RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddA 21,609 sequences; 6,263,737 total letters Searching..................................................done Query= gi|255764508|ref|YP_003065363.2| hypothetical protein CLIBASIA_04245 [Candidatus Liberibacter asiaticus str. psy62] (242 letters) >gnl|CDD|99750 cd06259, YdcF-like, YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been idenitified. The family also includes Escherichia coli sanA and Salmonella typhimurium sfiX, which are involved in vancomycin resistance; sfiX may also be involved in murein synthesis.. Length = 150 Score = 110 bits (278), Expect = 3e-25 Identities = 49/167 (29%), Positives = 86/167 (51%), Gaps = 21/167 (12%) Query: 69 IVLLGNGTTIIPTIPAIRIEPSFQSYSRIFETMRLYKSCKQHSMHCTIIISGGDPQKHGL 128 IV+LG G PS R+ LY++ +I+SGG G Sbjct: 3 IVVLGGGVN--------GDGPSPILAERLDAAAELYRAGP----APKLIVSGGQGPGEGY 50 Query: 129 AESIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQGKNIILVSSAYHLKRS 188 +E+ L+E GV + I LE +S +T++NA+FS+ +++ ++++LV+SAYH+ R+ Sbjct: 51 SEAEAMARYLIELGVPAEAILLEDRSTNTYENARFSAELLRERGIRSVLLVTSAYHMPRA 110 Query: 189 QLYFQHFGINTK--ASCSDYLNAYYSIIPLSANFYLTELALKEYIGI 233 L F+ G++ + + +D+ LS+ L LAL+EY+G+ Sbjct: 111 LLIFRKAGLDVEVVPAPTDFY-------SLSSALRLLRLALREYLGL 150 >gnl|CDD|145708 pfam02698, DUF218, DUF218 domain. This large family of proteins contains several highly conserved charged amino acids, suggesting this may be an enzymatic domain (Bateman A pers. obs). The family includes SanA, which is involved in Vancomycin resistance. This protein may be involved in murein synthesis. Length = 148 Score = 110 bits (276), Expect = 5e-25 Identities = 47/165 (28%), Positives = 82/165 (49%), Gaps = 21/165 (12%) Query: 69 IVLLGNGTTIIPTIPAIRIEPSFQSYSRIFETMRLYKSCKQHSMHCTIIISGGDPQKHGL 128 IV+LG G+ +R+ LY++ II+SGG + Sbjct: 5 IVVLGGGSPA--------------LAARLDAAAELYRAGPA----PRIIVSGGAGGGEPV 46 Query: 129 AESIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQGKNIILVSSAYHLKRS 188 +E+ V L+E GV + I LE QS +T++NA+FS+ +++ + ++LV+SA+H++R+ Sbjct: 47 SEAEVMRRYLVELGVPAEAILLEPQSRNTYENARFSAELLRERGLRRVLLVTSAFHMRRA 106 Query: 189 QLYFQHFGINTKASCSDYLNAYYSIIPLSANFYLTELALKEYIGI 233 L F+ G +DY + P + L AL+EY+G+ Sbjct: 107 LLLFRRAGPEVVPVPADYP---TPLPPRALWLRLARAALREYLGL 148 >gnl|CDD|31623 COG1434, COG1434, Uncharacterized conserved protein [Function unknown]. Length = 223 Score = 82.9 bits (204), Expect = 7e-17 Identities = 57/246 (23%), Positives = 100/246 (40%), Gaps = 31/246 (12%) Query: 1 MLLSWIFLIVSYWHLLCQSIRKIFFMSCFMLLFSFIGWGIIPTILLKHLQFSYQRPLLSP 60 LL + ++ L + + + + ++L I+ LL+ L+ LL P Sbjct: 4 TLLLLLVGLLLLSSLRFRKLIVLRILLLLIILL-LAALLILGGFLLRPLEARSAAALLLP 62 Query: 61 QWKKDGNIIVLLGNGTTIIPTIPAIRIEPSFQSYSRIFETMRLYKSCKQHSMHCTIIISG 120 + IV+LG G R+ E RL K I+ Sbjct: 63 G---LADAIVVLGGG------------SRLTDHLIRLLEAARLAK----------ILPIS 97 Query: 121 GDPQKHGLAESIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQGKNIILVS 180 G + G+ E L GV + I LE +S +T +NA+FS +++ +++ILV+ Sbjct: 98 GVLESGGVIEIQATRRYLENLGVPAERIILEDRSRNTVENARFSRRLLRTQGPESVILVT 157 Query: 181 SAYHLKRSQLYFQHFGIN-----TKASCSDYLNAYYSIIPLSANFYLTELALKEYIGILI 235 S YH+ R+ L F+ GI+ + L S++ L+ + AL+E +G+L Sbjct: 158 SPYHMPRALLLFRKLGISVIPYPVGFLDRNILRLPLSLLALAEALLKSLRALREALGLLG 217 Query: 236 AYYRGN 241 +G Sbjct: 218 YGLKGR 223 >gnl|CDD|30395 COG0046, PurL, Phosphoribosylformylglycinamidine (FGAM) synthase, synthetase domain [Nucleotide transport and metabolism]. Length = 743 Score = 30.2 bits (68), Expect = 0.60 Identities = 9/23 (39%), Positives = 14/23 (60%) Query: 55 RPLLSPQWKKDGNIIVLLGNGTT 77 R +L+P+ KK G ++ LLG Sbjct: 573 RKVLTPELKKAGLLLYLLGETKD 595 >gnl|CDD|36532 KOG1318, KOG1318, KOG1318, Helix loop helix transcription factor EB [Transcription]. Length = 411 Score = 28.5 bits (63), Expect = 1.8 Identities = 15/65 (23%), Positives = 21/65 (32%), Gaps = 4/65 (6%) Query: 138 LLESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQGKNIILVSSAYHLKRSQLYFQHFGI 197 S E DD+ ++L AQ S N Q N + S A +Y Sbjct: 141 GFSSLGEMDDVISNIETLSASFPAQSVGSPAGNGQTANTLTSSGA----SLNVYPSEGQF 196 Query: 198 NTKAS 202 N + Sbjct: 197 NVPMT 201 >gnl|CDD|72987 