RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddB 21,608 sequences; 5,994,473 total letters Searching..................................................done Query= gi|255764476|ref|YP_003065238.2| two-component sensor histidine kinase protein [Candidatus Liberibacter asiaticus str. psy62] (792 letters) >gnl|CDD|163090 TIGR02966, phoR_proteo, phosphate regulon sensor kinase PhoR. Members of this protein family are the regulatory histidine kinase PhoR associated with the phosphate ABC transporter in most Proteobacteria. Related proteins from Gram-positive organisms are not included in this model. The phoR gene usually is adjacent to the response regulator phoB gene (TIGR02154). Length = 333 Score = 121 bits (306), Expect = 7e-28 Identities = 87/359 (24%), Positives = 148/359 (41%), Gaps = 47/359 (13%) Query: 440 IDHLSEGVAVFGPDGRIKLSNPAFRSL----WKTEENRLSPGTHIRNIAATCSRYYNESD 495 L + V V +G+I+ NPA L W + + I N+ + E Sbjct: 12 AQALPDAVVVLDEEGQIEWCNPAAERLLGLRWPDDLGQ-----RITNLI-----RHPE-- 59 Query: 496 GWDLFAAIITSFDDERKSLQGTLELLS----DSVLEYSIIPLPNAQTMLTFVNVTDSVRA 551 F + + LEL S + VLE I P Q +L +VT R Sbjct: 60 ----FVEYLAAGRFSE-----PLELPSPINSERVLEIRIAPYGEEQKLLVARDVTRLRRL 110 Query: 552 ERALTEKNEALRKADEIKNSFVQHVSYELRSPLTNIIGFTDLLKTSKLGSLNSKQSQYVE 611 E+ +R+ FV +VS+ELR+PLT + G+ + L + ++ +E Sbjct: 111 EQ--------MRR------DFVANVSHELRTPLTVLRGYLETLADGPD-EDPEEWNRALE 155 Query: 612 YISASSTILLNLVNDILDLATVDAGIMKLNYSTIVLNDLLNEVKQSIATKMHENNIRIKV 671 + S + +LV D+L L+ +++ L + + LL+ ++ N +I Sbjct: 156 IMLEQSQRMQSLVEDLLTLSRLESAASPLEDEPVDMPALLDHLRDEAEALSQGKNHQITF 215 Query: 672 ISDGKLGSFVADRQRLLQIFSKILSNAMDFSSKGSTVILKAARDNGDFIFSVKNNGSSIP 731 DG + D L FS ++SNA+ ++ +G T+ ++ RD G FSV + G I Sbjct: 216 EIDGGVDVL-GDEDELRSAFSNLVSNAIKYTPEGGTITVRWRRDGGGAEFSVTDTGIGIA 274 Query: 732 EDMCKSVFNRF--VSNAHRGQRRGVGLGLSIVESFINLHGGHVSISSSDEGVTTINCRI 788 + + RF V + G GLGL+IV+ ++ H + I S +T + Sbjct: 275 PEHLPRLTERFYRVDKSRSRDTGGTGLGLAIVKHVLSRHHARLEIESELGKGSTFSFIF 333 >gnl|CDD|163083 TIGR02956, TMAO_torS, TMAO reductase sytem sensor TorS. This protein, TorS, is part of a regulatory system for the torCAD operon that encodes the pterin molybdenum cofactor-containing enzyme trimethylamine-N-oxide (TMAO) reductase (TorA), a cognate chaperone (TorD), and a penta-haem cytochrome (TorC). TorS works together with the inducer-binding protein TorT and the response regulator TorR. TorS contains histidine kinase ATPase (pfam02518), HAMP (pfam00672), phosphoacceptor (pfam00512), and phosphotransfer (pfam01627) domains and a response regulator receiver domain (pfam00072). Length = 968 Score = 117 bits (295), Expect = 1e-26 Identities = 61/214 (28%), Positives = 121/214 (56%), Gaps = 4/214 (1%) Query: 564 KADEIKNSFVQHVSYELRSPLTNIIGFTDLLKTSKLGSLNSKQSQYVEYISASSTILLNL 623 +A+ K++F+ +S+E+R+PL I+G +LL + L S+Q QY++ I+ S LL++ Sbjct: 459 EANRAKSAFLATMSHEIRTPLNGILGTLELLGDTGL---TSQQQQYLQVINRSGESLLDI 515 Query: 624 VNDILDLATVDAGIMKLNYSTIVLNDLLNEVKQSIATKMHENNIRIKVISDGKLGSF-VA 682 +NDILD + ++AG + ++ LN LL++V + ++ I++++ +L ++ Sbjct: 516 LNDILDYSKIEAGHLSISPRPFDLNALLDDVHHLMVSRAQLKGIQLRLNIPEQLPNWWQG 575 Query: 683 DRQRLLQIFSKILSNAMDFSSKGSTVILKAARDNGDFIFSVKNNGSSIPEDMCKSVFNRF 742 D R+ Q+ ++ NA+ F+ +GS V+ + D+ +F V++ G I E+ ++F+ F Sbjct: 576 DGPRIRQVLINLVGNAIKFTDRGSVVLRVSLNDDSSLLFEVEDTGCGIAEEEQATLFDAF 635 Query: 743 VSNAHRGQRRGVGLGLSIVESFINLHGGHVSISS 776 R + G GLGL+I + + G + + S Sbjct: 636 TQADGRRRSGGTGLGLAISQRLVEAMDGELGVES 669 >gnl|CDD|162333 TIGR01386, cztS_silS_copS, heavy metal sensor kinase. Members of this family contain a sensor histidine kinase domain (Pfam:PF00512) and a domain found in bacterial signal proteins (Pfam:PF00672). This group is separated phylogenetically from related proteins with similar architecture and contains a number of proteins associated with heavy metal resistance efflux systems for copper, silver, cadmium, and/or zinc. Length = 457 Score = 103 bits (258), Expect = 2e-22 Identities = 70/224 (31%), Positives = 105/224 (46%), Gaps = 14/224 (6%) Query: 571 SFVQHVSYELRSPLTNIIGFTDLLKTSKLGSLNSKQSQYVEYISASSTILLNL---VNDI 627 F +++ELR+PLTN++G T + S +Y E + ++ L L V+D+ Sbjct: 243 QFSADLAHELRTPLTNLLGQTQVAL-----SQPRTGEEYREVLESNLEELERLSRMVSDM 297 Query: 628 LDLATVDAGIMKLNYSTIVLNDLLNEVKQSIATKMHENNIRIKVISDGKLGSFVADRQRL 687 L LA D G + L + L L +V + E +RI+V +G + D Q Sbjct: 298 LFLARADNGQLALERVRLDLAAELAKVAEYFEPLAEERGVRIRVEGEGLV---RGDPQMF 354 Query: 688 LQIFSKILSNAMDFSSKGSTVILKAARDNGDFIFSVKNNGSSIPEDMCKSVFNRF--VSN 745 + S +LSNA+ + G T+ ++ R + + SV N G IP + +F+RF V Sbjct: 355 RRAISNLLSNALRHTPDGGTITVRIERRSDEVRVSVSNPGPGIPPEHLSRLFDRFYRVDP 414 Query: 746 AHRGQRRGVGLGLSIVESFINLHGGHVSISSSDEGVTTINCRIP 789 A G GLGL+IV S + HGG S S D G T R P Sbjct: 415 ARSNSGEGTGLGLAIVRSIMEAHGGRASAESPD-GKTRFILRFP 457 >gnl|CDD|185245 PRK15347, PRK15347, two component system sensor kinase SsrA; Provisional. Length = 921 Score = 103 bits (258), Expect = 2e-22 Identities = 59/229 (25%), Positives = 110/229 (48%), Gaps = 9/229 (3%) Query: 551 AER--ALTEKNEALRKADEIKNSFVQHVSYELRSPLTNIIGFTDLLKTSKLGSLNSKQSQ 608 AER AL E + +A++ K+ + +S+E+R+PL ++G +LL+ + L ++Q Sbjct: 378 AERTQALAEAKQRAEQANKRKSEHLTTISHEIRTPLNGVLGALELLQNT---PLTAEQMD 434 Query: 609 YVEYISASSTILLNLVNDILDLATVDAGIMKLNYSTIVLNDLLNEVKQSIATKMHENNIR 