RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddB 21,608 sequences; 5,994,473 total letters Searching..................................................done Query= gi|254780929|ref|YP_003065342.1| hypothetical protein CLIBASIA_04140 [Candidatus Liberibacter asiaticus str. psy62] (408 letters) >gnl|CDD|185327 PRK15429, PRK15429, formate hydrogenlyase transcriptional activator FhlA; Provisional. Length = 686 Score = 31.3 bits (71), Expect = 0.46 Identities = 18/59 (30%), Positives = 25/59 (42%), Gaps = 2/59 (3%) Query: 1 MFQNKNFLLGVLRLKKCTRGVFLVITAILLSSFVAIVDVVVDQVTVMQKTAWLQEVLDH 59 M + +LGVL+L +C VF LL V + VD Q+ L+E L Sbjct: 303 MSGDT--MLGVLKLAQCEEKVFTTTNLKLLRQIAERVAIAVDNALAYQEIHRLKERLVD 359 >gnl|CDD|152291 pfam11855, DUF3375, Protein of unknown function (DUF3375). This family of proteins are functionally uncharacterized. This protein is found in bacteria. Proteins in this family are typically between 479 to 499 amino acids in length. Length = 471 Score = 30.0 bits (68), Expect = 1.0 Identities = 17/70 (24%), Positives = 24/70 (34%), Gaps = 5/70 (7%) Query: 32 SFVAIVDVVVDQVTVMQKTAWLQEVLDH-VIYRTSPKNLYDLREAGRDNFIRHQIEKALN 90 SF A D ++D + L+ VL P+ LR RD + E+ Sbjct: 238 SFRAFWDFLLDPERQEELDELLRAVLARPPAQGLDPELREFLRRLHRD--LLEAGEEVQR 295 Query: 91 TYN--SRDLS 98 T S L Sbjct: 296 TRRRLSESLR 305 >gnl|CDD|180753 PRK06924, PRK06924, short chain dehydrogenase; Provisional. Length = 251 Score = 30.0 bits (68), Expect = 1.1 Identities = 12/51 (23%), Positives = 18/51 (35%), Gaps = 10/51 (19%) Query: 59 HVIYRTSPKNLYDLREAGRDNFIRHQIEKALNTYNSRDLSNIGSIESIVKD 109 I RT K L L E N H + DL ++ +E+ + Sbjct: 29 ISISRTENKELTKLAEQYNSNLTFHSL----------DLQDVHELETNFNE 69 >gnl|CDD|129429 TIGR00329, gcp_kae1, metallohydrolase, glycoprotease/Kae1 family. This subfamily includes the well-studied secreted O-sialoglycoprotein endopeptidase (glycoprotease, EC 3.4.24.57) of Pasteurella haemolytica, a pathogen. A member from Riemerella anatipestifer, associated with cohemolysin activity, likewise is exported without benefit of a classical signal peptide and shows glycoprotease activity on the test substrate glycophorin. However, archaeal members of this subfamily show unrelated activities as demonstrated in Pyrococcus abyssi: DNA binding, iron binding, apurinic endonuclease activity, genomic association with a kinase domain, and no glycoprotease activity. This family thus pulls together a set of proteins as a homology group that appears to be near-universal in life, yet heterogeneous in assayed function between bacteria and archaea. Length = 305 Score = 29.2 bits (66), Expect = 1.8 Identities = 24/128 (18%), Positives = 43/128 (33%), Gaps = 24/128 (18%) Query: 206 LNRNTLVKNFLSQIPYKNFCMAPYHYSSILYWAVGTLTYSVDNKTTTREYYKDPYYATWD 265 L + F +PY M + +S G T ++ + K+ AT + Sbjct: 183 LAKKGDKLPFYFPLPYTVKPMLDFSFS-------GLKTAAL---RKIEKLKKNLNEATKE 232 Query: 266 HFPYSFIKNVFDMTSNQFGDGQVLTNTNHCFPHGASQNKYMLMLAIGNQLSRSSVEKEKI 325 YSF + FD + T L+L G +S + +E + Sbjct: 233 DIAYSFQETAFDHLIEK---------TKRAL---KDTGPKELVLVGG--VSANKRLREML 278 Query: 326 EKVLQDCH 333 E + Q+ + Sbjct: 279 ETLCQELN 286 >gnl|CDD|182522 PRK10529, PRK10529, DNA-binding transcriptional activator KdpE; Provisional. Length = 225 Score = 29.0 bits (65), Expect = 2.2 Identities = 16/62 (25%), Positives = 29/62 (46%), Gaps = 