ABSTRACT
Streptomyces coelicolor is a gram-positive soil bacterium which is well known for the production of several antibiotics used in various biotechnological applications. But numerous proteins from its genome are considered hypothetical proteins. Therefore, the present study aimed to reveal the functions of a hypothetical protein from the genome of S. coelicolor. Several bioinformatics tools were employed to predict the structure and function of this protein. Sequence similarity was searched through the available bioinformatics databases to find out the homologous protein. The secondary and tertiary structure were predicted and further validated with quality assessment tools. Furthermore, the active site and the interacting proteins were also explored with the utilization of CASTp and STRING server. The hypothetical protein showed the important biological activity having with two functional domain including POD-like_MBL-fold and rhodanese homology domain. The functional annotation exposed that the selected hypothetical protein could show the hydrolase activity. Furthermore, protein-protein interactions of selected hypothetical protein revealed several functional partners those have the significant role for the bacterial survival. At last, the current study depicts that the annotated hypothetical protein is linked with hydrolase activity which might be of great interest to the further research in bacterial genetics.
ABSTRACT
Streptomyces coelicolor is a gram-positive soil bacterium which is well known for the production of several antibiotics used in various biotechnological applications. But numerous proteins from its genome are considered hypothetical proteins. Therefore, the present study aimed to reveal the functions of a hypothetical protein from the genome of S. coelicolor. Several bioinformatics tools were employed to predict the structure and function of this protein. Sequence similarity was searched through the available bioinformatics databases to find out the homologous protein. The secondary and tertiary structure were predicted and further validated with quality assessment tools. Furthermore, the active site and the interacting proteins were also explored with the utilization of CASTp and STRING server. The hypothetical protein showed the important biological activity having with two functional domain including POD-like_MBL-fold and rhodanese homology domain. The functional annotation exposed that the selected hypothetical protein could show the hydrolase activity. Furthermore, protein-protein interactions of selected hypothetical protein revealed several functional partners those have the significant role for the bacterial survival. At last, the current study depicts that the annotated hypothetical protein is linked with hydrolase activity which might be of great interest to the further research in bacterial genetics.
ABSTRACT
Water and sediment samples were collected from 20 location of the Buriganga river of Bangladesh during summer and winter 2009 to determine the spatial distribution, seasonal and temporal variation of different heavy metal contents. Sequential extraction procedure was employed in sediment samples for the geochemical partitioning of the metals. Total trace metal content in water and sediment samples were analyzed and compared with different standard and reference values. Concentration of total chromium, lead, cadmium, zinc, copper, nickel, cobalt and arsenic in water samples were greatly exceeded the toxicity reference values in both season. Concentration of chromium, lead, copper and nickel in sediment samples were mostly higher than that of severe effect level values, at which the sediment is considered heavily polluted. On average 72% chromium, 92% lead, 88% zinc, 73% copper, 63% nickel and 68% of total cobalt were associated with the first three labile sequential extraction phases, which portion is readily bioavailable and might be associated with frequent negative biological effects. Enrichment factor values demonstrated that the lead, cadmium, zinc, chromium and copper in most of the sediment samples were enriched sever to very severely. The pollution load index value for the total area was as high as 21.1 in summer and 24.6 in winter season; while values above one indicates progressive deterioration of the sites and estuarine quality. The extent of heavy metal pollution in the Buriganga river system implies that the condition is much frightening and may severely affect the aquatic ecology of the river
ABSTRACT
A study was conducted to investigate the trace metal pollution of water and sediments of downstream of Tsurumi River, Yokohama, Japan. Twenty samples of water and sediments were collected from the river starting from Tokyo bay side up to the junction point of the Yagami River, Results show that the mean concentrations of chromium, copper and nickel in water greatly exceed [>100 times] the surface water standard, The concentration of molybdenum and lead was also higher than standard values while iron and manganese was lower than that of surface water standard. The mean concentration of zinc, cupper, cadmium, lead, chromium, vanadium, bromine and iodine was 381,1, 133,0, 1.0,40.8, 102.9, 162.0, 71.5 and 10.6 microg/g sediments, respectively and was greatly exceed the average worldwide shale concentrations and average Japanese river sediment values. However, mean concentration of arsenic, nickel and strontium was 11.0, 36,6 and 164.6 microg/g sediments, respectively which was lower than the average shale value. Other analyzed trace metals, including barium, zirconium, rubidium, yttrium, tin, antimony, cesium, lanthanum, cerium, praseodymium and neodymium were detected in river sediments; the concentration of which was close to the Japan's river sediment average values. Pollution load index values of the sites of the studied area ranged from 1.24 to 7.65 which testify that the river sediments are polluted. The PLI value of the area was, however, high [6.53] as the concentration of trace metals like zinc, copper, cadmium, lead and chromium were very high and were the major pollutants
Subject(s)
Rivers , Water Pollutants, Chemical , Trace Elements , Geologic SedimentsABSTRACT
Grid radiation therapy, using the megavoltage X-ray beam, has been proven to be an effective method for management of large and bulky malignant tumors. This treatment modality is also known as Specially Fractionated Radiation Therapy [SFRT]. In this treatment technique a grid block converted the open radiation field into a series of pencil beams. Dosimetric characteristics of an external beam grid radiation field have been investigated using experimental and Monte Carlo simulation technique. Dose distributions [%DD as well as the beam profiles] of a grid radiation field have been determined using experimental and Monte Carlo simulation technique, for 6- and 18 MV X-ray beams from a Varian Clinics 2100C/D. The measurements were performed using LiF TLD and film in Solid Water phantom Material. Moreover, the MCNP Monte Carlo code was utilized to calculate the dose distribution in the grid radiation field in the same phantom material. The results of the experimental data were compared to the theoretical values, to validate this technique. Upon the agreement between the two techniques, dose distributions can be calculated for the grid field with different patterns and sizes of holes, in order to find an optimal design of the grid block. The results of dose profiles for 6 MV X-ray beams obtained with the Monte Carlo simulation technique was in good agreement with the measured data. In addition, the 3D dose distribution of the grid field generated by the Monte Carlo simulation gave more detailed information about the dose pattern of the grid. The grid block can be used as a boost for treatment of bulky tumors. The Monte Carlo simulation technique can be utilized to optimize the pattern, size and spacing between the holes, for optimal clinical results