RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddA 21,609 sequences; 6,263,737 total letters Searching..................................................done Query= gi|254780548|ref|YP_003064961.1| translocation protein TolB [Candidatus Liberibacter asiaticus str. psy62] (447 letters) >gnl|CDD|31165 COG0823, TolB, Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]. Length = 425 Score = 249 bits (637), Expect = 9e-67 Identities = 142/431 (32%), Positives = 213/431 (49%), Gaps = 12/431 (2%) Query: 20 LLVLIGGFFPTSIHAFVKVATNSANYSPVSIAFTKFVSIDE--LGGKVSEVVSKDLQRSD 77 +L+ I F + A V + NS SP+ IA F G +S +V+ DL+ S Sbjct: 3 ILLAITLVFQVTA-ALVLIVINSGVDSPLPIAVVSFSPDGGALPGEDISGIVAADLKASG 61 Query: 78 VFNLISQDSFKQKITNPDSIPRFQDWNSLGAQVLVTGRVIKEGKDRLRVEFRLWDVKDRK 137 F + + + + + S P DW +LGA +V G+V R F+L+D Sbjct: 62 KFIPLDRAGYIELPSGA-SEPLPPDWKALGADAVVLGQVTPSPDGSYRSSFQLFDTSTGF 120 Query: 138 QIIGKKFFSSPASWRKIAHTISDDIYQSITGEKGDFNSRILFVSESVVSGIIKNSLCVMD 197 Q++G + R+ AHTI+D IY+ +TG KG F++RI +V+ES + L + D Sbjct: 121 QLLGNSLVVTALLLRRAAHTIADAIYEKLTGIKGAFDTRIAYVAESDGGPLPYE-LALGD 179 Query: 198 RDGANIRYLTPSRDQILFEPRFSPNQQKVAYATYDDEDILRVYLMDTRIDRAPKRIGNFR 257 DG N + LT S IL P +SP+ +K+AY +++ R+Y +D + P I NF Sbjct: 180 YDGYNQQKLTDSGSLILT-PAWSPDGKKLAYVSFELGGCPRIYYLDLNTGKRP-VILNFN 237 Query: 258 SMILAPRFSSNGKRALISVQKDEAMDIYSVDLQSNATERLTNTLFINISASYSPDSSQIV 317 AP FS +G + S +D + DIY +DL RLTN IN S S+SPD S+IV Sbjct: 238 GNNGAPAFSPDGSKLAFSSSRDGSPDIYLMDLDGKNLPRLTNGFGINTSPSWSPDGSKIV 297 Query: 318 FESDREGKEQLYVMQSNGSDQKRISQDKEASYFDPVWSPQGDLIAFTKFSGEKFAIGVMK 377 F SDR G+ Q+Y+ GS R++ +PVWSP GD I F SG ++ I Sbjct: 298 FTSDRGGRPQIYLYDLEGSQVTRLT-FSGGGNSNPVWSPDGDKIVFESSSGGQWDIDKND 356 Query: 378 -KDGSQERLLVEDSNLQAPTWSPSGRSLIFSRKKDGDTGSKLYSIDLNGRNETLINTP-A 435 G + R+L ++P+W+P+GR ++FS GS L + L+GR + Sbjct: 357 LASGGKIRILTSTYLNESPSWAPNGRMIMFS--SGQGGGSVLSLVSLDGRVSRPLPLADG 414 Query: 436 YASDPQWVGFM 446 P W + Sbjct: 415 DVRVPAWSPVL 425 >gnl|CDD|146599 pfam04052, TolB_N, TolB amino-terminal domain. TolB is an essential periplasmic component of the tol-dependent translocation system. This function of this amino terminal domain is uncertain. Length = 106 Score = 90.8 bits (226), Expect = 7e-19 Identities = 38/101 (37%), Positives = 50/101 (49%), Gaps = 5/101 (4%) Query: 42 SANYSPVSIAFTKFV---SIDELGGKVSEVVSKDLQRSDVFNLISQDSFKQKITNPDSIP 98 P+ IA F EL +SEV++ DL RS +F I +F T+ +S Sbjct: 8 GGVDRPLPIAVVPFAGEGGAAELPEDISEVIAADLARSGLFRPIDPSAFPSSPTS-NSEV 66 Query: 99 RFQDWNSLGAQVLVTGRVIKEGKDRLRVEFRLWDVKDRKQI 139 F DW +LGA LV G V D L VEFRL+DV +Q+ Sbjct: 67 DFADWRALGADALVVGSV-TSSGDGLTVEFRLYDVFSGQQL 106 >gnl|CDD|31695 COG1506, DAP2, Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]. Length = 620 Score = 53.7 bits (128), Expect = 9e-08 Identities = 36/251 (14%), Positives = 76/251 (30%), Gaps = 34/251 (13%) Query: 199 DGANIRYLTPSRDQILFEPRFSPNQQKVAYATYDDEDILRVYLMDTRIDRAPKRIGNFRS 258 DG +R LT + E R+SP+ +A+ + D + ++YL+D I Sbjct: 49 DGKTVRLLTFGGG--VSELRWSPDGSVLAFVSTDGGRVAQLYLVDVG-----GLITKTAF 101 Query: 259 MILAPRFSSNGKRALISVQKDEAMDIYSVDLQSNATERLTNTLFINISASYSPDSSQIVF 318 + R+S +G R L + + D + F Sbjct: 102 GVSDARWSPDGDR--------------IAFLTAEGASKRDG------GDHLFVDRLPVWF 141 Query: 319 ESDREGKEQLYVMQSNGSDQKRISQDKEASYFDPVWSPQGDLIAFTKFSGEKF-----AI 373 + + LYV+ + G L+A + + Sbjct: 142 DGRGGERSDLYVVDIES--KLIKLGLGNLDVVSFATDGDGRLVASIRLDDDADPWVTNLY 199 Query: 374 GVMKKDGSQERLLVEDSNLQAPTWSPSGRSLIFSRKKDGDTGSKLYSIDLNGRNETLINT 433 +++ +G E L + ++ + G+S+ + ++ I L ++ Sbjct: 200 VLIEGNGELESLTPGEGSISKLAFDADGKSIALLGTESDRGLAEGDFILLLDGELGEVDG 259 Query: 434 PAYASDPQWVG 444 + D Sbjct: 260 DLSSGDDTRGA 270 Score = 36.7 bits (84), Expect = 0.014 Identities = 28/96 (29%), Positives = 38/96 (39%), Gaps = 8/96 (8%) Query: 351 DPVWSPQGDLIAFTK----FSGEKFAIGVMKKDGSQERLLVEDSNLQAPTWSPSGRSLIF 406 DP SP G +A+ F + + DG RLL + WSP G L F Sbjct: 17 DPRVSPPGGRLAYILTGLDFLKPLYKSSLWVSDGKTVRLLTFGGGVSELRWSPDGSVLAF 76 Query: 407 SRKKDGDTGSKLYSIDLNGRNETLINTPAYASDPQW 442 DG ++LY +D+ G T SD +W Sbjct: 77 VS-TDGGRVAQLYLVDVGGLIT---KTAFGVSDARW 108 >gnl|CDD|144507 pfam00930, DPPIV_N, Dipeptidyl peptidase IV (DPP IV) N-terminal region. This family is an alignment of the region to the N-terminal side of the active site. The Prosite motif does not correspond to this Pfam entry. Length = 349 Score = 45.8 bits (109), Expect = 2e-05 Identities = 29/124 (23%), Positives = 46/124 (37%), Gaps = 27/124 (21%) Query: 266 SSNGKRALISVQKDE------AMDIYSVDLQSNATERLTNTLFINISASYSPDSSQIVFE 319 S +GK L++ ++ Y DL++ E L A +SPD ++ + Sbjct: 1 SPDGKYLLLATNYEKIWRHSYTASYYIYDLETGTVEPLPPGEGKIQYAKWSPDGHKLAYV 60 Query: 320 SDREGKEQLYVMQSNGSDQKRISQDKEASYF----DPV-------------WSPQGDLIA 362 D LYV + + +I+ D F D V WSP G +A Sbjct: 61 RDNN----LYVRELATGKETQITSDGSNGIFNGLADWVYEEEVFGSNSAYWWSPDGSRLA 116 Query: 363 FTKF 366 F +F Sbjct: 117 FLRF 120 Score = 34.2 bits (79), Expect = 0.070 Identities = 14/66 (21%), Positives = 34/66 (51%), Gaps = 5/66 (7%) Query: 282 MDIYSVDLQSNATERL---TNTLFINISAS--YSPDSSQIVFESDREGKEQLYVMQSNGS 336 +D+ VD ++ T L T+ ++ + + D S ++ S+R+G + LY+ +G Sbjct: 208 LDLVLVDTETGRTVVLLEETSDGWVELHQDPVFLRDGSGFLWISERDGYKHLYLYDLDGK 267 Query: 337 DQKRIS 342 ++++ Sbjct: 268 LPRQLT 273 Score = 33.4 bits (77), Expect = 0.13 Identities = 11/34 (32%), Positives = 17/34 (50%) Query: 284 IYSVDLQSNATERLTNTLFINISASYSPDSSQIV 317 +Y V L + LT+ + SAS+SP+ V Sbjct: 306 LYRVSLDGGEPQCLTDESGDHDSASFSPNGKYYV 339 Score = 28.0 bits (63), Expect = 5.6 Identities = 16/54 (29%), Positives = 23/54 (42%), Gaps = 6/54 (11%) Query: 378 KDGSQERLLVEDSNLQAPTWSPSGRSLIFSRKKDGDTGSKLYSIDLNGRNETLI 