668 + + LL ++N++LD + +++G M L+ L LL++ +I ++ Sbjct: 435 LADTARQCTLSLLAIINNLLDFSRIESGQMTLSLEETALLPLLDQAMLTIQGPAQSKSLT 494 Query: 669 IKV-ISDGKLGSFVADRQRLLQIFSKILSNAMDFSSKGSTVILKAARDNGDFIFSVKNNG 727 ++ + D RL QI +L NA+ F+ G + L+ R F+V++ G Sbjct: 495 LRTFVGAHVPLYLHLDSLRLRQILVNLLGNAVKFTETGG-IRLRVKRHEQQLCFTVEDTG 553 Query: 728 SSIPEDMCKSVFNRFVSNAHRGQRRGVGLGLSIVESFINLHGGHVSISS 776 I + +F F Q G GLGL+I S + GG +++ S Sbjct: 554 CGIDIQQQQQIFTPFYQADTHSQ--GTGLGLTIASSLAKMMGGELTLFS 600 >gnl|CDD|182956 PRK11091, PRK11091, aerobic respiration control sensor protein ArcB; Provisional. Length = 779 Score = 101 bits (255), Expect = 5e-22 Identities = 65/232 (28%), Positives = 123/232 (53%), Gaps = 12/232 (5%) Query: 553 RALTEKN---EALRKADEIKNSFVQHVSYELRSPLTNIIGFTDLLKTSKLGSLNSKQSQY 609 R +TE+ +AL KA K +F+ +S+ELR+PL I+G + +L ++L ++Q +Y Sbjct: 264 RDITERKRYQDALEKASRDKTTFISTISHELRTPLNGIVGLSRILLDTEL---TAEQRKY 320 Query: 610 VEYISASSTILLNLVNDILDLATVDAGIMKLNYSTIVLNDLLNEVKQSIATKMHE-NNIR 668 ++ I S+ L N+ NDI+D+ ++ ++L+ I D L +++ +++ E +R Sbjct: 321 LKTIHVSAITLGNIFNDIIDMDKMERRKLQLDNQPIDFTDFLADLE-NLSGLQAEQKGLR 379 Query: 669 IKVISDGKLGSFV-ADRQRLLQIFSKILSNAMDFSSKGSTVILKAARDNGDFIFSVKNNG 727 + L V D RL QI ++SNA+ F+ +G + + F V+++G Sbjct: 380 FDLEPLLPLPHKVITDGTRLRQILWNLISNAVKFTQQGGVTVRVRYEEGDMLTFEVEDSG 439 Query: 728 SSIPEDMCKSVFNRF--VSNAHRGQRR-GVGLGLSIVESFINLHGGHVSISS 776 IPED +F + V ++H G+ G G+GL++ + GG ++++S Sbjct: 440 IGIPEDELDKIFAMYYQVKDSHGGKPATGTGIGLAVSKRLAQAMGGDITVTS 491 >gnl|CDD|183148 PRK11466, PRK11466, hybrid sensory histidine kinase TorS; Provisional. Length = 914 Score = 100 bits (251), Expect = 1e-21 Identities = 70/248 (28%), Positives = 125/248 (50%), Gaps = 25/248 (10%) Query: 550 RAERALTEKNEALRKADEIKNSFVQHVSYELRSPLTNIIGFTDLLKTSKLGSLNSKQSQY 609 R RA EK A + K++F+ +S+E+R+PL I+G LL + + Q Sbjct: 431 RQARAEAEK------ASQAKSAFLAAMSHEIRTPLYGILGTAQLLADNP---ALNAQRDD 481 Query: 610 VEYISASSTILLNLVNDILDLATVDAGIMKLNYSTIVLND-------LLNEVKQSIATKM 662 + I+ S LL ++NDILD + ++AG + ++D LL Q ++ ++ Sbjct: 482 LRAITDSGESLLTILNDILDYSAIEAG-----GKNVSVSDEPFEPRPLLESTLQLMSGRV 536 Query: 663 HENNIRIKV-ISDGKLGSFVADRQRLLQIFSKILSNAMDFSSKGSTVILKAARDNGDFIF 721 IR+ I+D + + D +R+ Q+ + +LSNA+ F+ +GS ++L++ D ++ Sbjct: 537 KGRPIRLATDIADDLPTALMGDPRRIRQVITNLLSNALRFTDEGS-IVLRSRTDGEQWLV 595 Query: 722 SVKNNGSSIPEDMCKSVFNRFVSNAHRGQRRGVGLGLSIVESFINLHGGHVSISSSDEGV 781 V+++G I +F FV + G+R G GLGL+I GG +S +S+ E Sbjct: 596 EVEDSGCGIDPAKLAEIFQPFVQVS--GKRGGTGLGLTISSRLAQAMGGELSATSTPEVG 653 Query: 782 TTINCRIP 789 + R+P Sbjct: 654 SCFCLRLP 661 >gnl|CDD|182962 PRK11100, PRK11100, sensory histidine kinase CreC; Provisional. Length = 475 Score = 100 bits (251), Expect = 2e-21 Identities = 65/228 (28%), Positives = 105/228 (46%), Gaps = 15/228 (6%) Query: 560 EALRKADEIKN---SFVQHVSYELRSPLTNIIGFTDLLKTSKLGSLNSKQSQ-YVEYISA 615 E++R E K +VQ +++EL+SPL I G +LL+ + + I Sbjct: 244 ESMRVKLEGKAYVEQYVQTLTHELKSPLAAIRGAAELLQ----EDPPPEDRARFTGNILT 299 Query: 616 SSTILLNLVNDILDLATVDA--GIMKLNYSTIVLNDLLNEVKQSIATKMHENNIRIKVIS 673 S L L++ +L+LA ++ + L + L LL E+ ++ + I +++ Sbjct: 300 QSARLQQLIDRLLELARLEQRQELEVL--EPVALAALLEELVEAREAQAAAKGITLRLRP 357 Query: 674 DGKLGSFVADRQRLLQIFSKILSNAMDFSSKGSTVILKAARDNGDFIFSVKNNGSSIPED 733 D + D L Q +L NA+DFS +G T+ L A D SV++ G IP+ Sbjct: 358 DD--ARVLGDPFLLRQALGNLLDNAIDFSPEGGTITLSAEVDGEQVALSVEDQGPGIPDY 415 Query: 734 MCKSVFNRFVSNAHR-GQRRGVGLGLSIVESFINLHGGHVSISSSDEG 780 +F RF S R+ GLGL+ V LHGG V++ + EG Sbjct: 416 ALPRIFERFYSLPRPANGRKSTGLGLAFVREVARLHGGEVTLRNRPEG 463 >gnl|CDD|182772 PRK10841, PRK10841, hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional. Length = 924 Score = 97.7 bits (244), Expect = 9e-21 Identities = 81/260 (31%), Positives = 130/260 (50%), Gaps = 27/260 (10%) Query: 543 VNVTDSVRAERALTEKNEALRKADEIKNSFVQHVSYELRSPLTNIIGFTDLLKTSKLGSL 602 V+V+ V+ E +L E +A +A + K+ F+ VS+ELR+PL IIG DLL+T L Sbjct: 421 VDVSARVKMEESLQEMAQAAEQASQSKSMFLATVSHELRTPLYGIIGNLDLLQTK---EL 477 Query: 603 NSKQSQYVEYISASSTILLNLVNDILDLATVDAGIMKLN---------YSTIVLNDLLNE 653 + V ++ SS++LL +++DILD + +++ +K+ + I N L Sbjct: 478 PKGVDRLVTAMNNSSSLLLKIISDILDFSKIESEQLKIEPREFSPREVINHITANYLPLV 537 Query: 654 VKQSIATKMH-ENNIRIKVISDGKLGSFVADRQRLLQIFSKILSNAMDFSSKGSTVILKA 712 VK+ + E + + V +G D RL Q+ S +LSNA+ F+ G ++L Sbjct: 538 VKKRLGLYCFIEPD--VPVALNG-------DPMRLQQVISNLLSNAIKFTDTGC-IVLHV 587 Query: 713 ARDNGDFIFSVKNNGSSIPEDMCKSVFNRFVSNAHRGQR--RGVGLGLSIVESFINLHGG 770 D F V++ G IP +F+ F QR +G GLGL+I E IN+ G Sbjct: 588 RVDGDYLSFRVRDTGVGIPAKEVVRLFDPFFQVGTGVQRNFQGTGLGLAICEKLINMMDG 647 Query: 771 HVSISSSDEGVTTI-NCRIP 789 +S+ S G+ + RIP Sbjct: 648 DISVDSE-PGMGSQFTIRIP 666 >gnl|CDD|128669 smart00387, HATPase_c, Histidine kinase-like ATPases. Histidine kinase-, DNA gyrase B-, phytochrome-like ATPases. Length = 111 Score = 96.2 bits (240), Expect = 3e-20 Identities = 36/109 (33%), Positives = 57/109 (52%), Gaps = 1/109 (0%) Query: 682 ADRQRLLQIFSKILSNAMDFSSKGSTVILKAARDNGDFIFSVKNNGSSIPEDMCKSVFNR 741 D RL Q+ S +L NA+ ++ +G + + RD +V++NG IP + + +F Sbjct: 1 GDPDRLRQVLSNLLDNAIKYTPEGGRITVTLERDGDHLEITVEDNGPGIPPEDLEKIFEP 60 Query: 742 FVS-NAHRGQRRGVGLGLSIVESFINLHGGHVSISSSDEGVTTINCRIP 789 F + + G GLGLSIV+ + LHGG +S+ S G TT +P Sbjct: 61 FFRTDGRSRKIGGTGLGLSIVKKLVELHGGEISVESEPGGGTTFTITLP 109 >gnl|CDD|182968 