The Streptomyces phage BT1 encodes a site-specific integrase of the large serine recombinase subfamily. In this report, the enzymatic activity of the BT1 integrase was characterized in vitro. We showed that this integrase has efficient integration activity with substrate DNAs containing attB and attP sites, independent of DNA supercoiling or cofactors. Both intra-and intermolecular recombinations proceed with rapid kinetics. The recombination is highly specific, and no reactions are observed between pairs of sites including attB and attL, attB and attR, attP and attL, or attP and attR or between two identical att sequences; however, a low but significant frequency of excision recombination between attL and attR is observed in the presence of the BT1 integrase alone. In addition, for efficient integration, the minimal sizes of attB and attP are 36 bp and 48 bp, respectively. This site-specific recombination system is efficient and simple to use; thus, it could have applications for the manipulation of DNA in vitro.Site-specific recombinases have been widely used in genetic engineering: for example, in vitro cloning, plant and mammalian cell genome modification, and gene therapy (3,11,12,15,16). Nearly all site-specific recombinases can be classified as tyrosine recombinases, also known as the integrase family, or serine recombinases, also known as the resolvase/invertase family, based on comparisons of amino acid sequences and different mechanisms of catalysis; these two types use tyrosine or serine, respectively, to attack the DNA sugar-phosphate backbone (14,18,20). The process of strand exchange catalyzed by tyrosine recombinases involves a Holliday junction intermediate and cleavage and rejoining of the strands one by one. In contrast, serine-mediated recombination involves a process of double-strand breakage, followed by rotation and religation (9). The well-known tyrosine recombinase integrase recognizes two different attachment substrate sites, the 25-bp attB gene (in the bacterial chromosome) and the 240-bp attP gene (in the phage genome), which are inverted into attL and attR with the aid of the integration host factor (a chaperone). Furthermore, excision between attL and attR requires recombination directionality factor (RDF), and recombinations mediated by tyrosine recombinases require supercoiling of the substrate DNAs (10). In contrast, the extensively studied large serine recombinase from Streptomyces phage C31 is thought to catalyze unidirectional recombination between DNA substrates attB and attP, independent of DNA supercoiling and host cofactors (18). In addition, the attachment sites of the C31 integrase are smaller than those of most tyrosine recombinases, with minimal sizes of 34 bp for attB and 39 bp for attP (11,18).Streptomyces phage BT1, a homoimmune relative of C31, is inserted into the chromosomes of a wide range of Streptomyces spp. for lysogeny and encodes a large serine recombinase (5, 8). Similar to those of the C31 site-specific recombination system, the attB and attP sites of BT1 ...