431 + G+ E L + +Q WSP G L + R + LY +L ET I Sbjct: 31 ETGTVEPLPPGEGKIQYAKWSPDGHKLAYVRDNN------LYVRELATGKETQI 78 >gnl|CDD|34554 COG4946, COG4946, Uncharacterized protein related to the periplasmic component of the Tol biopolymer transport system [Function unknown]. Length = 668 Score = 37.6 bits (87), Expect = 0.008 Identities = 31/145 (21%), Positives = 58/145 (40%), Gaps = 7/145 (4%) Query: 264 RFSSNGKRALISVQKDEAMDIYSVDLQSNATERLTNTLFINISASYSPDSSQIVFESDRE 323 R + + +I + + IY D +R+ L + SPD ++V +DR Sbjct: 366 RIQVDPEGDVIGTNDGDKLGIY--DKDGGEVKRIEKDLGNIEAVKVSPDGKKVVVANDRF 423 Query: 324 GKEQLYVMQSNGSDQKRISQDKEASYFDPVWSPQGDLIAFTKFSG-EKFAIGVMKKDGSQ 382 +L+V+ + + + I + + D W P IA+ G +I + DG + Sbjct: 424 ---ELWVIDIDNGNVRLIDKSEYGLITDFDWHPNSRWIAYAFPEGYYTQSIKLYDMDGGK 480 Query: 383 E-RLLVEDSNLQAPTWSPSGRSLIF 406 + + +P + P GR L F Sbjct: 481 IYDVTTPTAYDFSPAFDPDGRYLYF 505 Score = 36.8 bits (85), Expect = 0.012 Identities = 25/90 (27%), Positives = 40/90 (44%), Gaps = 8/90 (8%) Query: 283 DIYSVDLQSNATERLTNTLFINISASYSPDSSQIVFESDREGKE----QLYVMQSNGSDQ 338 D++ L+ R+T+ L + + +SPD ++ F G LYV+ S + Sbjct: 60 DLWEYSLKDGKPLRITSGLGVVNNPKFSPDGRKVAFSRVMLGSSLQTADLYVVPSEDGEA 119 Query: 339 KRISQDKEASYFDPV--WSPQGDLIAFTKF 366 KRI+ F V W P G++I T F Sbjct: 120 KRITY--FGRRFTRVAGWIPDGEIIVSTDF 147 Score = 35.3 bits (81), Expect = 0.034 Identities = 20/77 (25%), Positives = 34/77 (44%), Gaps = 7/77 (9%) Query: 247 DRAPKRIGNFRSMILAPRFSSNGKRALISV----QKDEAMDIYSVDLQSNATERLT--NT 300 D P RI + ++ P+FS +G++ S + D+Y V + +R+T Sbjct: 68 DGKPLRITSGLGVVNNPKFSPDGRKVAFSRVMLGSSLQTADLYVVPSEDGEAKRITYFGR 127 Query: 301 LFINISASYSPDSSQIV 317 F + A + PD IV Sbjct: 128 RFTRV-AGWIPDGEIIV 143 Score = 30.7 bits (69), Expect = 0.77 Identities = 14/51 (27%), Positives = 20/51 (39%), Gaps = 2/51 (3%) Query: 377 KKDGSQERLLVEDSNLQAPTWSPSGRSLIFSR--KKDGDTGSKLYSIDLNG 425 KDG R+ + P +SP GR + FSR + LY + Sbjct: 66 LKDGKPLRITSGLGVVNNPKFSPDGRKVAFSRVMLGSSLQTADLYVVPSED 116 >gnl|CDD|37350 KOG2139, KOG2139, KOG2139, WD40 repeat protein [General function prediction only]. Length = 445 Score = 33.5 bits (76), Expect = 0.12 Identities = 19/73 (26%), Positives = 33/73 (45%), Gaps = 5/73 (6%) Query: 354 WSPQGDLIAFTKFSGEKFAIGVMKKDGSQERLLVEDSNLQAPTWSPSGRSLIFSRKKDGD 413 WSP GD++ F + + ++ER ++ +Q WSP G L+F+ Sbjct: 246 WSPDGDVLFAATCDA-VFRLWQENQSWTKERWILGSGRVQTACWSPCGSFLLFACSGS-- 302 Query: 414 TGSKLYSIDLNGR 426 +LYS+ +G Sbjct: 303 --PRLYSLTFDGE 313 >gnl|CDD|36659 KOG1446, KOG1446, KOG1446, Histone H3 (Lys4) methyltransferase complex and RNA cleavage factor II complex, subunit SWD2 [RNA processing and modification, Chromatin structure and dynamics, Posttranslational modification, protein turnover, chaperones]. Length = 311 Score = 30.2 bits (68), Expect = 1.2 Identities = 