RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780450|ref|YP_003064863.1| two-component sensor histidine
kinase/response regulator hybrid protein [Candidatus Liberibacter
asiaticus str. psy62]
(803 letters)
>gnl|CDD|184141 PRK13557, PRK13557, histidine kinase; Provisional.
Length = 540
Score = 280 bits (719), Expect = 9e-76
Identities = 141/405 (34%), Positives = 222/405 (54%), Gaps = 19/405 (4%)
Query: 400 EITEQKALEARMAQTQKLNAVGTLAGGIAHDFNNVLTAILLSSDHLLLQSRSSDASFADL 459
+++ ++ E + Q QK+ A+G L GGIAHDFNN+L + D + DA +
Sbjct: 143 DVSRRRDAEDALRQAQKMEALGQLTGGIAHDFNNLLQVMSGYLDVIQAALSHPDADRGRM 202
Query: 460 ME----IKHNANRAAILVRQLLAFSRKQTMRLTVLNLTEVIGNLRMMIQKLISEPPQVKL 515
I+ A RAA L +QLLAF+RKQ + VLNL ++ + + ++ + + V +
Sbjct: 203 ARSVENIRAAAERAATLTQQLLAFARKQRLEGRVLNLNGLVSGMGELAERTLGD--AVTI 260
Query: 516 TVDYERDLWGVKTDLSQFEQVLVNLCVNAHHAIMLKESGSLTVRTRNIPSTEIHTFNYSD 575
D DLW + D +Q E L+N+ +NA A + E G +T+RTRN+ + Y
Sbjct: 261 ETDLAPDLWNCRIDPTQAEVALLNVLINARDA--MPEGGRVTIRTRNVEIEDEDLAMYHG 318
Query: 576 LPTKDMVLVEVEDTGIGMSPDIMEKIFEPFFTTKKVGEGTGLGLSVVYGIIRQSGGYILP 635
LP V + V DTG GM P+I+ ++ +PFFTTK+ G+GTGLGLS+VYG +QSGG +
Sbjct: 319 LPPGRYVSIAVTDTGSGMPPEILARVMDPFFTTKEEGKGTGLGLSMVYGFAKQSGGAVRI 378
Query: 636 ESEVGKGTIFRIFLPRYVQEHTQESHYSHDIAIIPQEEPADLTGNSAIVLLVEDEDSVRR 695
SEVG+GT R++ P S + + P+ D G I L+V+D V
Sbjct: 379 YSEVGEGTTVRLYFP--------ASDQAENPEQEPKARAIDRGGTETI-LIVDDRPDVAE 429
Query: 696 GSKRMLETRGYTVHEAFSGTDALKVMEKLQGRVDIVISDVVMP-EMDGPTLLRELRKTYP 754
++ +LE GY A +G +AL++++ VD++ +D++MP M+G L RE R+ P
Sbjct: 430 LARMILEDFGYRTLVASNGREALEILDS-HPEVDLLFTDLIMPGGMNGVMLAREARRRQP 488
Query: 755 SLKFIFISGYAEDAFSKNLPKDAKFSFLSKPFSLKQLATSVHELL 799
+K + +GYAE + + ++F L+KP+ +LA V +L
Sbjct: 489 KIKVLLTTGYAEASIERTDAGGSEFDILNKPYRRAELARRVRMVL 533
>gnl|CDD|184354 PRK13837, PRK13837, two-component VirA-like sensor kinase;
Provisional.
Length = 828
Score = 220 bits (563), Expect = 1e-57
Identities = 126/397 (31%), Positives = 195/397 (49%), Gaps = 29/397 (7%)
Query: 402 TEQKALEARMAQTQKLNAVGTLAGGIAHDFNNVLTAILLSSDHLLLQSRSSDASFADLME 461
TE+ ALE R+ ++L AVGTLA GIAH+FNN+L AIL ++ L + + + E
Sbjct: 432 TERDALERRLEHARRLEAVGTLASGIAHNFNNILGAILGYAEMALNKLARHSRAARYIDE 491
Query: 462 IKHNANRAAILVRQLLAFSRKQTMRLTVLNLTEVIGNLRMMIQKLISEPPQVKLTVDYER 521
I RA +++ Q+LAF RK +L+E++ + +++ +S PP V+L D ++
Sbjct: 492 IISAGARARLIIDQILAFGRKGERNTKPFDLSELVTEIAPLLR--VSLPPGVELDFDQDQ 549
Query: 522 DLWGVKTDLSQFEQVLVNLCVNAHHAIMLKESGSLTVRTRNIPSTEIHTFNYSDLPTKDM 581
+ V+ + ++ +QVL+NLC NA A+ +G + + ++ LP
Sbjct: 550 EPAVVEGNPAELQQVLMNLCSNAAQAM--DGAGRVDISLSRAKLRAPKVLSHGVLPPGRY 607
Query: 582 VLVEVEDTGIGMSPDIMEKIFEPFFTTKKVGEGTGLGLSVVYGIIRQSGGYILPESEVGK 641
VL+ V DTG G+ ++ IFEPFFTT+ GTGLGL+ V+GI+ GYI +S VG+
Sbjct: 608 VLLRVSDTGAGIDEAVLPHIFEPFFTTR--AGGTGLGLATVHGIVSAHAGYIDVQSTVGR 665
Query: 642 GTIFRIFLPRYVQEHTQESHYSHDIAIIPQEEPADLT---GNSAIVLLVEDEDSVRRGSK 698
GT F ++LP S + + PQ G VLLVE +D+ +
Sbjct: 666 GTRFDVYLPP-----------SSKVPVAPQAFFGPGPLPRGRGETVLLVEPDDATLERYE 714
Query: 699 RMLETRGYTVHE--AFSG-TDALKVMEKLQGRVDIVISDVVMPEMDGPTLLRELRKTYPS 755
L GY E FS A+ + K R D+V+ D + + + L P+
Sbjct: 715 EKLAALGY---EPVGFSTLAAAIAWISKGPERFDLVLVDDRLLDEEQAAAA--LHAAAPT 769
Query: 756 LKFIFISGYAEDAFSKNLPKDAKFSFLSKPFSLKQLA 792
L I A S +L + L+KP S + LA
Sbjct: 770 LPIILGGNSKTMALSPDL-LASVAEILAKPISSRTLA 805
>gnl|CDD|183098 PRK11360, PRK11360, sensory histidine kinase AtoS; Provisional.
