of approximately 2.5 A and reveal no effect of side chain size on access of protons to the heme. In the nitrogen-coordinated amino-steroid complexes, the distances observed indicate solvent proton exchange with the heme-bound nitrogen ligand.(ABSTRACT TRUNCATED AT 250 WORDS)     

Forest vegetation of the Himalaya

This review deals with the forest vegetation of the Himalaya with emphasis on: paleoecological, phytogeographical, and phytosociological aspects of vegetation; structural and functional features of forest ecosystem; and relationship between man and forests. The Himalayan mountains are the youngest, and among the most unstable. The rainfall pattern is determined by the summer monsoon which deposits a considerable amount of rain (often above 2500 mm annually) on the outer ranges. The amount of annual rainfall decreases from east to west, but the contribution of the winter season to the total precipitation increases. Mountains of these dimensions separate the monsoon climate of south Asia from the cold and dry climate of central Asia. In general, a rise of 270 m in elevation corresponds to a fall of 1°C in the mean annual temperature up to 1500 m, above which the fall is relatively rapid. Large scale surface removals and cyclic climatic changes influenced the course of vegetational changes through geological time. The Himalayan ranges, which started developing in the beginning of the Cenozoic, earlier supported tropical wet evergreen forests throughout the entire area (presently confined to the eastern part). The Miocene orogeny caused drastic changes in the vegetation, so much so that the existing flora was almost entirely replaced by the modern flora. Almost all the dominant forest species of the Pleistocene continue to maintain their dominant status to the present. Presently the Himalayan ranges encompass Austro-Polynesian, Malayo-Burman, Sino-Tibetan, Euro-Mediterranean, and African elements. While the Euro-Mediterranean affinities are well represented in the western Himalayan region (west of 77°E long.), the Chinese and Malesian affinities are evident in the eastern region (east of 84°E long.). However, the proportion of endemic taxa is substantial in the entire region. A representation of formation types in relation to climatic factors, viz., rainfall and temperature, indicates that boundaries between the types are not sharp. Formation types often integrate continuously, showing broad overlaps. Climate does not entirely determine the formation type, and the influence of soil, fire, etc., is also substantial. The ombrophilous broad leaf forests located in the submontane belt (< 1000 m) of the eastern region are comparable to the typical tropical rain forests. On the other extreme, communities above 3000 m elevation are similar to sub-alpine and alpine types. From favorable to less favorable environments, as observed with decreasing moisture from east to west, or with decreasing temperature from low to high elevations, the forests become increasingly open, shortstatured and simpler, with little vertical stratification. Ordination of forest stands distributed within 300–2500 m elevations of the central Himalaya, by and large indicates a continuity of communities, with scattered centers of species importance values in the ordination field. Within the above elevational transect, sal (Shorea robusta) and oak (Quercus spp.) forests may be designated as the climax communities, respectively, of warmer and cooler climates. The flora of a part of the central Himalayan region is categorized as therohemigeophytic and that of a part of the western Himalayan region as geochamaephytic. An analysis of population structure over large areas in the central Himalaya, based on density-diameter distribution of trees, suggests that oldgrowth forests are being replaced by even-aged successional forests, dominated by a few species, such asPinus roxburghii. Paucity of seedlings of climax species, namelyShorea robusta andQuercus spp. over large areas is evident. The Himalayan catchments are subsurface-flow systems and, therefore, are particularly susceptible to landslips and landslides. Loss of water and soil in terms of overflow is insignificant. Studies on recovery processes of forest ecosystems damaged due to shifting cultivation or landslides indicate that the ecosystems can recover quite rapidly, at least in elevations below 2500 m. For example, on a damaged forest site, seedlings of climax species (Quercus leucotrichophora) appeared only 21 years after the landslide. In the central Himalaya, the biomass of a majority of forests (163-787 t ha^?1) falls within the range (200-600 t ha^?1) given for many mature forests of the world, and the net primary productivity (found in the range of 11.0–27.4 t ha^?1 yr^?1) is comparable with the range of 20–30 t ha^?1 yr^?1 given for highly productive communities of favorable environments. In most of the forests of this region, the litter fall values (2.1-3.8 t C ha^?1 yr^?1) are higher than the mean reported for warm temperate forests (2.7 t C ha^?1 yr^?1). Of the total litter, the tree leaves account for 54–82% in the Himalayan forests. The rate of decomposition of leaves in some broadleaf species of submontane belt (0.253-0.274% day^?1) are comparable with those reported for some tropical rain forest species. Because of the paucity of microorganisms and microarthropods in the forest litter and soil, high initial C:N ratio and high initial lignin content in leaves, the rate of leaf litter decomposition inPinus roxburghii is markedly slower than in other species of the central Himalaya. The fungal species composition of the leaf litterof Pinus roxburghii is also distinct from those of other species. A greater proportion of nutrients is accumulated in the biomass component of the Himalayan forests than in the temperate forests. Although litter fall is the major route through which nutrients return from biomass to the soil pool, a substantial proportion of the total return is in the form of throughfall and stemflow. Among the dominant species of the central Himalaya, retranslocation of nutrients from the senescing leaves was markedly greater inPinus roxburghii than inQuercus spp. andShorea robusta. Consequently, the C:N ratio of leaf litter is markedly higher inPinus roxburghii than in the other species. Immobilization of nutrients by the decomposers of the litter with high C:N ratio is one of the principal strategies through whichPinus roxburghii invades other forests and holds the site against possible reinvasion by oaks. Observations on the seasonality of various ecosystem functions suggest that Himalayan ecosystems are geared to take maximum advantages of the monsoon period (rainy season). Most of the human population depends on shifting-agriculture in the eastern region and on settled agriculture in the central and western regions. Either of these is essentially a forest-dependent cultivation. Each unit of agronomic energy produced in the settled agriculture entails about seven units of energy from forests. Consequently, forests with reasonable crown cover account for insignificant percentage of the land. Tea plantations and felling of trees for timber, paper pulp, etc., are some of the major commercial activities which adversely affected the Himalayan forests.