16/60 (26%), Positives = 30/60 (50%), Gaps = 3/60 (5%) Query: 264 RFSSNGKRALISVQKDEA--MDIYSVDLQSNATERLTNTLFINISASYSPDSSQIVFESD 321 FS +GK L+S +D + ++S + N + +SA+++PDS ++ SD Sbjct: 194 EFSPDGKSILLSTNASFIYLLDAFDGTVKSTFSG-YPNAGNLPLSATFTPDSKFVLSGSD 252 >gnl|CDD|38769 KOG3561, KOG3561, KOG3561, Aryl-hydrocarbon receptor nuclear translocator [Transcription]. Length = 803 Score = 30.1 bits (67), Expect = 1.4 Identities = 24/108 (22%), Positives = 40/108 (37%), Gaps = 8/108 (7%) Query: 176 RILFVSESVVSGIIKNSLCVMDRDGANIRYLTPSRDQILFEPRFSPNQQKVAYATYDDED 235 RI++VSESV S + D G ++ + D + SP + + Sbjct: 116 RIVYVSESVTSVL---GYLQSDLMGQSLYDILHPLDNDKPREQLSPRSNEHTFNCR---- 168 Query: 236 ILRVYLMDTRIDRAPKRIGNFRSMILAPRFSSNGKRALISVQKDEAMD 283 L + A K GNF+ + S G ++ I Q+ +A Sbjct: 169 -LLDGKTGPPPEEAVKFYGNFQCFTNSQPKSIEGFQSTICRQRRKAEG 215 >gnl|CDD|35574 KOG0353, KOG0353, KOG0353, ATP-dependent DNA helicase [General function prediction only]. Length = 695 Score = 29.0 bits (64), Expect = 2.5 Identities = 14/45 (31%), Positives = 22/45 (48%), Gaps = 2/45 (4%) Query: 313 SSQIVFESDREGKEQLYVMQSNGSDQKRISQDKEASYFDPVWSPQ 357 SS + E G ++LY M +D + + K A +FD W P+ Sbjct: 473 SSMVQME--NTGIQKLYEMVRYAADISKCRRVKLAEHFDEAWEPE 515 >gnl|CDD|143923 pfam00155, Aminotran_1_2, Aminotransferase class I and II. Length = 351 Score = 29.2 bits (66), Expect = 2.5 Identities = 5/46 (10%), Positives = 11/46 (23%), Gaps = 8/46 (17%) Query: 147 SPASWRKIA--------HTISDDIYQSITGEKGDFNSRILFVSESV 184 K+ + D+ Y D + ++E Sbjct: 154 PLEELEKLLDLAKEHNILLLVDEAYAGFVFGSPDAVATRALLAEGP 199 >gnl|CDD|35514 KOG0293, KOG0293, KOG0293, WD40 repeat-containing protein [Function unknown]. Length = 519 Score = 29.2 bits (65), Expect = 2.6 Identities = 24/112 (21%), Positives = 48/112 (42%), Gaps = 3/112 (2%) Query: 206 LTPSRDQILFEPRFSPNQQKVAYATYDDEDILRVYLMDTRIDRAPKRIGNFRSMILAPRF 265 L D++ F +FS N + +A A+ D I+ + + D +G+ + + + Sbjct: 220 LQDHTDEVWF-LQFSHNGKYLASASKDSTAIIWIVVYDVHFKLKKTLVGHSQP-VSYIMW 277 Query: 266 SSNGKRALISVQKDEAMDIYSVDLQSNATERLTNTLFINISASYSPDSSQIV 317 S + R L++ DE + ++ VD + F S ++ PD + V Sbjct: 278 SPD-DRYLLACGFDEVLSLWDVDTGDLRHLYPSGLGFSVSSCAWCPDGFRFV 328 >gnl|CDD|33024 COG3211, PhoX, Predicted phosphatase [General function prediction only]. Length = 616 Score = 28.8 bits (64), Expect = 3.3 Identities = 26/117 (22%), Positives = 44/117 (37%), Gaps = 16/117 (13%) Query: 319 ESDREGKEQLYVMQSNGSDQK-----RISQDKEASYFDPVWSPQGDLIAFTKFSGEK--- 370 +D + L+V N S + I+ + S + + P G L T SG Sbjct: 467 HTDTKFTWDLFVEAGNPSVLEGGASANINANWFNSPDNLAFDPWGRLWIQTDGSGSTLRN 526 Query: 371 FAIGVMKKD------GSQERLLVED--SNLQAPTWSPSGRSLIFSRKKDGDTGSKLY 419 GV + G+ +R L P +SP G++L + + G+TG+ Sbjct: 527 RFRGVTQMLTPDPKTGTIKRFLTGPIGCEFTGPCFSPDGKTLFVNVQHPGETGTTTN 583 >gnl|CDD|107209 cd06448, L-Ser-dehyd, Serine