Length = 607
Score = 165 bits (419), Expect = 5e-41
Identities = 82/262 (31%), Positives = 133/262 (50%), Gaps = 20/262 (7%)
Query: 394 AILYTVEITEQKALEARMAQTQKLNAVGTLAGGIAHDFNNVLTAILLSSDHLLLQSRSSD 453
A++ ++TE+K L+ R+A+ ++L A+G L G+AH+ N LTAI Q S
Sbjct: 364 ALVIFSDLTERKRLQRRVARQERLAALGELVAGVAHEIRNPLTAIRGYVQIWR-QQTSDP 422
Query: 454 ASFADLMEIKHNANRAAILVRQLLAFSRKQTMRLTVLNLTEVIGNLRMMIQKLISEPPQV 513
S L + +R ++ QLL FSR + + ++L ++ + + Q + +V
Sbjct: 423 PSQEYLSVVLREVDRLNKVIDQLLEFSRPRESQWQPVSLNALVEEVLQLFQTAGVQA-RV 481
Query: 514 KLTVDYERDLWGVKTDLSQFEQVLVNLCVNAHHAIMLKESGSLTVRTRNIPSTEIHTFNY 573
+ + +L + D +QVL+N+ +NA AI G + +RT ++
Sbjct: 482 DFETELDNELPPIWADPELLKQVLLNILINAVQAI--SARGKIRIRTWQYSDGQVA---- 535
Query: 574 SDLPTKDMVLVEVEDTGIGMSPDIMEKIFEPFFTTKKVGEGTGLGLSVVYGIIRQSGGYI 633
V +ED G G+ P++++KIF+PFFTTK +GTGLGL++ II GG I
Sbjct: 536 ----------VSIEDNGCGIDPELLKKIFDPFFTTKA--KGTGLGLALSQRIINAHGGDI 583
Query: 634 LPESEVGKGTIFRIFLPRYVQE 655
ESE G GT F ++LP Q
Sbjct: 584 EVESEPGVGTTFTLYLPINPQG 605
>gnl|CDD|182411 PRK10364, PRK10364, sensor protein ZraS; Provisional.
Length = 457
Score = 129 bits (326), Expect = 2e-30
Identities = 78/247 (31%), Positives = 128/247 (51%), Gaps = 26/247 (10%)
Query: 407 LEARMAQTQKLNAVGTLAGGIAHDFNNVLTAILLSSDHLLLQSR--SSDASFADLMEIKH 464
L+ M + +KL A+G LA G+AH+ N L++I + + ++ A +M K
Sbjct: 224 LQDEMKRKEKLVALGHLAAGVAHEIRNPLSSIKGLAKYFAERAPAGGEAHQLAQVM-AKE 282
Query: 465 NANRAAILVRQLLAFSRKQTMRLTVLNLTEVIGN-LRMMIQKLISEPPQVKLTVDYERDL 523
A+R +V +LL + + L ++L ++I + L+++ Q S Q++ T + L
Sbjct: 283 -ADRLNRVVSELLELVKPTHLALQAVDLNDLINHSLQLVSQDANSREIQLRFTANDT--L 339
Query: 524 WGVKTDLSQFEQVLVNLCVNAHHAIMLKESGSLTVRTRNIPSTEIHTFNYSDLPTKDMVL 583
++ D + QVL+NL +NA AI + G ++V + V
Sbjct: 340 PEIQADPDRLTQVLLNLYLNAIQAI--GQHGVISVTASE---------------SGAGVK 382
Query: 584 VEVEDTGIGMSPDIMEKIFEPFFTTKKVGEGTGLGLSVVYGIIRQSGGYILPESEVGKGT 643
+ V D+G G++ D +E IF P+FTTK EGTGLGL+VV+ I+ Q GG I S+ GKG
Sbjct: 383 ISVTDSGKGIAADQLEAIFTPYFTTK--AEGTGLGLAVVHNIVEQHGGTIQVASQEGKGA 440
Query: 644 IFRIFLP 650
F ++LP
Sbjct: 441 TFTLWLP 447
>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 = 114 bits (287), Expect = 1e-25
Identities = 81/283 (28%), Positives = 131/283 (46%), Gaps = 41/283 (14%)
Query: 529 DLSQFEQVLVNLCVNAHHAIMLKESGSLTVRTRNIPSTEIHTFNYSDLPTKDMVLVEVED 588
D + QVL+NL NA I + GS+ +R + + L EVED
Sbjct: 576 DGPRIRQVLINLVGNA---IKFTDRGSVVLRVSLNDDSSL--------------LFEVED 618
Query: 589 TGIGMSPDIMEKIFEPFFTT--KKVGEGTGLGLSVVYGIIRQSGGYILPESEVGKGTIFR 646
TG G++ + +F+ F ++ GTGLGL++ ++ G + ESE+G G+ F
Sbjct: 619 TGCGIAEEEQATLFDAFTQADGRRRSGGTGLGLAISQRLVEAMDGELGVESELGVGSCFW 678
Query: 647 IFLPRYVQEHTQESHYSHDIAIIPQEEPADLTGNSAIVLLVEDEDSVRRGSKRMLETRGY 706
LP + ++S I + PQ VLLVED + + ++ L G+
Sbjct: 679 FTLPLTRGKPAEDSATLTVIDLPPQR-----------VLLVEDNEVNQMVAQGFLTRLGH 727
Query: 707 TVHEAFSGTDALKVMEKLQGRVDIVISDVVMPEMDGPTLLRELRKTYPS---LKFIFISG 763
V A SG AL+ Q D+ + D+ +P+ DG TLL++LR Y + +KFI S
Sbjct: 728 KVTLAESGQSALECFH--QHAFDLALLDINLPDGDGVTLLQQLRAIYGAKNEVKFIAFSA 785
Query: 764 YAEDAFSKNLPK--DAKF-SFLSKPFSLKQLATSVHELLQSDS 803
+ F++++ + A F FL+KP +QL + +L
Sbjct: 786 H---VFNEDVAQYLAAGFDGFLAKPVVEEQLTAMIAVILAGGK 825
>gnl|CDD|183148 PRK11466, PRK11466, hybrid sensory histidine kinase TorS;
Provisional.