5/62 (8%) Query: 150 KVDISRRKKVMYKQNIGLMIMPFAWDGYWLASRGKVAD-----SKVHPPKYLEYSHYYQQ 204 VD++ R ++ + L + F L + GKV ++V P +E+SHY + Sbjct: 135 TVDLAARVIHRGEEEVHLTPIEFRLLAVLLNNAGKVLTQRQLLNQVWGPNAVEHSHYLRI 194 Query: 205 YL 206 Y+ Sbjct: 195 YM 196 >gnl|CDD|129791 TIGR00708, cobA, cob(I)alamin adenosyltransferase. Alternate name: corrinoid adenosyltransferase. Length = 173 Score = 27.8 bits (62), Expect = 5.5 Identities = 14/47 (29%), Positives = 25/47 (53%), Gaps = 13/47 (27%) Query: 39 VVVDQVTVMQKTAWL--QEVLD---------HVIY--RTSPKNLYDL 72 V++D++T K +L +EV++ HVI R P++L +L Sbjct: 101 VLLDELTYALKYGYLDVEEVVEALQERPGHQHVIITGRGCPQDLLEL 147 >gnl|CDD|149018 pfam07727, RVT_2, Reverse transcriptase (RNA-dependent DNA polymerase). A reverse transcriptase gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. Reverse transcriptases occur in a variety of mobile elements, including retrotransposons, retroviruses, group II introns, bacterial msDNAs, hepadnaviruses, and caulimoviruses. This Pfam entry includes reverse transcriptases not recognized by the pfam00078 model. Length = 246 Score = 27.0 bits (61), Expect = 8.5 Identities = 21/96 (21%), Positives = 33/96 (34%), Gaps = 30/96 (31%) Query: 29 LLSSFVAIVDVVVDQVTVMQKTAWLQEVLDHVIYRTSP----------------KNLYDL 72 LL + A + Q+ V KTA+L L+ +Y P K+LY L Sbjct: 67 LLLALAAQRGWELHQMDV--KTAFLNGELEEEVYMKQPPGFEDPGKPNKVCRLKKSLYGL 124 Query: 73 REAGR------------DNFIRHQIEKALNTYNSRD 96 ++A R F + + + L S Sbjct: 125 KQAPRAWYQKLSSFLLKLGFKQSEADPCLFVKKSGG 160 >gnl|CDD|162647 TIGR01993, Pyr-5-nucltdase, pyrimidine 5'-nucleotidase. These enzymes are members of the haloacid dehalogenase (HAD) superfamily of hydrolases, specifically the IA subfamily (variant 3, TIGR01509). Length = 184 Score = 26.9 bits (60), Expect = 8.6 Identities = 11/53 (20%), Positives = 22/53 (41%), Gaps = 2/53 (3%) Query: 174 WDGYWLASRGKVADSKVHPPKYLEYSHYYQQY--LNRNTLVKNFLSQIPYKNF 224 + Y G + ++ +YL Y H Y L + ++N L ++P + Sbjct: 49 YREYGTTLAGLMILHEIDADEYLRYVHGRLPYEKLKPDPELRNLLLRLPGRKI 101 >gnl|CDD|184793 PRK14696, tynA, tyramine oxidase; Provisional. Length = 721 Score = 27.1 bits (60), Expect = 8.7 Identities = 9/21 (42%), Positives = 16/21 (76%) Query: 152 DISRRKKVMYKQNIGLMIMPF 172 D ++KVMY+ ++G MI+P+ Sbjct: 343 DNGTKRKVMYEGSLGGMIVPY 363 >gnl|CDD|179328 PRK01736, PRK01736, hypothetical protein; Reviewed. Length = 190 Score = 26.8 bits (60), Expect = 9.2 Identities = 10/33 (30%), Positives = 13/33 (39%) Query: 289 LTNTNHCFPHGASQNKYMLMLAIGNQLSRSSVE 321 LTN FPH +Q L A + L+ Sbjct: 52 LTNEGMAFPHALAQPLRQLHQATSDALTDDGFL 84 Database: CddB Posted date: Feb 4, 2011 9:54 PM Number of letters in database: 5,994,473 Number of sequences in database: 21,608 Lambda K H 0.321 0.134 0.402 Gapped Lambda K H 0.267 0.0706 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21608 Number of Hits to DB: 6,513,114 Number of extensions: 403181 Number of successful extensions: 689 Number of sequences better than 10.0: 1 Number of HSP's gapped: 689 Number of HSP's successfully gapped: 19 Length of query: 408 Length of database: 5,994,473 Length adjustment: 96 Effective length of query: 312 Effective length of database: 3,920,105 Effective search space: 1223072760 Effective search space used: 1223072760 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.9 bits) S2: 58 (26.2 bits)