Marine bacteria especially Bacillus species are used in pharmaceutical industries, Food and detergents producing industries, also it is very important in making enzyme medicines to cure various diseases. Seaweeds associated bacteria can produce a valuable biocontrol agent against kinds of pathogenic organisms. In this present investigation was conducted for production and characterization of metalloenzyme from epiphytic bacteria of seaweeds. All the samples were collected in Thirumullavaram coastal area of Kollam, Kerala state of India. Bacillus spp. was isolated by standard laboratory techniques. Identification of Bacillus spp. was characterized by phenotypic and biochemically. BL-3 was to made higher production of metalloenzyme. Protein estimation on SDS PAGE and observed at 25kDa. Specific activity of metalloenzyme was observed at 0.125 U/mg by spectrophotometer. This enzyme can inhibit the clinical pathogen. Hence this metalloenzyme could be a biocontrol agent in pharmaceutical industries and used for making enzyme medicines.