Length = 914
Score = 99.6 bits (248), Expect = 3e-21
Identities = 73/272 (26%), Positives = 118/272 (43%), Gaps = 37/272 (13%)
Query: 499 LRMMIQKLISEPPQVKLTVDYERDL--WGVKTDLSQFEQVLVNLCVNAHHAIMLKESGSL 556
L++M ++ P ++L D DL + D + QV+ NL NA + + GS+
Sbjct: 529 LQLMSGRVKGRP--IRLATDIADDLPTA-LMGDPRRIRQVITNLLSNA---LRFTDEGSI 582
Query: 557 TVRTRNIPSTEIHTFNYSDLPTKDMVLVEVEDTGIGMSPDIMEKIFEPFFTTKKVGEGTG 616
+R+R + VEVED+G G+ P + +IF+PF GTG
Sbjct: 583 VLRSR---TDGEQWL------------VEVEDSGCGIDPAKLAEIFQPFVQVSGKRGGTG 627
Query: 617 LGLSVVYGIIRQSGGYILPESEVGKGTIFRIFLP-RYVQEHTQESHYSHDIAIIPQEEPA 675
LGL++ + + GG + S G+ F + LP R ++ +
Sbjct: 628 LGLTISSRLAQAMGGELSATSTPEVGSCFCLRLPLRVATAPVPKT----------VNQAV 677
Query: 676 DLTGNSAIVLLVEDEDSVRRGSKRMLETRGYTVHEAFSGTDALKVMEKLQGRVDIVISDV 735
L G +LL+ED +R + ML T G V + AL+ ++ + + D
Sbjct: 678 RLDGLR--LLLIEDNPLTQRITAEMLNTSGAQVVAVGNAAQALETLQNSEP-FAAALVDF 734
Query: 736 VMPEMDGPTLLRELRKTYPSLKFIFISGYAED 767
+P+ DG TL R+L + YPSL I S + D
Sbjct: 735 DLPDYDGITLARQLAQQYPSLVLIGFSAHVID 766
>gnl|CDD|128669 smart00387, HATPase_c, Histidine kinase-like ATPases. Histidine
kinase-, DNA gyrase B-, phytochrome-like ATPases.
Length = 111
Score = 98.5 bits (246), Expect = 6e-21
Identities = 49/127 (38%), Positives = 60/127 (47%), Gaps = 22/127 (17%)
Query: 528 TDLSQFEQVLVNLCVNA-HHAIMLKESGSLTVRTRNIPSTEIHTFNYSDLPTKDMVLVEV 586
D + QVL NL NA + E G +TV D + + V
Sbjct: 1 GDPDRLRQVLSNLLDNAIKYT---PEGGRITVTLE---------------RDGDHLEITV 42
Query: 587 EDTGIGMSPDIMEKIFEPFFTTKK---VGEGTGLGLSVVYGIIRQSGGYILPESEVGKGT 643
ED G G+ P+ +EKIFEPFF T GTGLGLS+V ++ GG I ESE G GT
Sbjct: 43 EDNGPGIPPEDLEKIFEPFFRTDGRSRKIGGTGLGLSIVKKLVELHGGEISVESEPGGGT 102
Query: 644 IFRIFLP 650
F I LP
Sbjct: 103 TFTITLP 109
>gnl|CDD|182956 PRK11091, PRK11091, aerobic respiration control sensor protein
ArcB; Provisional.
Length = 779
Score = 92.3 bits (230), Expect = 4e-19
Identities = 88/303 (29%), Positives = 140/303 (46%), Gaps = 49/303 (16%)
Query: 503 IQKLISEPPQVKLTVDYERDL-WGVKTDLSQFEQVLVNLCVNAHHAIMLKESGSLTVRTR 561
+ L +E ++ ++ L V TD ++ Q+L NL NA + + G +TVR R
Sbjct: 368 LSGLQAEQKGLRFDLEPLLPLPHKVITDGTRLRQILWNLISNA---VKFTQQGGVTVRVR 424
Query: 562 NIPSTEIHTFNYSDLPTKDMVLVEVEDTGIGMSPDIMEKIFEPFFTTK-----KVGEGTG 616
Y + DM+ EVED+GIG+ D ++KIF ++ K K GTG
Sbjct: 425 -----------YEE---GDMLTFEVEDSGIGIPEDELDKIFAMYYQVKDSHGGKPATGTG 470
Query: 617 LGLSVVYGIIRQSGGYILPESEVGKGTIFRIFLPRYVQEHTQESHYSHDIAIIPQEEPAD 676
+GL+V + + GG I SE GKG+ F + + E + D
Sbjct: 471 IGLAVSKRLAQAMGGDITVTSEEGKGSCFTLTIHAPAVAEEVED----------AFDEDD 520
Query: 677 LTGNSAIVLLVED-EDSVRRGSKRMLETRGYTVHEAFSGTDALKVMEKLQGRVDIVISDV 735
+ + +LLVED E +V ++ +LE G +V A +G +AL++ + D+V+ D+
Sbjct: 521 MPLPALNILLVEDIELNVIV-ARSVLEKLGNSVDVAMTGKEALEMFD--PDEYDLVLLDI 577
Query: 736 VMPEMDGPTLLRELRKTYPSLKFIFISGYAEDAFSKNLPKDAKFSF-------LSKPFSL 788
+P+M G + RELR+ YP + A + N+ KD K LSKP S+
Sbjct: 578 QLPDMTGLDIARELRERYPREDLPPLV-----ALTANVLKDKKEYLDAGMDDVLSKPLSV 632
Query: 789 KQL 791
L
Sbjct: 633 PAL 635
>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 = 90.9 bits (226), Expect = 1e-18
Identities = 71/254 (27%), Positives = 122/254 (48%), Gaps = 41/254 (16%)
Query: 404 QKALEARMAQTQKLNAVGTLAGGIAHDFNNVLT--AILLSS--DHLLLQSRSSDASFAD- 458
+A EA +A+ ++ A ++ + HD N++ ++LL + H + F D
Sbjct: 460 MEASEA-LAEARQFEAFNRMSAFVVHDLKNLVAQLSLLLRNAERH------KDNPEFQDD 512
Query: 459 -LMEIKHNANRAAILVRQLLAFSRKQTMRLTVLNLTEVIGNLRMMIQKLISEPPQVKLTV 517
L +++ NR +++LLA R + + L + +++ LR I ++ P+ ++++
Sbjct: 513 MLETVENAVNR----MKKLLAQLRSKGLEEEKLCV-DLVDLLRRAIASKRAQGPRPEVSI 567
Query: 518 DYERDLWGVKTDLSQFEQVLVNLCVNAHHAIMLKESGSLTVRTRNIPSTEIHTFNYSDLP 577
D DL V+ D + E+VL +L NA A G + +R
Sbjct: 568 D--TDL-SVRADRERLERVLGHLVQNALEAT--PGEGRVAIRVEREC------------- 609
Query: 578 TKDMVLVEVEDTGIGMSPD-IMEKIFEPFFTTKKVGEGTGLGLSVVYGIIRQSGGYILPE 636
+E+ED+G GMSP I E++F+PF TTK G G G+G+ + + GG I E
Sbjct: 610 --GAARIEIEDSGCGMSPAFIRERLFKPFDTTK--GAGMGIGVYECRQYVEEIGGRIEVE 665
Query: 637 SEVGKGTIFRIFLP 650
S G+GTIF + LP
Sbjct: 666 STPGQGTIFTLVLP 679
>gnl|CDD|185245 PRK15347, PRK15347, two component system sensor kinase SsrA;
Provisional.
