RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddA 21,609 sequences; 6,263,737 total letters Searching..................................................done Query= gi|254781134|ref|YP_003065547.1| hypothetical protein CLIBASIA_05180 [Candidatus Liberibacter asiaticus str. psy62] (320 letters) >gnl|CDD|34376 COG4763, COG4763, Predicted membrane protein [Function unknown]. Length = 388 Score = 28.8 bits (64), Expect = 2.1 Identities = 10/49 (20%), Positives = 17/49 (34%) Query: 221 LQAYQRPYLKLFARANYDHSYPEFSKETISNNPMDNGIWDNSLWDEVKW 269 + + LF R Y P + + N + +LW V+W Sbjct: 77 MPVFFFISGYLFRRRRYIDLVPYVLWGNCLDKRLWNIFFVLALWGVVQW 125 >gnl|CDD|37897 KOG2686, KOG2686, KOG2686, Choline kinase [Cell wall/membrane/envelope biogenesis]. Length = 366 Score = 28.0 bits (62), Expect = 3.3 Identities = 21/117 (17%), Positives = 37/117 (31%), Gaps = 16/117 (13%) Query: 178 TFWQGDISGSDNARPFIGIYLSPFHAIDPRLGFQRRACVAHLSLQAYQRPYLKLFARANY 237 T DI + ++ I L+ +H I+ + R+ + Y++ Sbjct: 125 TLTLADIRDPEISK-RIAAKLAEYHGIEVPGPKEPRSL-----WERYKKWLKGAKKIKPT 178 Query: 238 DHSYPEFSKETISNNPMDNGIWDNSLWDEVKWTDNLFVTKKKLFQFCQNVVAYGNCL 294 + SY + + L E+ K FC N + YGN L Sbjct: 179 EVSY-SCGPDKLE---------IEDLLLELSLFRKWSELTKSPVVFCHNDLQYGNIL 225 >gnl|CDD|48044 cd03449, R_hydratase, (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase II, and beta-hydroxydecanoyl-ACP dehydratase, MaoC dehydratase, Hydratase-Dehydrogenase-Epimerase protein (HDE), and the fatty acid synthase beta subunit. The active site lies within a substrate-binding tunnel formed by the (R)-hydratase homodimer. A subset of the bacterial (R)-hydratases contain a C-terminal phosphotransacetylase (PTA) domain.. Length = 128 Score = 27.8 bits (62), Expect = 4.1 Identities = 11/39 (28%), Positives = 19/39 (48%), Gaps = 4/39 (10%) Query: 229 LKLFARA----NYDHSYPEFSKETISNNPMDNGIWDNSL 263 ++LFA N H E++K+T + +G+ SL Sbjct: 18 VELFAELSGDFNPIHLDEEYAKKTRFGGRIAHGMLTASL 56 >gnl|CDD|145988 pfam03136, Pup_ligase, Pup-ligase protein. Pupylation is a novel protein modification system found in some bacteria. This family of proteins are the enzyme that can conjugate proteins of the Pup family to lysine residues in target proteins marking them for degradation. The archetypal protein in this family is PafA (proteasome accessory factor) from Mycobacterium tuberculosis. It has been suggested that these proteins are related to gamma-glutamyl-cysteine synthetases. Length = 444 Score = 27.6 bits (62), Expect = 5.1 Identities = 12/29 (41%), Positives = 16/29 (55%), Gaps = 3/29 (10%) Query: 233 ARANYDHSYPEFSK-ETISNNPMDNGIWD 260 AR DH++PE+S E NP D +D Sbjct: 76 ARLYVDHAHPEYSTPECT--NPRDLVAYD 102 >gnl|CDD|144479 pfam00898, Orbi_VP2, Orbivirus outer capsid protein VP2. VP2 acts as an anchor for VP1 and VP3. VP2 contains a non-specific DNA and RNA binding domain in the N-terminus. Length = 946 Score = 26.5 bits (59), Expect = 8.5 Identities = 33/156 (21%), Positives = 56/156 (35%), Gaps = 39/156 (25%) Query: 101 IQEQWEQAIMVAPTGWSMILWEKRNMLLISCPKNSLLSDKTFVMNVAHNNRWSSFHNWFT 160 IQ W+Q IL ++ N+L I K++ L +++ ++ + ++W F Sbjct: 456 IQGGWDQERF----KLHKILKDEGNLLTIDFEKDAYLDNRSELVLPEYYDKWIL-SPMF- 509 Query: 161 QSYVVANENLFFGDYEGTFWQGDISGSDNARPFIGIYLSPFHA-------------IDPR 207 N L G+I+ N P++ + P A D R Sbjct: 510 ------NARLKISR-------GEIATRKNDDPWVKRTVKPIIADPAELLRYHLGRYYDLR 556 Query: 208 LGFQRRACVAHLSLQAYQRPYLKLFARANYDHSYPE 243 A LSL+ Q Y +L A+ + Y E Sbjct: 557 PCLFGDA----LSLKQSQSAYFELLAQLD---DYEE 585 >gnl|CDD|113085 pfam04301, DUF452, Protein of unknown function (DUF452). Length = 213 Score = 26.5 bits (58), Expect = 9.4 Identities = 22/90 (24%), Positives = 32/90 (35%), Gaps = 20/90 (22%) Query: 205 DPRLGFQRRACVAHLSLQAYQ----RPYLKLFARANYDHSYPEFSKETISNNPMDNGIWD 260 D RL F+RR C + YQ RP E E I+ I Sbjct: 114 DNRLKFERRICGDKALFEDYQHFPARPTFG------------EIHAELIALFAF---IGQ 158 Query: 261 NSLWDEVKWTDNLFVTKKKLFQFCQNVVAY 290 + D ++W+ + + K+F N AY Sbjct: 159 DRRTDLIRWSKAIVGSGDKIFM-AANQHAY 187 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 0.320 0.135 0.432 Gapped Lambda K H 0.267 0.0566 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21609 Number of Hits to DB: 4,079,982 Number of extensions: 215219 Number of successful extensions: 405 Number of sequences better than 10.0: 1 Number of HSP's gapped: 405 Number of HSP's successfully gapped: 9 Length of query: 320 Length of database: 6,263,737 Length adjustment: 94 Effective length of query: 226 Effective length of database: 4,232,491 Effective search space: 956542966 Effective search space used: 956542966 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 (21.8 bits) S2: 57 (26.1 bits)