dehydratase is a pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of L- , D-serine, or L-threonine to pyruvate/ketobutyrate and ammonia.. Length = 316 Score = 28.4 bits (64), Expect = 3.8 Identities = 13/39 (33%), Positives = 20/39 (51%), Gaps = 3/39 (7%) Query: 90 KITNPDSIPRFQDWNSLGAQVLVTGRVIKEGKDRLRVEF 128 + T P + + +D GA V+V G+V E + LR E Sbjct: 83 ESTKPRVVEKLRD---EGATVVVHGKVWWEADNYLREEL 118 >gnl|CDD|100087 cd03085, PGM1, Phosphoglucomutase 1 (PGM1) catalyzes the bidirectional interconversion of glucose-1-phosphate (G-1-P) and glucose-6-phosphate (G-6-P) via a glucose 1,6-diphosphate intermediate, an important metabolic step in prokaryotes and eukaryotes. In one direction, G-1-P produced from sucrose catabolism is converted to G-6-P, the first intermediate in glycolysis. In the other direction, conversion of G-6-P to G-1-P generates a substrate for synthesis of UDP-glucose which is required for synthesis of a variety of cellular constituents including cell wall polymers and glycoproteins. The PGM1 family also includes a non-enzymatic PGM-related protein (PGM-RP) thought to play a structural role in eukaryotes, as well as pp63/parafusin, a phosphoglycoprotein that plays an important role in calcium-regulated exocytosis in ciliated protozoans. PGM1 belongs to the alpha-D-phosphohexomutase superfamily which includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Other members of this superfamily include phosphoglucosamine mutase (PNGM), phosphoacetylglucosamine mutase (PAGM), the bacterial phosphomannomutase ManB, the bacterial phosphoglucosamine mutase GlmM, and the bifunctional phosphomannomutase/phosphoglucomutase (PMM/PGM). Each of these enzymes has four domains with a centrally located active site formed by four loops, one from each domain. All four domains are included in this alignment model.. Length = 548 Score = 28.0 bits (63), Expect = 5.4 Identities = 15/38 (39%), Positives = 18/38 (47%), Gaps = 1/38 (2%) Query: 135 DRKQIIGKKFFSSPA-SWRKIAHTISDDIYQSITGEKG 171 DR I+GK FF +P+ S IA Y G KG Sbjct: 282 DRNMILGKGFFVTPSDSVAVIAANAKLIPYFYKGGLKG 319 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 0.318 0.134 0.385 Gapped Lambda K H 0.267 0.0793 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21609 Number of Hits to DB: 5,304,255 Number of extensions: 278515 Number of successful extensions: 672 Number of sequences better than 10.0: 1 Number of HSP's gapped: 651 Number of HSP's successfully gapped: 38 Length of query: 447 Length of database: 6,263,737 Length adjustment: 97 Effective length of query: 350 Effective length of database: 4,167,664 Effective search space: 1458682400 Effective search space used: 1458682400 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 59 (26.4 bits)