Length = 921
Score = 85.5 bits (212), Expect = 5e-17
Identities = 112/473 (23%), Positives = 177/473 (37%), Gaps = 128/473 (27%)
Query: 398 TVEITE--QKALEARMAQTQKLNAVGTLAGGIAHD----FNNVLTAILLSSDHLLLQSRS 451
T + E Q+A +A +++ L I+H+ N VL A+ L LQ+
Sbjct: 381 TQALAEAKQRAEQANKRKSEHLTT-------ISHEIRTPLNGVLGALEL------LQNTP 427
Query: 452 SDASFADLMEIKHNANRAA-ILVRQLLAFSRKQTMRLTV----LNLTEVIGNLRMMIQ-K 505
A DL + + ++ LL FSR ++ ++T+ L ++ + IQ
Sbjct: 428 LTAEQMDLADTARQCTLSLLAIINNLLDFSRIESGQMTLSLEETALLPLLDQAMLTIQGP 487
Query: 506 LISEP--------PQVKLTVDYERDLWGVKTDLSQFEQVLVNLCVNAHHAIMLKESG--S 555
S+ V L + D + Q+LVNL NA + E+G
Sbjct: 488 AQSKSLTLRTFVGAHVPLYLH---------LDSLRLRQILVNLLGNA---VKFTETGGIR 535
Query: 556 LTVRTRNIPSTEIHTFNYSDLPTKDMVLVEVEDTGIGMSPDIMEKIFEPFFTTKKVGEGT 615
L V+ + VEDTG G+ ++IF PF+ +GT
Sbjct: 536 LRVKRHE-----------------QQLCFTVEDTGCGIDIQQQQQIFTPFYQADTHSQGT 578
Query: 616 GLGLSVVYGIIRQSGGYILPESEVGKGTIFRIFLPRYVQEHT------------------ 657
GLGL++ + + GG + S G G+ F + LP + E+
Sbjct: 579 GLGLTIASSLAKMMGGELTLFSTPGVGSCFSLVLP--LNEYAPPEPLKGELSAPLALHRQ 636
Query: 658 --------QESH-----------------YSHDIAIIPQEEPADLTGN------SAIVLL 686
Q H Y II Q P + N +LL
Sbjct: 637 LSAWGITCQPGHQNPALLDPELAYLPGRLYDLLQQII-QGAPNEPVINLPLQPWQLQILL 695
Query: 687 VEDEDSVRRGSKRMLETRGYTVHEAFSGTDALKVMEKLQGRVDIVISDVVMPEMDGPTLL 746
V+D ++ R ML G V A SGT+AL++ Q R D+V+ D+ MP +DG
Sbjct: 696 VDDVETNRDIIGMMLVELGQQVTTAASGTEALELGR--QHRFDLVLMDIRMPGLDGLETT 753
Query: 747 RELRKTY----PSLKFIFISGYA--EDAFSKNLPKDAKF-SFLSKPFSLKQLA 792
+ R P + ++ A E+ + K A +L+KP +L QLA
Sbjct: 754 QLWRDDPNNLDPDCMIVALTANAAPEE---IHRCKKAGMNHYLTKPVTLAQLA 803
>gnl|CDD|182947 PRK11073, glnL, nitrogen regulation protein NR(II); Provisional.
Length = 348
Score = 78.2 bits (193), Expect = 7e-15
Identities = 77/265 (29%), Positives = 118/265 (44%), Gaps = 22/265 (8%)
Query: 390 PEEQAILYTVEITEQKALEARMAQTQKLNAVGTLAGGIAHDFNNVLTAILLSSDHLLLQS 449
PE +L + Q+ L Q + A L G+AH+ N L L LL
Sbjct: 100 PEGMILLEMAPMDNQRRLSQEQLQHAQQVAARDLVRGLAHEIKNPLGG--LRGAAQLLSK 157
Query: 450 RSSDASFADLME----IKHNANRAAILVRQLLAFSRKQTMRLTVLNLTEVIGNLRMMIQK 505
D + L E I A+R LV +LL R T ++ +V + ++
Sbjct: 158 ALPDPA---LTEYTKVIIEQADRLRNLVDRLLGPQRPGTH--VTESIHKVAERVVQLVS- 211
Query: 506 LISEPPQVKLTVDYERDLWGVKTDLSQFEQVLVNLCVNAHHAIMLKESGSLTVRTRNIPS 565
+ P V+L DY+ L + D Q EQVL+N+ NA A + E G++T+RTR
Sbjct: 212 -LELPDNVRLIRDYDPSLPELAHDPDQIEQVLLNIVRNALQA-LGPEGGTITLRTRTAFQ 269
Query: 566 TEIHTFNYSDLPTKDMVLVEVEDTGIGMSPDIMEKIFEPFFTTKKVGEGTGLGLSVVYGI 625
+H Y + +++ED G G+ P + + +F P + ++ GTGLGLS+ +
Sbjct: 270 LTLHGERY-----RLAARIDIEDNGPGIPPHLQDTLFYPMVSGRE--GGTGLGLSIARNL 322
Query: 626 IRQSGGYILPESEVGKGTIFRIFLP 650
I Q G I S G T F ++LP
Sbjct: 323 IDQHSGKIEFTSWPGH-TEFSVYLP 346
>gnl|CDD|182169 PRK09959, PRK09959, hybrid sensory histidine kinase in two-component
regulatory system with EvgA; Provisional.