PRK11107, PRK11107, hybrid sensory histidine kinase BarA; Provisional. Length = 919 Score = 94.9 bits (237), Expect = 8e-20 Identities = 77/255 (30%), Positives = 120/255 (47%), Gaps = 36/255 (14%) Query: 553 RALTEKNEALRKADEIKNSFVQHVSYELRSPLTNIIGFT-DLLKTSKLGSLNSKQSQYVE 611 RA EA R IK+ F+ ++S+ELR+PL +IGFT LKT L Q Y++ Sbjct: 285 RAQ----EAAR----IKSEFLANMSHELRTPLNGVIGFTRQTLKTP----LTPTQRDYLQ 332 Query: 612 YISASSTILLNLVNDILDLATVDAGIMKLNYSTIVLNDLLNEVKQSIATKMHENNIRIKV 671 I S+ LL ++NDILD + ++AG + L L + L+EV +A HE + + + Sbjct: 333 TIERSANNLLAIINDILDFSKLEAGKLVLENIPFSLRETLDEVVTLLAHSAHEKGLELTL 392 Query: 672 ISDGKL-GSFVADRQRLLQIFSKILSNAMDFSSKGSTVI---LKAARDNG-DFIFSVKNN 726 D + + + D RL QI + ++ NA+ F+ G+ I L+A + +++ Sbjct: 393 NIDPDVPDNVIGDPLRLQQIITNLVGNAIKFTESGNIDILVELRALSNTKVQLEVQIRDT 452 Query: 727 GSSIPEDMCKSVFNRFVSNAHRGQ------RR--GVGLGLSIVESFINLHGGHVSISSS- 777 G I E +F F Q RR G GLGL I + +N GG +S S Sbjct: 453 GIGISERQQSQLFQAF------RQADASISRRHGGTGLGLVITQKLVNEMGGDISFHSQP 506 Query: 778 DEGVT---TINCRIP 789 + G T + + Sbjct: 507 NRGSTFWFHLPLDLN 521 >gnl|CDD|183098 PRK11360, PRK11360, sensory histidine kinase AtoS; Provisional. Length = 607 Score = 90.4 bits (225), Expect = 1e-18 Identities = 79/390 (20%), Positives = 154/390 (39%), Gaps = 68/390 (17%) Query: 430 NTLVKVQGET---IDHLSEGVAVFGPDGRIKLSNPAFRSLWKTEENRL---------SPG 477 L + + ++ +++GV G+I NPA + + + L P Sbjct: 255 QALRETRSLNELILESIADGVIAIDRQGKITTMNPAAEVITGLQRHELVGKPYSELFPPN 314 Query: 478 THIRNIAATCSRYYNESDGWDLFAAIITSFDDERKSLQGTLELLSDSVLEYSIIPLPNAQ 537 T + G + + T+EL + S++ + + Sbjct: 315 TPFASPLLDTLE-----HGTE-----HVDLEISFPGRDRTIELSVST----SLLHNTHGE 360 Query: 538 TM---LTFVNVTDSVRAERAL--TEKNEALRKADEIKNSFVQHVSYELRSPLTNIIGFTD 592 + + F ++T+ R +R + E+ AL + V V++E+R+PLT I G+ Sbjct: 361 MIGALVIFSDLTERKRLQRRVARQERLAALGE-------LVAGVAHEIRNPLTAIRGYVQ 413 Query: 593 LLKTSKLGSLNSKQSQYVEYISASSTIL-----LN-LVNDILDLATVDAGIMKLNYSTIV 646 + + +Q+ S +L LN +++ +L+ + + S Sbjct: 414 IWR---------QQTSDPPSQEYLSVVLREVDRLNKVIDQLLEFS-------RPRESQWQ 457 Query: 647 ---LNDLLNEVKQSIATKMHENNIRIKVISDGKLGSFVADRQRLLQIFSKILSNAMDFSS 703 LN L+ EV Q T + + + D +L AD + L Q+ IL NA+ S Sbjct: 458 PVSLNALVEEVLQLFQTAGVQARVDFETELDNELPPIWADPELLKQVLLNILINAVQAIS 517 Query: 704 KGSTVILKAARD-NGDFIFSVKNNGSSIPEDMCKSVFNRFVSNAHRGQRRGVGLGLSIVE 762 + ++ + +G S+++NG I ++ K +F+ F + + +G GLGL++ + Sbjct: 518 ARGKIRIRTWQYSDGQVAVSIEDNGCGIDPELLKKIFDPFFTT----KAKGTGLGLALSQ 573 Query: 763 SFINLHGGHVSISSSDEGVTTINCRIPSKE 792 IN HGG + + S TT +P Sbjct: 574 RIINAHGGDIEVESEPGVGTTFTLYLPINP 603 >gnl|CDD|182496 PRK10490, PRK10490, sensor protein KdpD; Provisional. Length = 895 Score = 87.8 bits (218), Expect = 1e-17 Identities = 63/256 (24%), Positives = 116/256 (45%), Gaps = 15/256 (5%) Query: 533 LPNAQTMLTFVNVTDSVRAER-ALTEKNEALRKADE---IKNSFVQHVSYELRSPLTNII 588 +P Q +L + + ER LT E R A E ++N+ + +S++LR+PLT + Sbjct: 624 IPEQQRLLETFTLLIANALERLTLTASEEQARLASEREQLRNALLAALSHDLRTPLTVLF 683 Query: 589 GFTDLLKTSKLGSLNSKQSQYVEYISASSTILLNLVNDILDLATVDAGIMKLNYSTIVLN 648 G ++L T L S S ++ I LVN++LD+A + +G L + L Sbjct: 684 GQAEIL-TLDLASEGSPHARQASEIRQQVLNTTRLVNNLLDMARIQSGGFNLRKEWLTLE 742 Query: 649 DLLNEVKQSIATKMHENNIRIKVISDGKLGSFVADRQRLLQIFSKILSNAMDFSSKGSTV 708 +++ Q + + + I + + L D ++ +L NA+ ++ + + Sbjct: 743 EVVGSALQMLEPGLSGHPINLSLPEPLTL--IHVDGPLFERVLINLLENAVKYAGAQAEI 800 Query: 709 ILKAARDNGDFIFSVKNNGSSIPEDMCKSVFNRFVSNAHRGQRR----GVGLGLSIVESF 764 + A + V +NG IP + +F++F RG + GVGLGL+I + Sbjct: 801 GIDAHVEGERLQLDVWDNGPGIPPGQEQLIFDKFA----RGNKESAIPGVGLGLAICRAI 856 Query: 765 INLHGGHVSISSSDEG 780 + +HGG + + EG Sbjct: 857 VEVHGGTIWAENRPEG 872 >gnl|CDD|182169 PRK09959, PRK09959, hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional. Length = 1197 Score = 83.2 bits (205), Expect = 2e-16 Identities = 70/241 (29%), Positives = 120/241 (49%), Gaps = 14/241 (5%) Query: 557 EKNEALRKADEIKNSFVQHVSYELRSPLTNIIGFTDLLKTSKLGSLNSKQSQYVEYIS-- 614 E+N+A+ A K+ F+ +S+E+R+P+++I+GF +LL S L + Q VE IS Sbjct: 701 ERNKAI-NATVAKSQFLATMSHEIRTPISSIMGFLELLSGSGL-----SKEQRVEAISLA 754 Query: 615 -ASSTILLNLVNDILDLATVDAGIMKLNYSTIVLNDLLNEVKQSIATKMHENNIRIKVIS 673 A+ LL L+ +ILD+ +++G +L + + L+ S +I + S Sbjct: 755 YATGQSLLGLIGEILDVDKIESGNYQLQPQWVDIPTLVQNTCHSFGAIAASKSIALSCSS 814 Query: 674 DGKLGSFVA-DRQRLLQIFSKILSNAMDFSSKGS---TVILKAARDNGDFI-FSVKNNGS 728 V D Q Q+ S +LSNA+ F+++G+ T L DN I ++ ++GS Sbjct: 815 TFPDHYLVKIDPQAFKQVLSNLLSNALKFTTEGAVKITTSLGHIDDNHAVIKMTIMDSGS 874 Query: 729 SIPEDMCKSVFNRFVSNAHRGQRRGVGLGLSIVESFINLHGGHVSISSSDEGVTTINCRI 788 + ++ + +F R+ + Q+ G GLGL I + I G +S+ S TT I Sbjct: 875 GLSQEEQQQLFKRYSQTSAGRQQTGSGLGLMICKELIKNMQGDLSLESHPGIGTTFTITI 934 Query: 789 P 789 P Sbjct: 935 P 935 >gnl|CDD|182539 PRK10549, PRK10549, signal transduction histidine-protein kinase BaeS; Provisional. Length = 466 Score = 71.2 bits (175), Expect = 1e-12 Identities = 54/243 (22%), Positives = 107/243 (44%), Gaps = 23/243 (9%) Query: 557 EKNEALRKADEIKNSFVQHVSYELRSPLTNIIG----FTDLLKTSKLGSLNSKQSQYVEY 612 EKNE +R+ F+ +S+ELR+PL + G D ++ S+ S Q Sbjct: 234 EKNEQMRRD------FMADISHELRTPLAVLRGELEAIQDGVRKFTPESVASLQ------ 281 Query: 613 ISASSTILLNLVNDILDLATVDAGIMKLNYSTIVLNDLLNEVKQSIATKMHENNIRIKVI 672 A L LV+D+ L+ D G + + + L LL + + + +++ Sbjct: 282 --AEVGTLTKLVDDLHQLSLSDEGALAYRKTPVDLVPLLEVAGGAFRERFASRGLTLQL- 