RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddA 21,609 sequences; 6,263,737 total letters Searching..................................................done Query= gi|255764492|ref|YP_003065069.2| hypothetical protein CLIBASIA_02715 [Candidatus Liberibacter asiaticus str. psy62] (56 letters) >gnl|CDD|72942 cd04657, Piwi_ago-like, Piwi_ago-like: PIWI domain, Argonaute-like subfamily. Argonaute is the central component of the RNA-induced silencing complex (RISC) and related complexes. The PIWI domain is the C-terminal portion of Argonaute and consists of two subdomains, one of which provides the 5' anchoring of the guide RNA and the other, the catalytic site for slicing.. Length = 426 Score = 25.6 bits (56), Expect = 2.8 Identities = 7/25 (28%), Positives = 13/25 (52%) Query: 23 NSISSRRQNIPPSSVISDLVVHPHE 47 + + N+PP +V+ + HP E Sbjct: 330 DDADGKNGNVPPGTVVDRGITHPRE 354 >gnl|CDD|145366 pfam02171, Piwi, Piwi domain. This domain is found in the protein Piwi and its relatives. The function of this domain is the dsRNA guided hydrolysis of ssRNA. Determination of the crystal structure of Argonaute reveals that PIWI is an RNase H domain, and identifies Argonaute as Slicer, the enzyme that cleaves mRNA in the RNAi RISC complex. In addition, Mg+2 dependence and production of 3'-OH and 5' phosphate products are shared characteristics of RNaseH and RISC. The PIWI domain core has a tertiary structure belonging to the RNase H family of enzymes. RNase H fold proteins all have a five-stranded mixed beta-sheet surrounded by helices. By analogy to RNase H enzymes which cleave single-stranded RNA guided by the DNA strand in an RNA/DNA hybrid, the PIWI domain can be inferred to cleave single-stranded RNA, for example mRNA, guided by double stranded siRNA. Length = 296 Score = 25.0 bits (55), Expect = 4.3 Identities = 6/23 (26%), Positives = 11/23 (47%) Query: 23 NSISSRRQNIPPSSVISDLVVHP 45 + QN PP +V+ ++ P Sbjct: 199 SGKRDGAQNPPPGTVVDTVITSP 221 Database: CddA Posted date: Feb 4, 2011 9:38 PM Number of letters in database: 6,263,737 Number of sequences in database: 21,609 Lambda K H 0.308 0.125 0.350 Gapped Lambda K H 0.267 0.0590 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21609 Number of Hits to DB: 624,778 Number of extensions: 19650 Number of successful extensions: 47 Number of sequences better than 10.0: 1 Number of HSP's gapped: 47 Number of HSP's successfully gapped: 5 Length of query: 56 Length of database: 6,263,737 Length adjustment: 28 Effective length of query: 28 Effective length of database: 5,658,685 Effective search space: 158443180 Effective search space used: 158443180 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.1 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 42 (21.7 bits) S2: 51 (23.7 bits)