Length = 1197
Score = 77.1 bits (189), Expect = 2e-14
Identities = 83/284 (29%), Positives = 127/284 (44%), Gaps = 31/284 (10%)
Query: 522 DLWGVKTDLSQFEQVLVNLCVNAHHAIMLKESGSLTVRTRNIPSTEIHTFNYSDLPTKDM 581
D + VK D F+QVL NL NA + G++ + T + H +
Sbjct: 818 DHYLVKIDPQAFKQVLSNLLSNA---LKFTTEGAVKITTSLGHIDDNHA----------V 864
Query: 582 VLVEVEDTGIGMSPDIMEKIFEPFFTTK--KVGEGTGLGLSVVYGIIRQSGGYILPESEV 639
+ + + D+G G+S + +++F+ + T + G+GLGL + +I+ G + ES
Sbjct: 865 IKMTIMDSGSGLSQEEQQQLFKRYSQTSAGRQQTGSGLGLMICKELIKNMQGDLSLESHP 924
Query: 640 GKGTIFRIFLPRYVQEHTQESHYSHDIAIIPQEEPADLTGNSAIVLLVEDEDSVRRGSKR 699
G GT F I +P E +Q+ A P P L+ +L+ +D + R KR
Sbjct: 925 GIGTTFTITIP---VEISQQVATVEAKAEQPITLPEKLS-----ILIADDHPTNRLLLKR 976
Query: 700 MLETRGYTVHEAFSGTDALKVMEKLQGRVDIVISDVVMPEMDGPTLLRELRKTYPSLKFI 759
L GY V EA G AL + D++I+DV MP MDG L R+LR+ SL
Sbjct: 977 QLNLLGYDVDEATDGVQALHKVS--MQHYDLLITDVNMPNMDGFELTRKLREQNSSLP-- 1032
Query: 760 FISGYAEDAFSKNLPKDAKFSF---LSKPFSLKQLATSVHELLQ 800
I G +A + K L KP +L L T + +L Q
Sbjct: 1033 -IWGLTANAQANEREKGLSCGMNLCLFKPLTLDVLKTHLSQLHQ 1075
>gnl|CDD|183099 PRK11361, PRK11361, acetoacetate metabolism regulatory protein
AtoC; Provisional.
Length = 457
Score = 72.6 bits (178), Expect = 4e-13
Identities = 39/117 (33%), Positives = 59/117 (50%), Gaps = 2/117 (1%)
Query: 684 VLLVEDEDSVRRGSKRMLETRGYTVHEAFSGTDALKVMEKLQGRVDIVISDVVMPEMDGP 743
+L+V+DED+VRR +G+ H A +G AL + D+V+ D+ MPEMDG
Sbjct: 7 ILIVDDEDNVRRMLSTAFALQGFETHCANNGRTALHLFA--DIHPDVVLMDIRMPEMDGI 64
Query: 744 TLLRELRKTYPSLKFIFISGYAEDAFSKNLPKDAKFSFLSKPFSLKQLATSVHELLQ 800
L+E+R I ++ YAE + + F ++ KPF L +L V LQ
Sbjct: 65 KALKEMRSHETRTPVILMTAYAEVETAVEALRCGAFDYVIKPFDLDELNLIVQRALQ 121
>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 = 71.9 bits (177), Expect = 6e-13
Identities = 82/380 (21%), Positives = 145/380 (38%), Gaps = 76/380 (20%)
Query: 289 RFNRFFNNIPMAIASIDKKGRILRTNAHFLKLFPNCTEGDGTSNDIFSIVHKNE-KRKII 347
RF +P A+ +D++G+I N +L D I +++ E +
Sbjct: 7 RFRAAAQALPDAVVVLDEEGQIEWCNPAAERLLGLRWPDDLGQR-ITNLIRHPEFVEYLA 65
Query: 348 AALYDANDQKSDISPIDSPHPQDENRYFRFYISATLDRSTEAP--EEQAILYTVEITEQK 405
A + P++ P P + R I AP EEQ +L ++T +
Sbjct: 66 AGRFSE--------PLELPSPINSERVLEIRI---------APYGEEQKLLVARDVTRLR 108
Query: 406 ALEARMAQTQKLNAVGTLAGGIAHDFNNVLTAI-----LLSSDHLLLQSRSSDASFADLM 460
LE +M + N ++H+ LT + L+ + ++M
Sbjct: 109 RLE-QMRRDFVAN--------VSHELRTPLTVLRGYLETLADGPDEDPEEWN--RALEIM 157
Query: 461 EIKHNANRAAILVRQLLAFSR----KQTMRLTVLNLTEVIGNLRMMIQKLISEPPQVKLT 516
+ R LV LL SR + +++ ++ +LR + L S+ ++T
Sbjct: 158 L--EQSQRMQSLVEDLLTLSRLESAASPLEDEPVDMPALLDHLRDEAEAL-SQGKNHQIT 214
Query: 517 VDYERDLWGVKTDLSQFEQVLVNLCVNA-HHAIMLKESGSLTVRTRNIPSTEIHTFNYSD 575
+ + + V D + NL NA + E G++TVR R
Sbjct: 215 FEIDGGVD-VLGDEDELRSAFSNLVSNAIKYT---PEGGTITVRWRR------------- 257
Query: 576 LPTKDMVLVEVEDTGIGMSPDIMEKIFEPFF--------TTKKVGEGTGLGLSVVYGIIR 627
V DTGIG++P+ + ++ E F+ T GTGLGL++V ++
Sbjct: 258 --DGGGAEFSVTDTGIGIAPEHLPRLTERFYRVDKSRSRDTG----GTGLGLAIVKHVLS 311
Query: 628 QSGGYILPESEVGKGTIFRI 647
+ + ESE+GKG+ F
Sbjct: 312 RHHARLEIESELGKGSTFSF 331
>gnl|CDD|182496 PRK10490, PRK10490, sensor protein KdpD; Provisional.
Length = 895
Score = 71.2 bits (175), Expect = 1e-12
Identities = 73/286 (25%), Positives = 114/286 (39%), Gaps = 54/286 (18%)
Query: 390 PEEQAILYTVEITEQKALE----ARMAQTQKLNAV-----GTLAGGIAHDFNNVLTAILL 440
PE+Q +L T + ALE + +L + L ++HD LT +L
Sbjct: 625 PEQQRLLETFTLLIANALERLTLTASEEQARLASEREQLRNALLAALSHDLRTPLT-VLF 683
Query: 441 SSDHLLLQSRSSDASFADLMEIKH----NANRAAI-----LVRQLLAFSRKQT----MRL 487
+L +S+ S H + R + LV LL +R Q+ +R
Sbjct: 684 GQAEILTLDLASEGS-------PHARQASEIRQQVLNTTRLVNNLLDMARIQSGGFNLRK 736
Query: 488 TVLNLTEVIGN-LRMMIQKLISEPPQVKLTVDYERDLWGVKTDLSQFEQVLVNLCVNAHH 546
L L EV+G+ L+M+ L P + + L + D FE+VL+NL NA
Sbjct: 737 EWLTLEEVVGSALQMLEPGLSGHP----INLSLPEPLTLIHVDGPLFERVLINLLENAV- 791
Query: 547 AIMLKESGSLTVRTRNIPSTEIHTFNYSDLPTKDMVLVEVEDTGIGMSPDIMEKIFEPFF 606
K +G+ I + + + ++V D G G+ P + IF+ F
Sbjct: 792 ----KYAGAQA--EIGIDAHV----------EGERLQLDVWDNGPGIPPGQEQLIFDKFA 835
Query: 607 TTKKVGE--GTGLGLSVVYGIIRQSGGYILPESEVGKGTIFRIFLP 650
K G GLGL++ I+ GG I E+ G FR+ LP
Sbjct: 836 RGNKESAIPGVGLGLAICRAIVEVHGGTIWAENRPEGGACFRVTLP 881
>gnl|CDD|162545 TIGR01818, ntrC, nitrogen regulation protein NR(I). This model
represents NtrC, a DNA-binding response regulator that
is phosphorylated by NtrB and interacts with sigma-54.