338 Query: 673 SDGKLGSFVADRQRLLQIFSKILSNAMDFSSKGSTVILKAARDNGDFIFSVKNNGSSIPE 732 S + D RL+Q+F+ +L N++ ++ G ++ + A + + + ++ + + Sbjct: 339 SLPDSATVFGDPDRLMQLFNNLLENSLRYTDSGGSLHISAEQRDKTLRLTFADSAPGVSD 398 Query: 733 DMCKSVFNRFVSNAHRGQRR---GVGLGLSIVESFINLHGGHVSISSSDEGVTTINCRIP 789 + + +F RF + R G GLGL+I + + H G + + S G +I +P Sbjct: 399 EQLQKLFERFY-RTEGSRNRASGGSGLGLAICLNIVEAHNGRIIAAHSPFGGVSITVELP 457 Query: 790 SKE 792 + Sbjct: 458 LER 460 >gnl|CDD|182101 PRK09835, PRK09835, sensor kinase CusS; Provisional. Length = 482 Score = 69.0 bits (169), Expect = 5e-12 Identities = 50/210 (23%), Positives = 98/210 (46%), Gaps = 12/210 (5%) Query: 572 FVQHVSYELRSPLTNIIGFTDLLKTSKLGSLNSKQSQYVEYISAS---STILLNLVNDIL 628 F +++E+R+P+TN+I T++ S + Q + + + ++ T + +V+D+L Sbjct: 265 FSADIAHEIRTPITNLITQTEIAL-----SQSRSQKELEDVLYSNLEELTRMAKMVSDML 319 Query: 629 DLATVDAGIMKLNYSTIVLNDLLNEVKQSIATKMHENNIRIKVISDGKLGSFVADRQRLL 688 LA D + + L D + +V E + ++ G D L Sbjct: 320 FLAQADNNQLIPEKKMLDLADEVGKVFDFFEAWAEERGVELRF--VGDPCQVAGDPLMLR 377 Query: 689 QIFSKILSNAMDFSSKGSTVILKAARDNGDFIFSVKNNGSSIPEDMCKSVFNRFVSNAHR 748 + S +LSNA+ ++ G + ++ + V+N G+ I + +F+RF Sbjct: 378 RAISNLLSNALRYTPAGEAITVRCQEVDHQVQLVVENPGTPIAPEHLPRLFDRFYRVDPS 437 Query: 749 GQRR--GVGLGLSIVESFINLHGGHVSISS 776 QR+ G G+GL+IV+S + H G V+++S Sbjct: 438 RQRKGEGSGIGLAIVKSIVVAHKGTVAVTS 467 >gnl|CDD|163497 TIGR03785, marine_sort_HK, proteobacterial dedicated sortase system histidine kinase. This histidine kinase protein is paired with an adjacent response regulator (TIGR03787) gene. It co-occurs with a variant sortase enzyme (TIGR03784), usually in the same gene neighborhood, in proteobacterial species most of which are marine, and with an LPXTG motif-containing sortase target conserved protein (TIGR03788). Sortases and LPXTG proteins are far more common in Gram-positive bacteria, where sortase systems mediate attachment to the cell wall or cross-linking of pilin structures. We give this predicted sensor histidine kinase the gene symbol psdS, for Proteobacterial Dedicated Sortase system Sensor histidine kinase. Length = 703 Score = 68.2 bits (167), Expect = 8e-12 Identities = 43/218 (19%), Positives = 94/218 (43%), Gaps = 13/218 (5%) Query: 571 SFVQHVSYELRSPLTNIIGFTDLLKTSKLGSLNSKQSQYVEYISASSTILLNLVNDILDL 630 + +S+ELR+P+ + + L+ L +L ++ +Y+E + L ++N++ + Sbjct: 487 NMSSRLSHELRTPVAVVRSSLENLE---LQALEQEKQKYLERAREGTERLSMILNNMSEA 543 Query: 631 ATVDAGIMKLNYSTIVLNDLLNEVKQSIATKMHENNIRIKVISDGKLGSFVADRQRLLQI 690 ++ I L+++L+ Q + + + + + Q+ Sbjct: 544 TRLEQAIQSAEVEDFDLSEVLSGCMQGYQMTYPPQRFELNIPETPLVMRGSPEL--IAQM 601 Query: 691 FSKILSNAMDFSSKGSTVILKAARDNGDFIFSVKNNGSSIPEDMCKSVFNRFVS----NA 746 K++ NA +FS + + + +++ + +V N G +PEDM + +F+ VS A Sbjct: 602 LDKLVDNAREFSPEDGLIEVGLSQNKSHALLTVSNEGPPLPEDMGEQLFDSMVSVRDQGA 661 Query: 747 HRGQRRGVGLGLSIVESFINLHGGHVSI--SSSDEGVT 782 +GLGL IV + H G + ++GV Sbjct: 662 QDQPH--LGLGLYIVRLIADFHQGRIQAENRQQNDGVV 697 >gnl|CDD|182411 PRK10364, PRK10364, sensor protein ZraS; Provisional. Length = 457 Score = 66.7 bits (163), Expect = 2e-11 Identities = 47/203 (23%), Positives = 97/203 (47%), Gaps = 14/203 (6%) Query: 576 VSYELRSPLTNIIGF-TDLLKTSKLGSLNSKQSQYVEYISASSTILLN-LVNDILDLATV 633 V++E+R+PL++I G + + G ++ + + A LN +V+++L+L Sbjct: 244 VAHEIRNPLSSIKGLAKYFAERAPAGG----EAHQLAQVMAKEADRLNRVVSELLELVKP 299 Query: 634 DAGIMKLNYSTIVLNDLLNEVKQSIATKMHENNIRIKVISDGKLGSFVADRQRLLQIFSK 693 L + LNDL+N Q ++ + I+++ ++ L AD RL Q+ Sbjct: 300 T----HLALQAVDLNDLINHSLQLVSQDANSREIQLRFTANDTLPEIQADPDRLTQVLLN 355 Query: 694 ILSNAMDFSSKGSTVILKAARDNGDFIFSVKNNGSSIPEDMCKSVFNRFVSNAHRGQRRG 753 + NA+ + + + A+ SV ++G I D +++F + + + + G Sbjct: 356 LYLNAIQAIGQHGVISVTASESGAGVKISVTDSGKGIAADQLEAIFTPYFTT--KAE--G 411 Query: 754 VGLGLSIVESFINLHGGHVSISS 776 GLGL++V + + HGG + ++S Sbjct: 412 TGLGLAVVHNIVEQHGGTIQVAS 434 >gnl|CDD|128670 smart00388, HisKA, His Kinase A (phosphoacceptor) domain. Dimerisation and phosphoacceptor domain of histidine kinases. Length = 66 Score = 64.1 bits (157), Expect = 1e-10 Identities = 29/68 (42%), Positives = 49/68 (72%), Gaps = 3/68 (4%) Query: 569 KNSFVQHVSYELRSPLTNIIGFTDLLKTSKLGSLNSKQSQYVEYISASSTILLNLVNDIL 628 K F+ ++S+ELR+PLT I G+ +LL+ ++ L+ +Q +Y+E I S+ LL L+ND+L Sbjct: 2 KREFLANLSHELRTPLTAIRGYLELLEDTE---LSEEQREYLETILRSAERLLRLINDLL 58 Query: 629 DLATVDAG 636 DL+ ++AG Sbjct: 59 DLSRIEAG 66 >gnl|CDD|182895 PRK11006, phoR, phosphate regulon sensor protein; Provisional. Length = 430 Score = 63.5 bits (155), Expect = 2e-10 Identities = 68/276 (24%), Positives = 122/276 (44%), Gaps = 46/276 (16%) Query: 517 TLELLSDSVLEYSIIPLPNAQTMLTFVNVTDSVRAERALTEKNEALRKADEIKNSFVQHV 576 TL L + LE ++P Q ++ +VT + + + + +F +V Sbjct: 166 TLVLNNGRHLEIRVMPYTEGQLLMVARDVTQ--------------MHQLEGARRNFFANV 211 Query: 577 SYELRSPLTNIIGFTDLLKTSKL-GSLNSK-------QSQYVEYISASSTILLNLVNDIL 628 S+ELR+PLT + G+ ++++ L G+L K Q+Q +E LV +L Sbjct: 212 SHELRTPLTVLQGYLEMMQDQPLEGALREKALHTMREQTQRME----------GLVKQLL 261 Query: 629 DLATVDAGIMKLNYSTIVLNDLLN-----EVKQSIATKMHENNIRIKVISDGKLGSFVAD 683 L+ ++A TI LN+ ++ V + A + + I D L F + Sbjct: 262 TLSKIEAA------PTIDLNEKVDVPMMLRVLEREAQTLSQGKHTITFEVDNSLKVF-GN 314 Query: 684 RQRLLQIFSKILSNAMDFSSKGSTVILKAARDNGDFIFSVKNNGSSIPEDMCKSVFNRF- 742 +L S ++ NA++ + +G+ + ++ R FSV++NG I + + RF Sbjct: 315 