RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddB 21,608 sequences; 5,994,473 total letters Searching..................................................done Query= gi|254780367|ref|YP_003064780.1| ribonuclease protein [Candidatus Liberibacter asiaticus str. psy62] (281 letters) >gnl|CDD|129848 TIGR00765, yihY_not_rbn, YihY family protein (not ribonuclease BN). Members of this subfamily include the largely uncharacterized BrkB (Bordetella resist killing by serum B) from Bordetella pertussis. Some members have an additional C-terminal domain. Paralogs from E. coli (yhjD) and Mycobactrium tuberculosis (Rv3335c) are part of a smaller, related subfamily that form their own cluster. Length = 259 Score = 72.0 bits (177), Expect = 2e-13 Identities = 51/256 (19%), Positives = 107/256 (41%), Gaps = 9/256 (3%) Query: 18 HFVEEDGWAMASHISLSALLSVFPFIVFGANLAGFLGAHQ-FVPTVIDVVFGAWPEVIAK 76 F E++ + A ++ LLS+ P + +L Q + + +F + + Sbjct: 9 RFDEDELFQYAGSLAFYTLLSLVPLLAVMFSLFAAFPVFQDVSGELEEFIFPNFAPSLGD 68 Query: 77 PITDEILQVLAVPAKGLFTISALAAAYFSSNGVEALRISLNRAYRVVEMRSWYITRLISF 136 I D I Q + + L + ++ + + + +LN+ +RV RS + I + Sbjct: 69 MIKDYIEQFVK-NSNKLTAVGIVSLIVTALLLINNIDSTLNKIWRVKPRRSAIFSFAIYW 127 Query: 137 GYVLLASVTLVIMSFVFVAIPLALAYVRKFFPALGNLLLIIWNGRIYATMLALFIGLIFV 196 + L + V V++ ++ + A L + +L +I + Sbjct: 128 TILTLGPL------LVGVSLAISSVVI-FDVFAQSFFLSVNAALLSVVPLLFTWIFFWLL 180 Query: 197 HLFLPAAKSKIMSILPGVIFTWISWVVGAVLFTHYIVTFSTYSTMYAGLASIMTCLVFLY 256 + +P K K G F + + + LFT Y+ TF+TY +Y LA + ++++Y Sbjct: 181 YTIVPNKKVKHRHAFVGAFFAAVLFELAKWLFTFYVSTFATYQLIYGALAVLPFLMLWVY 240 Query: 257 MLGVFFILGAELNASM 272 + + +LGAE+ +S+ Sbjct: 241 LSWLVVLLGAEITSSL 256 >gnl|CDD|179791 PRK04214, rbn, ribonuclease BN/unknown domain fusion protein; Reviewed. Length = 412 Score = 48.2 bits (115), Expect = 2e-06 Identities = 45/167 (26%), Positives = 73/167 (43%), Gaps = 9/167 (5%) Query: 115 SLNRAYRVVEMRSWYITRLISFGYVLLASVTLVIMSFVFVAIPLALAYVRKFFPALGNLL 174 + NR +RV R W +TR + + VL L+ S F A AL + P L Sbjct: 123 TFNRIWRVNSARPW-LTRFLVYWTVLTLGPLLLGASIAFSAGVFALPLLATTAPQWLAEL 181 Query: 175 LIIWNGRIYATMLALFIGLIFVHLFLPAAKSKIMSILPGVIFTWISWVVGAVLFTHYIVT 234 A + + L ++ +P + LPG + T + + F Y+ Sbjct: 182 ------ARLAPLAFETVCLTLLYRVVPNHFVPLRHALPGALLTAVLLELVKWGFGFYLGN 235 Query: 235 FSTYSTMYAGLASIMTCLVFLYMLGVFFILGAELNASMIIYYWRKKP 281 F TY +Y A++ L+++Y+L V +LGA L +S+ YWR +P Sbjct: 236 FQTYQRIYGAFAAVPILLLWIYLLWVLVLLGASLTSSL--SYWRGQP 280 >gnl|CDD|179313 PRK01637, PRK01637, hypothetical protein; Reviewed. Length = 286 Score = 36.0 bits (84), Expect = 0.012 Identities = 36/163 (22%), Positives = 67/163 (41%), Gaps = 16/163 (9%) Query: 115 SLNRAYRVVEMRSWYIT-----RLISFGYVLLASVTLVIMSFVFVAIPLALAYVRKFFPA 169 +LN +R R + +++ G LLA +L I S++ + + Sbjct: 115 ALNTIWRSKRKRPKVYSFAVYWMILTLG-PLLAGASLAISSYLLSLRWFEASDLSGVIDN 173 