cd03228, ABCC_MRP_Like, The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a diverse functional spectrum that includes ion transport, cell surface receptor, and toxin secretion activities. The MRP-like family, simlar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains, each composed of six transmembrane (TM) helices, and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.. Length = 171 Score = 27.7 bits (62), Expect = 3.3 Identities = 15/67 (22%), Positives = 32/67 (47%), Gaps = 13/67 (19%) Query: 117 IISGGDPQKHGLAESIVYNNKLL---ESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQG 173 I+SGG Q+ +A +++ + +L E+ T +LD A ++ +G Sbjct: 96 ILSGGQRQRIAIARALLRDPPILILDEA----------TSALDPETEALILEALRALAKG 145 Query: 174 KNIILVS 180 K +I+++ Sbjct: 146 KTVIVIA 152 >gnl|CDD|39429 KOG4228, KOG4228, KOG4228, Protein tyrosine phosphatase [Signal transduction mechanisms]. Length = 1087 Score = 27.3 bits (60), Expect = 3.9 Identities = 23/75 (30%), Positives = 28/75 (37%), Gaps = 6/75 (8%) Query: 149 KLETQSLDTFQNAQFSSSMIKNMQGKNIILVSSAYHLKRSQLYFQHFGINTKASCSDYLN 208 K E +SL Q S+ +N Q KN AY R L I SDY+N Sbjct: 544 KQEYESLPEGQFTWEHSNKKENKQ-KNRYENILAYDHSRVILPP----IEGDP-NSDYIN 597 Query: 209 AYYSIIPLSANFYLT 223 A Y N Y+ Sbjct: 598 ANYIDGYKEPNAYIA 612 >gnl|CDD|153093 cd04704, PLA2_bee_venom_like, PLA2_bee_venom_like: A sub-family of Phospholipase A2, similar to bee venom PLA2. PLA2 is a super-family of secretory and cytosolic enzymes; the latter are either Ca dependent or Ca independent. Enzymatically active PLA2 cleaves the sn-2 position of the glycerol backbone of phospholipids; secreted PLA2s have also been found to specifically bind to a variety of soluble and membrane proteins in mammals, including receptors. As a toxin, PLA2 is a potent presynaptic neurotoxin which blocks nerve terminals by binding to the nerve membrane and hydrolyzing stable membrane lipids. The products of the hydrolysis cannot form bilayers leading to a change in membrane conformation and ultimately to a block in the release of neurotransmitters. PLA2 may form dimers or oligomers. Bee venom PLA2 has fewer conserved disulfide bridges than most canonical PLA2s. Length = 97 Score = 27.3 bits (61), Expect = 4.1 Identities = 14/36 (38%), Positives = 20/36 (55%), Gaps = 2/36 (5%) Query: 93 SYSRIFETMRLYKSCKQHSMHCTIIISGGDPQKHGL 128 +YS + K C++H HC IIS G+ K+GL Sbjct: 17 NYSDLGAFRETDKCCREHD-HCPDIISAGE-YKYGL 50 >gnl|CDD|32455 COG2274, SunT, ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]. Length = 709 Score = 26.7 bits (59), Expect = 5.9 Identities = 16/66 (24%), Positives = 34/66 (51%), Gaps = 13/66 (19%) Query: 118 ISGGDPQKHGLAESIVYNNKLL---ESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQGK 174 +SGG Q+ LA +++ K+L E+ T +LD A ++++ +QG+ Sbjct: 610 LSGGQRQRLALARALLSKPKILLLDEA----------TSALDPETEAIILQNLLQILQGR 659 Query: 175 NIILVS 180 +I+++ Sbjct: 660 TVIIIA 665 >gnl|CDD|32772 COG2949, SanA, Uncharacterized membrane protein [Function unknown]. Length = 235 Score = 26.0 bits (57), Expect = 9.9 Identities = 22/119 (18%), Positives = 44/119 (36%), Gaps = 14/119 (11%) Query: 95 SRIFETMRLYKSCKQHSMHCTIIISGGDPQKHGLAESIVYNNKLLESGVERDDIKLET-- 152 RI + LYK+ K ++ GD E L+ +GV +I L+ Sbjct: 80 YRIDAAIALYKAGK-----VNYLLLSGDNATVSYNEPRTMRKDLIAAGVPAKNIFLDYAG 134 Query: 153 -QSLDTFQNAQFSSSMIKNMQGKNIILVSSAYHLKRSQLYFQHFGINTKASCSDYLNAY 210 ++LD+ A+ K + +++ +H +R+ + GI+ + Sbjct: 135 FRTLDSVVRAR------KVFGTNDFTIITQRFHCERALFIARQMGIDAICFAAPDPEGR 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 0.326 0.140 0.427 Gapped Lambda K H 0.267 0.0636 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21609 Number of Hits to DB: 3,045,015 Number of extensions: 162147 Number of successful extensions: 712 Number of sequences better than 10.0: 1 Number of HSP's gapped: 706 Number of HSP's successfully gapped: 39 Length of query: 242 Length of database: 6,263,737 Length adjustment: 91 Effective length of query: 151 Effective length of database: 4,297,318 Effective search space: 648895018 Effective search space used: 648895018 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.1 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.7 bits) S2: 56 (25.5 bits)