EDQLRSAISNLVYNAVNHTPEGTHITVRWQRVPQGAEFSVEDNGPGIAPEHIPRLTERFY 374 Query: 743 -VSNAHRGQRRGVGLGLSIVESFINLHGGHVSISSS 777 V A Q G GLGL+IV+ ++ H + I S Sbjct: 375 RVDKARSRQTGGSGLGLAIVKHALSHHDSRLEIESE 410 >gnl|CDD|182583 PRK10604, PRK10604, sensor protein RstB; Provisional. Length = 433 Score = 63.5 bits (155), Expect = 2e-10 Identities = 54/221 (24%), Positives = 94/221 (42%), Gaps = 20/221 (9%) Query: 576 VSYELRSPLTNI---IGFTDLLKTSKLGSLNSKQSQYVEYISASSTILLNLVNDILDLAT 632 +++ELR+PL + + +D L ++ +LN Q L L+ ++L A Sbjct: 219 IAHELRTPLVRLRYRLEMSDNLSAAESQALNRDIGQ-----------LEALIEELLTYAR 267 Query: 633 VDAGIMKLNYSTIVLNDLLNEVKQSIATKMHENNIRIKVISDGKLGSFVADRQRLLQIFS 692 +D +L+ S L L+ I E +R+ G G D + + ++ Sbjct: 268 LDRPQNELHLSEPDLPAWLSTHLADIQAVTPEKTVRLDTPHQGDYG--ALDMRLMERVLD 325 Query: 693 KILSNAMDFSSKGSTVILKAARDNGDFIFSVKNNGSSIPEDMCKSVFNRFVS-NAHRGQR 751 +L+NA+ ++ S V + D V+++G IP + + VF FV + R + Sbjct: 326 NLLNNALRYA--HSRVRVSLLLDGNQACLIVEDDGPGIPPEERERVFEPFVRLDPSRDRA 383 Query: 752 RG-VGLGLSIVESFINLHGGHVSISSSDEGVTTINCRIPSK 791 G GLGL+IV S GG V+ S+ G + P Sbjct: 384 TGGCGLGLAIVHSIALAMGGSVNCDESELGGARFSFSWPVW 424 >gnl|CDD|181772 PRK09303, PRK09303, adaptive-response sensory kinase; Validated. Length = 380 Score = 54.6 bits (132), Expect = 1e-07 Identities = 56/235 (23%), Positives = 104/235 (44%), Gaps = 33/235 (14%) Query: 555 LTEKNEALRKADEIKNSFVQHVSYELRSPLT-----------NIIGFTDLLKTSKLGSLN 603 L ++NE L + + K+ + ++++LR+PLT I LK + + L Sbjct: 137 LRQENETLLEQLKFKDRVLAMLAHDLRTPLTAASLALETLELGQIDEDTELKPALIEQLQ 196 Query: 604 SKQSQYVEYISASSTILLNLVNDILDLATVDAGIMKLNYSTIVLNDLLNEVKQSIATKMH 663 + + +E I T D+L++ ++ N + L L EV + + Sbjct: 197 DQARRQLEEIERLIT-------DLLEVGRTRWEALRFNPQKLDLGSLCQEVILELEKRWL 249 Query: 664 ENNIRIK--VISDGKLGSFVADRQRLLQIFSKILSNAMDFSSKGSTVILKAA-RDNGDFI 720 ++ I+ + SD L S AD++R+ Q+ +L NA+ ++ +G T+ L R Sbjct: 250 AKSLEIQTDIPSD--LPSVYADQERIRQVLLNLLDNAIKYTPEGGTITLSMLHRTTQKVQ 307 Query: 721 FSVKNNGSSIPEDMCKSVF-NRFVSNAHRGQR----RGVGLGLSIVESFINLHGG 770 S+ + G IPE+ + +F +R R R G G+GLS+ + +H G Sbjct: 308 VSICDTGPGIPEEEQERIFEDRV-----RLPRDEGTEGYGIGLSVCRRIVRVHYG 357 >gnl|CDD|181885 PRK09470, cpxA, two-component sensor protein; Provisional. Length = 461 Score = 53.0 bits (128), Expect = 3e-07 Identities = 55/207 (26%), Positives = 89/207 (42%), Gaps = 11/207 (5%) Query: 576 VSYELRSPLTNIIGFTDLLKTSKLGSLNSKQSQYVEYISASSTILLNLVNDILDLATVDA 635 +S+ELR+PLT + T LL + G +S+ +E I + L +++ND+L L+ Sbjct: 250 ISHELRTPLTRLQLATALL-RRRQG-----ESKELERIETEAQRLDSMINDLLVLSRNQQ 303 Query: 636 GIMKLNYSTIVLNDLLNEVKQSIATKMHENNIRIKVISDGKLGSFVADRQRLLQIFSKIL 695 L T N L +EV + + + + V + + L I+ Sbjct: 304 K-NHLERETFKANSLWSEVLEDAKFEAEQMGKSLTVSAPPGPWPINGNPNALASALENIV 362 Query: 696 SNAMDFSSKGSTVILKAARDNGDFIFSVKNNGSSIPEDMCKSVFNRF--VSNAHRGQRRG 753 NA+ +S V D +V ++G +PE+ + +F F V A + G Sbjct: 363 RNALRYSHTKIEVAFSV--DKDGLTITVDDDGPGVPEEEREQIFRPFYRVDEARDRESGG 420 Query: 754 VGLGLSIVESFINLHGGHVSISSSDEG 780 GLGL+IVE+ I H G V S G Sbjct: 421 TGLGLAIVENAIQQHRGWVKAEDSPLG 447 >gnl|CDD|182702 PRK10755, PRK10755, sensor protein BasS/PmrB; Provisional. Length = 356 Score = 51.5 bits (124), Expect = 8e-07 Identities = 30/99 (30%), Positives = 49/99 (49%), Gaps = 7/99 (7%) Query: 695 LSNAMDFSSKGSTVILKAARDNGDFIFSVKNNGSSIPEDMCKSVFNRFVSNAHRGQRR-- 752 + NA +S +GST+ +K ++++G + +V++ G I E C + FV R R Sbjct: 256 VENAHRYSPEGSTITIKLSQEDGGAVLAVEDEGPGIDESKCGELSKAFV----RMDSRYG 311 Query: 753 GVGLGLSIVESFINLHGGHVSISS-SDEGVTTINCRIPS 790 G+GLGLSIV LH G + + + T +P Sbjct: 312 GIGLGLSIVSRITQLHHGQFFLQNRQERSGTRAWVWLPK 350 >gnl|CDD|181882 PRK09467, envZ, osmolarity sensor protein; Provisional. Length = 435 Score = 49.5 bits (119), Expect = 3e-06 Identities = 56/237 (23%), Positives = 98/237 (41%), Gaps = 57/237 (24%) Query: 576 VSYELRSPLTNIIGFTDLLKTSKLGSLNSKQSQYV-EYISASSTILLNLVNDILDL-ATV 633 VS++LR+PLT I T+++ S++ Y+ E I DI + A + Sbjct: 236 VSHDLRTPLTRIRLATEMM---------SEEDGYLAESI----------NKDIEECNAII 276 Query: 634 DAGI------MKLNYSTIVLNDLLNEVKQS-------IATKMHENNIRIKVISDGKLGSF 680 + I ++ LN LL EV + I T + I + + Sbjct: 277 EQFIDYLRTGQEMPMEMADLNALLGEVIAAESGYEREIETALQPGPIEVP-------MNP 329 Query: 681 VADRQRLLQIFSKILSNAMDFSSKGSTVILKAARDNGDFI-FSVKNNGSSIPEDMCKSVF 739 +A ++ + ++ NA + G+ I ++ G F V+++G IP + K +F Sbjct: 330 IAIKR----ALANLVVNAARY---GNGWIKVSSGTEGKRAWFQVEDDGPGIPPEQLKHLF 382 Query: 740 NRFVSNAHRGQR----RGVGLGLSIVESFINLHGGHVSISSSDEGVTTINCRIPSKE 792 F RG G GLGL+IV+ ++ H G V + +S+EG + +P Sbjct: 383 QPFT----RGDSARGSSGTGLGLAIVKRIVDQHNGKVELGNSEEGGLSARAWLPLTT 435 >gnl|CDD|131984 TIGR02938, nifL_nitrog, nitrogen fixation negative regulator NifL. NifL is a modulator of the nitrogen fixation positive regulator protein NifA, and is therefore a negative regulator. It binds NifA. NifA and NifL are encoded by adjacent genes. Length = 494 Score = 47.6 bits (113), Expect = 1e-05 Identities = 35/146 (23%), Positives = 62/146 (42%), Gaps = 9/146 (6%) Query: 647 LNDLLNEVKQSIATKMHENNIRIKVISDGKLGSFVADRQRLLQIFSKILSNA---MDFSS 703 LN +L +V ++ I + L + + +L +F ++ NA M+ Sbjct: 348 LNQILRDVITLSTPRLLAAGIVVDWQPAATLPAILGRELQLRSLFKALVDNAIEAMNIKG 407 Query: 704 KGSTVILKAARDNGDFI-FSVKNNGSSIPEDMCKSVFNRFVSNAHRGQRRGVGLGLSIVE 762 + NGD I S+ ++G IP+D+ VF F + G R+ +G+GLS+ + Sbjct: 408 WKRRELSITTALNGDLIVVSILDSGPGIPQDLRYKVFEPFFT-TKGGSRKHIGMGLSVAQ 