NtrC usually controls the expression of glutamine
synthase, GlnA, and may be called GlnL, GlnG, etc.
Length = 463
Score = 70.9 bits (174), Expect = 1e-12
Identities = 34/118 (28%), Positives = 60/118 (50%), Gaps = 2/118 (1%)
Query: 684 VLLVEDEDSVRRGSKRMLETRGYTVHEAFSGTDALKVMEKLQGRVDIVISDVVMPEMDGP 743
V +V+D+ S+R ++ L GY V + L+ + + Q D++I+DV MP DG
Sbjct: 1 VWVVDDDRSIRWVLEKALSRAGYEVRTFGNAASVLRALARGQP--DLLITDVRMPGEDGL 58
Query: 744 TLLRELRKTYPSLKFIFISGYAEDAFSKNLPKDAKFSFLSKPFSLKQLATSVHELLQS 801
LL +++K +P L I ++ +++ + + F +L KPF L + T V L
Sbjct: 59 DLLPQIKKRHPQLPVIVMTAHSDLDTAVAAYQRGAFEYLPKPFDLDEAVTLVERALAH 116
>gnl|CDD|185070 PRK15115, PRK15115, response regulator GlrR; Provisional.
Length = 444
Score = 69.5 bits (170), Expect = 3e-12
Identities = 42/123 (34%), Positives = 68/123 (55%), Gaps = 6/123 (4%)
Query: 680 NSAIVLLVEDEDSVRRGSKRMLETRGYTVHEAFSGTDALKVMEKLQGRVDIVISDVVMPE 739
A +LLV+D+ + + L + GY+V A SG +AL+V+ + +VD+VISD+ M E
Sbjct: 4 KPAHLLLVDDDPGLLKLLGMRLTSEGYSVVTAESGQEALRVLNR--EKVDLVISDLRMDE 61
Query: 740 MDGPTLLRELRKTYPSLKFIFIS--GYAEDAFSKNLPKDAKFSFLSKPFSLKQLATSVHE 797
MDG L E++K P + I ++ G DA + + FSFL+KP L ++ +
Sbjct: 62 MDGMQLFAEIQKVQPGMPVIILTAHGSIPDAVAAT--QQGVFSFLTKPVDRDALYKAIDD 119
Query: 798 LLQ 800
L+
Sbjct: 120 ALE 122
>gnl|CDD|182952 PRK11086, PRK11086, sensory histidine kinase DcuS; Provisional.
Length = 542
Score = 68.4 bits (168), Expect = 6e-12
Identities = 37/115 (32%), Positives = 58/115 (50%), Gaps = 17/115 (14%)
Query: 536 VLVNLCVNAHHAIMLKESGSLTVRTRNIPSTEIHTFNYSDLPTKDMVLVEVEDTGIGMSP 595
+L NL NA A+ +E G ++V + +Y + + EV D G G++P
Sbjct: 437 ILGNLIENALEAVGGEEGGEISV-----------SLHYRN----GWLHCEVSDDGPGIAP 481
Query: 596 DIMEKIFEPFFTTKKVGEGTGLGLSVVYGIIRQSGGYILPESEVGKGTIFRIFLP 650
D ++ IF+ ++TK G G+GL +V + GG I ESE G GT F + +P
Sbjct: 482 DEIDAIFDKGYSTK--GSNRGVGLYLVKQSVENLGGSIAVESEPGVGTQFFVQIP 534
>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 = 68.4 bits (167), Expect = 8e-12
Identities = 80/369 (21%), Positives = 151/369 (40%), Gaps = 59/369 (15%)
Query: 295 NNIPMAIASIDKKGRILRTNAHFLKLFPNCTEGDGTSNDIFSIVHKNEKRKIIAALYDAN 354
+ P+A +D GR++ N + KL + ++ + ++ + + AL +
Sbjct: 137 DAAPVAFVLLDPTGRVILDNQEYKKLATDLRV-KEPAHTVLDLLREAWR----EALAENW 191
Query: 355 DQKSDISPIDSPHPQDENRYFRFYI---------SATLDRSTEAPEEQAILYTV-EITEQ 404
Q+ S ++ + R R+ S D A E+ +L T+ +I+
Sbjct: 192 PQQLAFSNREARFDRGGGRPARWLSCTGSVIGMESDCADSFFCAAEQPYLLLTIADISNL 251
Query: 405 K---------ALEARMAQTQKLNAVG-TLAGGIAHDFNNVLTAILLSSDHLLLQSRSSDA 454
+ AL+A MA+ ++L A+ TL+ I H + L+S+ +LQ R DA
Sbjct: 252 REEQERARLSALQALMAEEERLEAIRETLSAAI-HRLQGPMN--LISAAISVLQRRGDDA 308
Query: 455 ---SFADLMEIKHNANRAAILVRQLLAFSRKQTMRLTVLNLTEVIGNLRMMIQKLISEPP 511
+ A +++ +A R + + + Q + + V NL ++ LR +I
Sbjct: 309 GNPASAAMLQQALSAGREHMEALRQVIPQSPQEIVVPV-NLNQI---LRDVITLSTPRLL 364
Query: 512 QVKLTVDYERDL---WGVKTDLSQ---FEQVLVNLCVNAHHAIMLKESGSLTVRTRNIPS 565
+ VD++ + +L F+ ++ N + + S+T
Sbjct: 365 AAGIVVDWQPAATLPAILGRELQLRSLFKALVDNAIEAMNIKGWKRRELSITTALNG--- 421
Query: 566 TEIHTFNYSDLPTKDMVLVEVEDTGIGMSPDIMEKIFEPFFTTK-KVGEGTGLGLSVVYG 624
D+++V + D+G G+ D+ K+FEPFFTTK + G+GLSV
Sbjct: 422 --------------DLIVVSILDSGPGIPQDLRYKVFEPFFTTKGGSRKHIGMGLSVAQE 467
Query: 625 IIRQSGGYI 633
I+ GG I
Sbjct: 468 IVADHGGII 476
>gnl|CDD|181772 PRK09303, PRK09303, adaptive-response sensory kinase; Validated.