Query: 170 LGNLLLIIWNGRIYATMLALFIGLIFVHLFLPAAKSKIMSILPGVIFTWISWVVGAVLFT 229 L +L +L ++ ++ +P K L G + + + +G F Sbjct: 174 LLRIL----------PLLLSWLSFWLLYSVVPNKKVPFRHALVGALVAALLFELGKKGFA 223 Query: 230 HYIVTFSTYSTMYAGLASIMTCLVFLYMLGVFFILGAELNASM 272 YI TF +Y +Y LA I V++Y+ +LGAE+ A++ Sbjct: 224 LYITTFPSYQLIYGALAVIPILFVWVYLSWCIVLLGAEITATL 266 >gnl|CDD|179881 PRK04813, PRK04813, D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional. Length = 503 Score = 30.6 bits (70), Expect = 0.45 Identities = 19/48 (39%), Positives = 24/48 (50%), Gaps = 10/48 (20%) Query: 26 AMASHISLSALLSVFPFIVFGAN----LAGFLGA----HQFVPTVIDV 65 A+A+ I L P IVFG LA FLGA H ++P +DV Sbjct: 39 ALAAFIDSLKLPDKSPIIVFGHMSPEMLATFLGAVKAGHAYIP--VDV 84 >gnl|CDD|177570 PHA03261, PHA03261, Capsid triplex subunit 1; Provisional. Length = 469 Score = 30.4 bits (69), Expect = 0.57 Identities = 18/51 (35%), Positives = 21/51 (41%), Gaps = 4/51 (7%) Query: 94 FTISALAAAYFSSNGVEALRISLNRAYRVVEMRSWYITRLISFGYVLLASV 144 F ++A AA Y EALR + Y M RL FG L A V Sbjct: 192 FLVAARAAEYRDKCAAEALRAHVIANYGDRRME----ARLDRFGECLQAMV 238 >gnl|CDD|162113 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger. Length = 1096 Score = 29.6 bits (66), Expect = 1.1 Identities = 38/125 (30%), Positives = 57/125 (45%), Gaps = 19/125 (15%) Query: 149 MSFVFVAIPLALAYVRKFFPALGNLL--LIIWNGRIYATMLA-------LFIGLIFVHLF 199 M +VFVA LA+ F PALG + L I AT +A LF LI V F Sbjct: 464 MMYVFVA--LAIVCDEYFVPALGVITDKLQISEDVAGATFMAAGGSAPELFTSLIGV--F 519 Query: 200 LPAAKSKIMSILPGVIFTWISWVVGA-VLFTHYIVTFSTYSTMYAGLASIMTCLVFLYML 258 + + I +I+ +F I +V+G LF+ I+ T + + ++ L ML Sbjct: 520 ISHSNVGIGTIVGSAVFN-ILFVIGTCALFSREILNL----TWWPLFRDVSFYILDLMML 574 Query: 259 GVFFI 263 +FF+ Sbjct: 575 ILFFL 579 >gnl|CDD|180293 PRK05857, PRK05857, acyl-CoA synthetase; Validated. Length = 540 Score = 28.4 bits (63), Expect = 1.8 Identities = 20/59 (33%), Positives = 27/59 (45%), Gaps = 18/59 (30%) Query: 218 WISWVVGAVLFTHYIVTFSTYSTMYA----GLASIMTCLVFLYMLGVFFILGAELNASM 272 W++WVVG +TYS + A GL I+TCL M G + G E S+ Sbjct: 208 WVTWVVGE----------TTYSPLPATHIGGLWWILTCL----MHGGLCVTGGENTTSL 252 >gnl|CDD|172503 PRK14002, PRK14002, potassium-transporting ATPase subunit C; Provisional. Length = 186 Score = 28.5 bits (64), Expect = 2.0 Identities = 14/40 (35%), Positives = 18/40 (45%) Query: 144 VTLVIMSFVFVAIPLALAYVRKFFPALGNLLLIIWNGRIY 183 +TLV F V LAL + P GN I NG++ Sbjct: 10 LTLVFCVFFSVFYILALWGFAQLAPNKGNGETITLNGKVV 49 >gnl|CDD|107029 PHA01351, PHA01351, putative minor structural protein. Length = 1070 Score = 28.4 bits (63), Expect = 2.3 Identities = 15/54 (27%), Positives = 20/54 (37%), Gaps = 1/54 (1%) Query: 162 YVRKFFPALGNLLLIIWNGRIYA-TMLALFIGLIFVHLFLPAAKSKIMSILPGV 214 + F G + I N L+ FI I + FLP K+ ILP Sbjct: 142 VISDFLNFFGANMKHISNAISQLSQFLSPFIAPITIGKFLPVIVDKLAEILPEF 195 >gnl|CDD|180646 