466 Query: 763 SFINLHGGHVSISSSDEGVTTINCRI 788 + HGG + + CRI Sbjct: 467 EIVADHGGIIDLDDDYSE----GCRI 488 >gnl|CDD|182388 PRK10337, PRK10337, sensor protein QseC; Provisional. Length = 449 Score = 47.3 bits (113), Expect = 1e-05 Identities = 50/170 (29%), Positives = 75/170 (44%), Gaps = 29/170 (17%) Query: 623 LVNDILDLATVDAGIMKLNYSTIVLNDLLNEVKQSIATKMHENNIRI-------KVISDG 675 LV+ +L L+ +D+ + + I L DLL I + I + VI G Sbjct: 289 LVDQLLTLSRLDSLDNLQDVAEIPLEDLLQSAVMDIYHTAQQAGIDVRLTLNAHPVIRTG 348 Query: 676 KLGSFVADRQRLL--QIFSKILSNAMDFSSKGSTVILKAARDNGDFIFSVKNNGSSIPED 733 Q LL + +L NA+ +S +GS V + N F+V++NG + + Sbjct: 349 ---------QPLLLSLLVRNLLDNAIRYSPQGSVVDVTLNARN----FTVRDNGPGVTPE 395 Query: 734 MCKSVFNRFVSNAHR--GQRR-GVGLGLSIVESFINLHGGHVSISSSDEG 780 + RF +R GQ G GLGLSIV LHG +VS ++ EG Sbjct: 396 ALARIGERF----YRPPGQEATGSGLGLSIVRRIAKLHGMNVSFGNAPEG 441 >gnl|CDD|184354 PRK13837, PRK13837, two-component VirA-like sensor kinase; Provisional. Length = 828 Score = 45.1 bits (107), Expect = 8e-05 Identities = 33/188 (17%), Positives = 70/188 (37%), Gaps = 24/188 (12%) Query: 604 SKQSQYVEYISASSTILLNLVNDILDLATVDAGIMKLNYSTIVLNDLLNEVKQSIATKMH 663 S+ ++Y++ I ++ +++ IL K L++L+ E+ + + Sbjct: 483 SRAARYIDEIISAGARARLIIDQILAFGRKGERNTK----PFDLSELVTEIAPLLRVSLP 538 Query: 664 ENNIRIKVISDGKLGSFVADRQRLLQIFSKILSNAMDFSSKGSTV-ILKAARDN------ 716 + + D + + L Q+ + SNA V I + Sbjct: 539 PG-VELDFDQDQEPAVVEGNPAELQQVLMNLCSNAAQAMDGAGRVDISLSRAKLRAPKVL 597 Query: 717 -------GDFI-FSVKNNGSSIPEDMCKSVFNRFVSNAHRGQRRGVGLGLSIVESFINLH 768 G ++ V + G+ I E + +F F + + G GLGL+ V ++ H Sbjct: 598 SHGVLPPGRYVLLRVSDTGAGIDEAVLPHIFEPFFTT----RAGGTGLGLATVHGIVSAH 653 Query: 769 GGHVSISS 776 G++ + S Sbjct: 654 AGYIDVQS 661 >gnl|CDD|184141 PRK13557, PRK13557, histidine kinase; Provisional. Length = 540 Score = 43.1 bits (102), Expect = 3e-04 Identities = 37/169 (21%), Positives = 66/169 (39%), Gaps = 18/169 (10%) Query: 639 KLNYSTIVLNDLLNEVKQSIATKMHENNIRIKVISDGKLGSFVADRQRLLQIFSKILSNA 698 +L + LN L++ + + + + + I+ L + D + +L NA Sbjct: 231 RLEGRVLNLNGLVSGMGELAERTLGDA-VTIETDLAPDLWNCRIDPTQAEVALLNVLINA 289 Query: 699 MDFSSKGSTVILK------AARDNGDF---------IFSVKNNGSSIPEDMCKSVFNRFV 743 D +G V ++ D + +V + GS +P ++ V + F Sbjct: 290 RDAMPEGGRVTIRTRNVEIEDEDLAMYHGLPPGRYVSIAVTDTGSGMPPEILARVMDPFF 349 Query: 744 SNAHRGQRRGVGLGLSIVESFINLHGGHVSISSSDEGVTTINCRIPSKE 792 + G+ G GLGLS+V F GG V I S TT+ P+ + Sbjct: 350 TTKEEGK--GTGLGLSMVYGFAKQSGGAVRIYSEVGEGTTVRLYFPASD 396 >gnl|CDD|182947 PRK11073, glnL, nitrogen regulation protein NR(II); Provisional. Length = 348 Score = 43.1 bits (102), Expect = 3e-04 Identities = 36/147 (24%), Positives = 65/147 (44%), Gaps = 28/147 (19%) Query: 647 LNDLLNEVKQSIATKMHENNIRIKVISDGKLGSFVADRQRLLQIFSKILSNAMD-FSSKG 705 ++ + V Q ++ ++ +N+R+ D L D ++ Q+ I+ NA+ +G Sbjct: 199 IHKVAERVVQLVSLEL-PDNVRLIRDYDPSLPELAHDPDQIEQVLLNIVRNALQALGPEG 257 Query: 706 STVILK----------------AARDNGDFIFSVKNNGSSIPEDMCKSVFNRFVSNAHRG 749 T+ L+ AAR +++NG IP + ++F VS G Sbjct: 258 GTITLRTRTAFQLTLHGERYRLAAR------IDIEDNGPGIPPHLQDTLFYPMVS----G 307 Query: 750 QRRGVGLGLSIVESFINLHGGHVSISS 776 + G GLGLSI + I+ H G + +S Sbjct: 308 REGGTGLGLSIARNLIDQHSGKIEFTS 334 >gnl|CDD|163071 TIGR02916, PEP_his_kin, putative PEP-CTERM system histidine kinase. Members of this protein family have a novel N-terminal domain, a single predicted membrane-spanning helix, and a predicted cystosolic histidine kinase domain. We designate this protein PrsK, and its companion DNA-binding response regulator protein (TIGR02915) PrsR. These predicted signal-transducing proteins appear to enable enhancer-dependent transcriptional activation. The prsK gene is often associated with exopolysaccharide biosynthesis genes. Length = 679 Score = 42.0 bits (99), Expect = 7e-04 Identities = 31/146 (21%), Positives = 62/146 (42%), Gaps = 8/146 (5%) Query: 644 TIVLNDLLNEVKQSIATKMHENNIRIKVISDGKLGSFVADRQRLLQIFSKILSNAMDFSS 703 + L DLL IA+K + R +V D L ADR+RL ++ ++ NA++ + Sbjct: 542 CVDLVDLLRRA---IASKRAQGP-RPEVSIDTDLSV-RADRERLERVLGHLVQNALEATP 596 Query: 704 KGSTVILKAARDNGDFIFSVKNNGSSIPEDMCKSVFNRFVSNAHRGQRRGVGLGLSIVES 763 V ++ R+ G ++++G + + R + G+G+G+ Sbjct: 597 GEGRVAIRVERECGAARIEIEDSGCGMSPAFIR---ERLFKPFDTTKGAGMGIGVYECRQ 653 Query: 764 FINLHGGHVSISSSDEGVTTINCRIP 789 ++ GG + + S+ T +P Sbjct: 654 YVEEIGGRIEVESTPGQGTIFTLVLP 679 >gnl|CDD|117025 pfam08448, PAS_4, PAS fold. The PAS fold corresponds to the structural domain that has previously been defined as PAS and PAC motifs. The PAS fold appears in archaea, eubacteria and eukarya. Length = 110 Score = 38.5 bits (90), Expect = 0.007 Identities = 21/118 (17%), Positives = 41/118 (34%), Gaps = 17/118 (14%) Query: 441 DHLSEGVAVFGPDGRIKLSNPAFRSLWKTEENRLSPGTHIRNIAATCSRYYNESDGWDLF 500 D L + +AV PDGR++ +N A L+ L G + + Sbjct: 2 DSLPDALAVLDPDGRVRYANAAAAELFGLPPEELL-GKTLAELLPPEDA--------ARL 52 Query: 501 AAIITSFDDERKSLQGTLELLSDS---VLEYSIIPLPNAQ-----TMLTFVNVTDSVR 550 + + + + ELL + E + PL + ++ ++T+ R Sbjct: 53 ERALRRALEGEEPIDFLEELLLNGEERHYELRLTPLRDPDGEVIGVLVISRDITERRR 110 >gnl|CDD|182952 PRK11086, PRK11086, sensory histidine kinase DcuS; Provisional. Length = 542 Score = 38.0 bits (89), Expect = 0.009 Identities = 40/162 (24%), Positives = 70/162 (43%), Gaps = 19/162 (11%) Query: 641 