Length = 380
Score = 62.7 bits (153), Expect = 4e-10
Identities = 70/245 (28%), Positives = 99/245 (40%), Gaps = 43/245 (17%)
Query: 427 IAHDFNNVLTAILLSSDHL-LLQSRSSDASFADLME--IKHNANRAAI---LVRQLLAFS 480
+AHD LTA L+ + L L Q L+E + L+ LL
Sbjct: 158 LAHDLRTPLTAASLALETLELGQIDEDTELKPALIEQLQDQARRQLEEIERLITDLLEVG 217
Query: 481 RKQTMRLTV----LNLT----EVIGNLRMMIQKLISEPPQVKLTVDYERDLWGVKTDLSQ 532
R + L L+L EVI L +++ D DL V D +
Sbjct: 218 RTRWEALRFNPQKLDLGSLCQEVILELEKRWLA-----KSLEIQTDIPSDLPSVYADQER 272
Query: 533 FEQVLVNLCVNAHHAIMLK---ESGSLTVRTRNIPSTEIHTFNYSDLPTKDMVLVEVEDT 589
QVL+NL NA +K E G++T+ + +H T V V + DT
Sbjct: 273 IRQVLLNLLDNA-----IKYTPEGGTITL-------SMLHR-------TTQKVQVSICDT 313
Query: 590 GIGMSPDIMEKIFEPFFTTKKVG--EGTGLGLSVVYGIIRQSGGYILPESEVGKGTIFRI 647
G G+ + E+IFE + EG G+GLSV I+R G I +SE G+G+ F
Sbjct: 314 GPGIPEEEQERIFEDRVRLPRDEGTEGYGIGLSVCRRIVRVHYGQIWVDSEPGQGSCFHF 373
Query: 648 FLPRY 652
LP Y
Sbjct: 374 TLPVY 378
>gnl|CDD|182583 PRK10604, PRK10604, sensor protein RstB; Provisional.
Length = 433
Score = 60.8 bits (148), Expect = 1e-09
Identities = 51/191 (26%), Positives = 85/191 (44%), Gaps = 34/191 (17%)
Query: 472 LVRQLLAFSR----KQTMRLTVLNLTEVIGNLRMMIQKLISEPPQVKLTVDYERDLWGVK 527
L+ +LL ++R + + L+ +L + + + ++ V+L ++ D +
Sbjct: 258 LIEELLTYARLDRPQNELHLSEPDLPAWLST-HLADIQAVTPEKTVRLDTPHQGDYGAL- 315
Query: 528 TDLSQFEQVLVNLCVNAHHAIMLKESGSLTVRTRNIPSTEIHTFNYSDLPTKDMVLVEVE 587
D+ E+VL NL NA L+ + S VR S L + + VE
Sbjct: 316 -DMRLMERVLDNLLNNA-----LRYAHS-RVRV-------------SLLLDGNQACLIVE 355
Query: 588 DTGIGMSPDIMEKIFEPFF-----TTKKVGEGTGLGLSVVYGIIRQSGGYI-LPESEVGK 641
D G G+ P+ E++FEPF + G G GLGL++V+ I GG + ESE+G
Sbjct: 356 DDGPGIPPEERERVFEPFVRLDPSRDRATG-GCGLGLAIVHSIALAMGGSVNCDESELG- 413
Query: 642 GTIFRIFLPRY 652
G F P +
Sbjct: 414 GARFSFSWPVW 424
>gnl|CDD|128724 smart00448, REC, cheY-homologous receiver domain. CheY regulates
the clockwise rotation of E. coli flagellar motors. This
domain contains a phosphoacceptor site that is
phosphorylated by histidine kinase homologues.
Length = 55
Score = 55.3 bits (134), Expect = 6e-08
Identities = 19/55 (34%), Positives = 37/55 (67%), Gaps = 2/55 (3%)
Query: 684 VLLVEDEDSVRRGSKRMLETRGYTVHEAFSGTDALKVMEKLQGRVDIVISDVVMP 738
+L+V+D+ +R K +LE GY V EA G +AL+++++ + D+++ D++MP
Sbjct: 3 ILVVDDDPLLRELLKALLEREGYEVDEATDGEEALELLKEEK--PDLILLDIMMP 55
>gnl|CDD|182412 PRK10365, PRK10365, transcriptional regulatory protein ZraR;
Provisional.
Length = 441
Score = 55.0 bits (132), Expect = 6e-08
Identities = 35/124 (28%), Positives = 64/124 (51%), Gaps = 4/124 (3%)
Query: 677 LTGNSAIVLLVEDEDSVRRGSKRMLETRGYTVHEAFSGTDALKVMEKLQGRV-DIVISDV 735
+T ++ +L+V+D+ S + +L GY V A SG AL E+++ +V D+V+ DV
Sbjct: 1 MTHDNIDILVVDDDISHCTILQALLRGWGYNVALANSGRQAL---EQVREQVFDLVLCDV 57
Query: 736 VMPEMDGPTLLRELRKTYPSLKFIFISGYAEDAFSKNLPKDAKFSFLSKPFSLKQLATSV 795
M EMDG L+E++ P++ + ++ Y+ + K +L KP L ++
Sbjct: 58 RMAEMDGIATLKEIKALNPAIPVLIMTAYSSVETAVEALKTGALDYLIKPLDFDNLQATL 117
Query: 796 HELL 799
+ L
Sbjct: 118 EKAL 121
>gnl|CDD|182772 PRK10841, PRK10841, hybrid sensory kinase in two-component
regulatory system with RcsB and YojN; Provisional.