PRK06654, fliL, flagellar basal body-associated protein FliL; Reviewed. Length = 181 Score = 27.8 bits (62), Expect = 3.0 Identities = 13/49 (26%), Positives = 22/49 (44%), Gaps = 3/49 (6%) Query: 202 AAKSKIMSILPGVIFTWISWV---VGAVLFTHYIVTFSTYSTMYAGLAS 247 A + + +LP VI + WV + AV+F +V F + + A Sbjct: 17 APDGRKVGLLPDVIIKILQWVAIGLFAVIFIVTVVYFVSKMVVSQSGAP 65 >gnl|CDD|106738 PRK13797, PRK13797, putative bifunctional allantoicase/OHCU decarboxylase; Provisional. Length = 516 Score = 27.6 bits (61), Expect = 3.7 Identities = 22/74 (29%), Positives = 34/74 (45%), Gaps = 10/74 (13%) Query: 44 VFGANLAGFLGAHQFVPTVIDVVFGA--WPEVIAK-PITDEILQVLAVPAKGLFTISALA 100 + GA LAG+ P+ DV + W E++ + PI + + VL V + G I+ L Sbjct: 103 IHGATLAGY-------PSAEDVADDSVHWVELVPRTPIAADAVNVLPVASSGRLRITHLR 155 Query: 101 AAYFSSNGVEALRI 114 GV LR+ Sbjct: 156 LTIHPDGGVARLRV 169 >gnl|CDD|162661 TIGR02016, BchX, chlorophyllide reductase iron protein subunit X. This model represents the X subunit of the three-subunit enzyme, (bacterio)chlorophyllide reductase. This enzyme is responsible for the reduction of the chlorin B-ring and is closely related to the protochlorophyllide reductase complex which reduces the D-ring. Both of these complexes in turn are homologous to nitrogenase. This subunit is homologous to the nitrogenase component II, or "iron" protein. Length = 296 Score = 26.7 bits (59), Expect = 6.1 Identities = 21/86 (24%), Positives = 40/86 (46%), Gaps = 10/86 (11%) Query: 43 IVFGANLAGFLGAHQFVPTVI------DVVFGAWPEVIAKPITDEILQVLAVPAKGLFTI 96 I+ G +L LG H + + DVV G + +A+ + +E++ + + + L+ Sbjct: 106 IIHGFDLLEKLGFHDWDFDFVLMDFLGDVVCGGFATPLARSLAEEVIVIGSNDRQSLYVA 165 Query: 97 SALAAA--YFSSNG--VEALRISLNR 118 + + A YF G V L + +NR Sbjct: 166 NNICNAVEYFRKLGGRVGLLGLVVNR 191 >gnl|CDD|181653 PRK09108, PRK09108, type III secretion system protein HrcU; Validated. Length = 353 Score = 26.2 bits (58), Expect = 9.3 Identities = 14/30 (46%), Positives = 15/30 (50%), Gaps = 1/30 (3%) Query: 25 WAMASHISLSALLSVFPFIVFGANLAGFLG 54 A H ALL + PF V A LAG LG Sbjct: 74 LAALHHFGAQALLLMLPF-VAAAALAGILG 102 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 0.333 0.144 0.449 Gapped Lambda K H 0.267 0.0744 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21608 Number of Hits to DB: 4,818,868 Number of extensions: 328178 Number of successful extensions: 1663 Number of sequences better than 10.0: 1 Number of HSP's gapped: 1638 Number of HSP's successfully gapped: 192 Length of query: 281 Length of database: 5,994,473 Length adjustment: 92 Effective length of query: 189 Effective length of database: 4,006,537 Effective search space: 757235493 Effective search space used: 757235493 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.2 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 39 (21.5 bits) S2: 56 (25.3 bits)