NYSTIVLNDLLNEVKQSIAT-----KM---HENNIRIKVISDGKLGSFVADRQR---LLQ 689 NY + LL ++K + K+ E I + + D +L D + L+ Sbjct: 379 NYQE-EIGSLLGKIKSPVIAGFLLGKISRARELGITLIISEDSQLPD-SGDEDQVHELIT 436 Query: 690 IFSKILSNAMDFSS--KGSTVILKAARDNGDFIFSVKNNGSSIPEDMCKSVFNRFVSNAH 747 I ++ NA++ +G + + NG V ++G I D ++F++ S Sbjct: 437 ILGNLIENALEAVGGEEGGEISVSLHYRNGWLHCEVSDDGPGIAPDEIDAIFDKGYST-- 494 Query: 748 RGQRRGVGLGLSIVESFINLHGGHVSISSSDEGVTTINCRIP 789 +G RGVGL L + +S NL GG +++ S T +IP Sbjct: 495 KGSNRGVGLYL-VKQSVENL-GGSIAVESEPGVGTQFFVQIP 534 >gnl|CDD|185013 PRK15053, dpiB, sensor histidine kinase DpiB; Provisional. Length = 545 Score = 36.7 bits (85), Expect = 0.023 Identities = 28/113 (24%), Positives = 51/113 (45%), Gaps = 9/113 (7%) Query: 683 DRQRLLQIFSKILSNAMDFSSK---GSTVILKAARDNGD-FIFSVKNNGSSIPEDMCKSV 738 D I +L NA + S + G+ ++ D GD + V + G +PE + + Sbjct: 429 DSTEFAAIVGNLLDNAFEASLRSDEGNKIVELFLSDEGDDVVIEVADQGCGVPESLRDKI 488 Query: 739 FNRFVS--NAHRGQRRGVGLGLSIVESFINLHGGHVSISSSDEGVTTINCRIP 789 F + VS G+ G+GL ++ S++ GG +++ +D T + IP Sbjct: 489 FEQGVSTRADEPGEH---GIGLYLIASYVTRCGGVITLEDNDPCGTLFSIFIP 538 >gnl|CDD|182754 PRK10815, PRK10815, sensor protein PhoQ; Provisional. Length = 485 Score = 34.6 bits (80), Expect = 0.092 Identities = 27/108 (25%), Positives = 48/108 (44%), Gaps = 22/108 (20%) Query: 679 SFVADRQRLLQIFSKILSNA----MDFSSKGSTVILKAARDNGDFIFSVKNNGSSIPEDM 734 +FV ++ +++ +L NA ++F V + A + + V+++G IPE Sbjct: 371 TFVGEKNDFMEVMGNVLDNACKYCLEF------VEISARQTDEHLHIVVEDDGPGIPESK 424 Query: 735 CKSVFNRFVSNAHRGQRR-----GVGLGLSIVESFINLHGGHVSISSS 777 + +F+R GQR G GLGLS+ + G +S S Sbjct: 425 RELIFDR-------GQRADTLRPGQGLGLSVAREITEQYEGKISAGDS 465 >gnl|CDD|182581 PRK10600, PRK10600, nitrate/nitrite sensor protein NarX; Provisional. Length = 569 Score = 31.6 bits (72), Expect = 0.92 Identities = 18/51 (35%), Positives = 30/51 (58%), Gaps = 1/51 (1%) Query: 687 LLQIFSKILSNAMDFSSKGSTVILKAARDNGDFIFSVKNNGSSIPEDMCKS 737 LLQI + LSNA+ + S V++ A++ SV++NG +PE+ +S Sbjct: 470 LLQIAREALSNALKHAQ-ASEVVVTVAQNQNQVKLSVQDNGCGVPENAERS 519 >gnl|CDD|166599 PLN02958, PLN02958, diacylglycerol kinase/D-erythro-sphingosine kinase. Length = 481 Score = 31.0 bits (70), Expect = 1.2 Identities = 19/77 (24%), Positives = 32/77 (41%), Gaps = 10/77 (12%) Query: 673 SDGKLGSFVADR-QRLLQIFSKILSNAMDFSSKGSTVILKAARDNGDFIFSVKNNGSSIP 731 ++GKL D QR L + ++L F +GS + +K + G I + G+ Sbjct: 28 AEGKLRW--TDSGQRCLTVEKEVLG----FVIEGSKIRVKTIVEKGGGICCRGSAGALAR 81 Query: 732 EDMCKSVFNRFVSNAHR 748 +D VF + R Sbjct: 82 KDF---VFEPLSDESRR 95 >gnl|CDD|181983 PRK09603, PRK09603, bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed. Length = 2890 Score = 30.7 bits (69), Expect = 1.4 Identities = 29/135 (21%), Positives = 55/135 (40%), Gaps = 25/135 (18%) Query: 571 SFVQHVSYELRSPLTN-IIGFTDLLKTSKLGSLNSKQSQYVEYISASSTILLNLVNDILD 629 Q + ++L+ P I+ L + K+ L ++VEY + L+N L Sbjct: 247 DANQRMEFDLKDPQGKIILLAGKKLTSRKIKELKENHLEWVEYP------MDILLNRHLA 300 Query: 630 LATVDAGIMKLNYSTIVLNDLLNEVKQSIATKMHENNIRIKVISD--------GKLGSFV 681 + VL D+L ++ ++ K+H+ ++ VI + + SF Sbjct: 301 EPVMVG--------KEVLLDMLTQLDKNKLEKIHDLGVQEFVIINDLALGHDASIIHSFS 352 Query: 682 ADRQ--RLLQIFSKI 694 AD + +LL+ KI Sbjct: 353 ADSESLKLLKQTEKI 367 >gnl|CDD|182079 PRK09793, PRK09793, methyl-accepting protein IV; Provisional. Length = 533 Score = 30.4 bits (68), Expect = 2.0 Identities = 25/128 (19%), Positives = 48/128 (37%), Gaps = 5/128 (3%) Query: 300 TVNDQLTHTYEILHNLTVAIAIFDQNRYLQFHNRSFVELWEIDLAFLATNPSNDELLEFL 359 T LT + + + A + R LQ W DL AT +++L +FL Sbjct: 89 TARASLTQSTTLFKSFMAMTAGNEHVRALQKETEKSFARWHNDLEHQATWLESNQLSDFL 148 Query: 360 RS---ANKLPEQLNWKTWKENIFSVY-KSSETHKDTWHLPNGQ-TLHVIVTSNPRGGTIW 414 + ++ +N++ W+ I V +S + + + +IV + +W Sbjct: 149 TAPVQGSQNAFDVNFEAWQLEINHVLEAASAQSQRNYQISALVFISMIIVAAIYISSALW 208 Query: 415 MFENLTVQ 422 + VQ Sbjct: 209 WTRKMIVQ 216 >gnl|CDD|183823 PRK12901, secA, preprotein translocase subunit SecA; Reviewed. Length = 1112 Score = 30.4 bits (69), Expect = 2.1 Identities = 23/74 (31%), Positives = 36/74 (48%), Gaps = 17/74 (22%) Query: 527 EYSIIPLPNAQTMLTFV-NVTDSVRAE-RALT---EKN-----------EALRKADEIKN 570 E ++P + + L V N+ ++ E + + EKN E LR+ DE+K Sbjct: 916 ERIVVPFTDGKRTLNVVTNLKEAYETEGKEIVKDFEKNITLHIIDEAWKEHLREMDELKQ 975 Query: 571 SFVQHVSYELRSPL 584 S VQ+ SYE + PL Sbjct: 976 S-VQNASYEQKDPL 988 >gnl|CDD|128710 smart00433, TOP2c, TopoisomeraseII. Eukaryotic DNA topoisomerase II, GyrB, ParE. Length = 594 Score = 30.2 bits (69), Expect = 2.3 Identities = 14/57 (24%), Positives = 22/57 (38%), Gaps = 19/57 (33%) Query: 687 LLQIFSKILSNAMDFSSKGSTVILKAARDNGDFIF---------SVKNNGSSIPEDM 734 L + +I+ NA D +A D I SV++NG IP ++ Sbjct: 2 LHHLVDEIVDNAAD----------EALAGYMDTIKVTIDKDNSISVEDNGRGIPVEI 48 >gnl|CDD|178775 PLN03237, PLN03237, DNA topoisomerase 2; Provisional. Length = 1465 Score = 29.8 bits (67), Expect = 3.0 Identities = 16/51 (31%), Positives = 25/51 (49%), Gaps = 1/51 (1%) Query: 687 LLQIFSKILSNAMDFSSKG-STVILKAARDNGDFIFSVKNNGSSIPEDMCK 736 L +IF +IL NA D + L+ D + SV NNG +P ++ + Sbjct: 78 LYKIFDEILVNAADNKQRDPKMDSLRVVIDVEQNLISVYNNGDGVPVEIHQ 128 >gnl|CDD|166513 PLN02872, PLN02872, triacylglycerol lipase. Length = 395 Score = 29.4 bits (66), Expect = 3.4 Identities = 15/46 (32%), Positives = 28/46 (60%), Gaps = 2/46 (4%) Query: 609 YVEYISASSTILLNLVNDILDLATVDAGIMKLNYSTIVLNDLLNEV 654 Y+++++A ++L +V LD V GI +LN+ + VL LL+ + Sbjct: 198 YLDHVTAP--LVLRMVFMHLDQMVVAMGIHQLNFRSDVLVKLLDSI 241 >gnl|CDD|132079 TIGR03034, TIGR03034, conserved hypothetical protein. Members of this protein family have been found in several species of gammaproteobacteria, including Yersinia pestis and Y. pseudotuberculosis, Xylella fastidiosa, and Escherichia coli UTI89. As many as five members can be found in a single genome. The function is unknown. Length = 274 Score = 29.4 bits (66), Expect = 3.6 Identities = 20/87 (22%), Positives = 38/87 (43%), Gaps = 14/87 (16%) Query: 693 KILSNAMDFSSKGSTVILKAARDNG-DFIFSV--KNNGSSIPEDMCKSVFNRFVSNAHRG 749 +IL+ D+S S I+K+ +NG ++ SI + S +F +R Sbjct: 132 QILN---DYSENSSIRIIKSVLENGINWTPGTYPSEIKQSIKTKLLSSRLPKF----NRF 184 Query: 750 QRRGVGLGLSIVESFINLHGGHVSISS 776 Q GLG+++ ++ ++I S Sbjct: 185 QDSFNGLGITVH----DISATKITIKS 207 >gnl|CDD|181277 PRK08187, PRK08187, pyruvate kinase; Validated. Length = 493 Score = 29.2 bits (66), Expect = 3.9 Identities = 15/40 (37%), Positives = 19/40 (47%), Gaps = 5/40 (12%) Query: 543 VNVTDSVRAERALTEKNEA-----LRKADEIKNSFVQHVS 577 +N D+ ALTEK+ A R AD + SFVQ Sbjct: 298 LNFPDTALDLPALTEKDRADLDFVARHADLVGYSFVQSPG 337 >gnl|CDD|178674 PLN03128, PLN03128, DNA topoisomerase 2; Provisional. Length = 1135 Score = 29.3 bits (66), Expect = 4.6 Identities = 19/51 (37%), Positives = 26/51 (50%), Gaps = 1/51 (1%) Query: 687 LLQIFSKILSNAMDFSSKGSTV-ILKAARDNGDFIFSVKNNGSSIPEDMCK 736 L +IF +IL NA D + ++ LK D SV NNG IP ++ K Sbjct: 53 LYKIFDEILVNAADNKQRDPSMDSLKVDIDVEQNTISVYNNGKGIPVEIHK 103 >gnl|CDD|150631 pfam09980, DUF2214, Predicted membrane protein (DUF2214). This domain, found in various hypothetical bacterial proteins, has no known function. Length = 150 Score = 29.1 bits (66), Expect = 4.7 Identities = 17/46 (36%), Positives = 21/46 (45%), Gaps = 6/46 (13%) Query: 11 GKGIEICT---LFSCKIAVFGTIAGMLLTTIIPIILLIRQRNSLAK 53 GKG E LF K+ +F I L ++ P I IR R L K Sbjct: 67 GKGSEFYLHNPLFHLKVTLFVLIG---LLSLYPTITFIRWRIPLRK 109 >gnl|CDD|182591 PRK10618, PRK10618, phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional. Length = 894 Score = 29.1 bits (66), Expect = 4.8 Identities = 27/98 (27%), Positives = 49/98 (50%), Gaps = 9/98 (9%) Query: 557 EKNEALRKADEIKNSFVQHVSYELRSPLTNIIGFTDLLKTSKLGSLNSKQSQYVEYISAS 616 EKN+ RKA F+Q++ EL+ PL ++ L+ + S +Q ++ ++ Sbjct: 444 EKNQQARKA------FLQNIGDELKQPLQSLAQLAAQLRQT---SDEEQQQPELDQLAEQ 494 Query: 617 STILLNLVNDILDLATVDAGIMKLNYSTIVLNDLLNEV 654 S +L+ LV++I L ++ K L DL++EV Sbjct: 495 SDVLVRLVDNIQLLNMLETQDWKPEQELFSLQDLIDEV 532 >gnl|CDD|185451 PTZ00108, PTZ00108, DNA topoisomerase 2-like protein; Provisional. Length = 1388 Score = 28.9 bits (65), Expect = 4.8 Identities = 18/50 (36%), Positives = 22/50 (44%), Gaps = 6/50 (12%) Query: 687 LLQIFSKILSNAMD-----FSSKGSTVILKAARDNGDFIFSVKNNGSSIP 731 L +IF +IL NA D T I K D + SV N+G IP Sbjct: 58 LYKIFDEILVNAADNKARDKGGHRMTYI-KVTIDEENGEISVYNDGEGIP 106 >gnl|CDD|185654 PTZ00475, PTZ00475, RESA-like protein; Provisional. Length = 282 Score = 28.4 bits (63), Expect = 6.7 Identities = 35/136 (25%), Positives = 68/136 (50%), Gaps = 18/136 (13%) Query: 541 TFVNVTDSVRAERA---LTEKNEALRKADE--IKNSFV-QHVSYELRSPLTNIIGFTDLL 594 T+ NV++ E+A + +K+ L++A+E I+NS V + S +TN F + Sbjct: 112 TYENVSNIFLEEKANSGINKKDIYLKEANERMIRNSIVLRQCKSRFISIITNYYPFKEQ- 170 Query: 595 KTSKLGSLNSKQSQYVEYISASSTILLNLVNDI-LDLATVDAGIMKLNYSTIVLNDLLNE 653 N+ + +Y+S+S+ +L +++N+I + + I L Y I+ +LL E Sbjct: 171 --------NNPFIKQAQYVSSSNYVLDDIINNIDYSIDNIHRAIDNLYYEHIL--NLLEE 220 Query: 654 VKQSIATKMHENNIRI 669 K I ++ N ++I Sbjct: 221 EKNEILEEILRNILKI 236 >gnl|CDD|182537 PRK10547, PRK10547, chemotaxis protein CheA; Provisional. Length = 670 Score = 28.5 bits (64), Expect = 6.9 Identities = 37/124 (29%), Positives = 51/124 (41%), Gaps = 30/124 (24%) Query: 666 NIRIKVISDGKLGSFVADRQRLLQIFSKILSNAMDFSSKGSTVILKAARDNGDFIFSVKN 725 NI I+V DG G +R+R+L +K S + S S + G IF+ Sbjct: 429 NICIEVTDDGA-G---LNRERIL---AKAASQGLAVSENMSD------EEVGMLIFA--- 472 Query: 726 NGSSIPEDMCKSVFNRFVSNAHRGQRRGVGLGLSIVESFINLHGGHVSISSSDEGVTTIN 785 G S E + VS G G+G+ +V+ I GGHV I S TTI Sbjct: 473 PGFSTAEQVTD------VS--------GRGVGMDVVKRNIQEMGGHVEIQSKQGKGTTIR 518 Query: 786 CRIP 789 +P Sbjct: 519 ILLP 522 >gnl|CDD|185276 PRK15378, PRK15378, inositol phosphate phosphatase SopB; Provisional. Length = 564 Score = 27.9 bits (62), Expect = 9.1 Identities = 5/46 (10%), Positives = 16/46 (34%) Query: 545 VTDSVRAERALTEKNEALRKADEIKNSFVQHVSYELRSPLTNIIGF 590 + + + L K A ++ V+ ++ + + N + Sbjct: 138 IAARTQQQLGLPAKEAHRFAALAFSDAQVKQLNNQPWQTIKNTLSH 183 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 0.318 0.133 0.383 Gapped Lambda K H 0.267 0.0668 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21608 Number of Hits to DB: 12,419,848 Number of extensions: 798666 Number of successful extensions: 1684 Number of sequences better than 10.0: 1 Number of HSP's gapped: 1626 Number of HSP's successfully gapped: 61 Length of query: 792 Length of database: 5,994,473 Length adjustment: 101 Effective length of query: 691 Effective length of database: 3,812,065 Effective search space: 2634136915 Effective search space used: 2634136915 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: 61 (27.4 bits)