Length = 924
Score = 54.2 bits (131), Expect = 1e-07
Identities = 42/142 (29%), Positives = 60/142 (42%), Gaps = 11/142 (7%)
Query: 622 VYGIIRQSGGYILPESEVGKG-----TIFRIFLPRYVQEHTQESHYSHDIAIIPQEEPAD 676
+I +I E+ G T LP + + S D A
Sbjct: 736 GRAVITFCRRHIGIPLEIAPGEWVHSTATPHELPALLARIYRIELESDDSANALPSTDKA 795
Query: 677 LTGNSAIVLLVEDEDSV-RRGSKRMLETRGYTVHEAFSGTDALKVMEKLQGRVDIVISDV 735
++ N +++LV D+ + RR L + GY A G DAL V+ K +DIV++DV
Sbjct: 796 VSDNDDMMILVVDDHPINRRLLADQLGSLGYQCKTANDGVDALNVLSK--NHIDIVLTDV 853
Query: 736 VMPEMDGPTL---LRELRKTYP 754
MP MDG L LR+L T P
Sbjct: 854 NMPNMDGYRLTQRLRQLGLTLP 875
Score = 53.8 bits (130), Expect = 2e-07
Identities = 41/140 (29%), Positives = 62/140 (44%), Gaps = 33/140 (23%)
Query: 534 EQVLVNLCVNAHHAIMLKESGS--LTVRTRNIPSTEIHTFNYSDLPTKDMVLVEVEDTGI 591
+QV+ NL NA I ++G L VR D + V DTG+
Sbjct: 564 QQVISNLLSNA---IKFTDTGCIVLHVRVD-----------------GDYLSFRVRDTGV 603
Query: 592 GMSPDIMEKIFEPFFTTKKVG-------EGTGLGLSVVYGIIRQSGGYILPESEVGKGTI 644
G+ + ++F+PFF +VG +GTGLGL++ +I G I +SE G G+
Sbjct: 604 GIPAKEVVRLFDPFF---QVGTGVQRNFQGTGLGLAICEKLINMMDGDISVDSEPGMGSQ 660
Query: 645 FRIFLPRY-VQEHTQESHYS 663
F I +P Y Q ++
Sbjct: 661 FTIRIPLYGAQYPQKKGVEG 680
>gnl|CDD|182842 PRK10923, glnG, nitrogen regulation protein NR(I); Provisional.
Length = 469
Score = 54.1 bits (130), Expect = 1e-07
Identities = 31/117 (26%), Positives = 62/117 (52%), Gaps = 2/117 (1%)
Query: 683 IVLLVEDEDSVRRGSKRMLETRGYTVHEAFSGTDALKVMEKLQGRVDIVISDVVMPEMDG 742
IV +V+D+ S+R +R L G T +G + L+ + D+++SD+ MP MDG
Sbjct: 5 IVWVVDDDSSIRWVLERALAGAGLTCTTFENGNEVLEALA--SKTPDVLLSDIRMPGMDG 62
Query: 743 PTLLRELRKTYPSLKFIFISGYAEDAFSKNLPKDAKFSFLSKPFSLKQLATSVHELL 799
LL+++++ +P L I ++ +++ + + + F +L KPF + + V +
Sbjct: 63 LALLKQIKQRHPMLPVIIMTAHSDLDAAVSAYQQGAFDYLPKPFDIDEAVALVERAI 119
>gnl|CDD|185013 PRK15053, dpiB, sensor histidine kinase DpiB; Provisional.
Length = 545
Score = 53.7 bits (129), Expect = 2e-07
Identities = 38/129 (29%), Positives = 61/129 (47%), Gaps = 14/129 (10%)
Query: 529 DLSQFEQVLVNLCVNAHHAIMLKESGSLTVRTRNIPSTEIHTFNYSDLPTKDMVLVEVED 588
D ++F ++ NL NA A + + G+ V E+ SD D V++EV D
Sbjct: 429 DSTEFAAIVGNLLDNAFEASLRSDEGNKIV--------ELF---LSD--EGDDVVIEVAD 475
Query: 589 TGIGMSPDIMEKIFEPFFTTKKVGEGT-GLGLSVVYGIIRQSGGYILPESEVGKGTIFRI 647
G G+ + +KIFE +T+ G G+GL ++ + + GG I E GT+F I
Sbjct: 476 QGCGVPESLRDKIFEQGVSTRADEPGEHGIGLYLIASYVTRCGGVITLEDNDPCGTLFSI 535
Query: 648 FLPRYVQEH 656
F+P+
Sbjct: 536 FIPKVKPND 544
>gnl|CDD|182968 PRK11107, PRK11107, hybrid sensory histidine kinase BarA;
Provisional.
Length = 919
Score = 53.3 bits (129), Expect = 2e-07
Identities = 35/125 (28%), Positives = 62/125 (49%), Gaps = 23/125 (18%)
Query: 533 FEQVLVNLCVNAHHAIMLKESGSLTVR--TRNIPSTEIHTFNYSDLPTKDMVLVEVEDTG 590
+Q++ NL NA I ESG++ + R + +T++ + V++ DTG
Sbjct: 409 LQQIITNLVGNA---IKFTESGNIDILVELRALSNTKVQ------------LEVQIRDTG 453
Query: 591 IGMSPDIMEKIFEPF-----FTTKKVGEGTGLGLSVVYGIIRQSGGYILPESEVGKGTIF 645
IG+S ++F+ F +++ G GTGLGL + ++ + GG I S+ +G+ F
Sbjct: 454 IGISERQQSQLFQAFRQADASISRRHG-GTGLGLVITQKLVNEMGGDISFHSQPNRGSTF 512
Query: 646 RIFLP 650
LP
Sbjct: 513 WFHLP 517
Score = 30.6 bits (70), Expect = 1.6
Identities = 14/53 (26%), Positives = 26/53 (49%), Gaps = 2/53 (3%)
Query: 700 MLETRGYTVHEAFSGTDALKVMEKLQGRVDIVISDVVMPEMDGPTLLRELRKT 752
+LE + V SG A++ ++ D+++ D+ MP MDG +R+
Sbjct: 686 LLEEQVEHVVLCDSGHQAVEQAKQRP--FDLILMDIQMPGMDGIRACELIRQL 736
>gnl|CDD|181815 PRK09390, fixJ, response regulator FixJ; Provisional.
Length = 202
Score = 53.1 bits (128), Expect = 3e-07
Identities = 30/107 (28%), Positives = 52/107 (48%), Gaps = 2/107 (1%)
Query: 681 SAIVLLVEDEDSVRRGSKRMLETRGYTVHEAFSGTDALKVMEKLQGRVDIVISDVVMPEM 740
+V +V+D++++R +L++ G+ V S L + L R V++DV MP +
Sbjct: 3 KGVVHVVDDDEAMRDSLAFLLDSAGFEVRLFESAQAFLDALPGL--RFGCVVTDVRMPGI 60
Query: 741 DGPTLLRELRKTYPSLKFIFISGYAEDAFSKNLPKDAKFSFLSKPFS 787
DG LLR L+ L I ++G+ + + K F+ KPF
Sbjct: 61 DGIELLRRLKARGSPLPVIVMTGHGDVPLAVEAMKLGAVDFIEKPFE 107
>gnl|CDD|181897 PRK09483, PRK09483, response regulator; Provisional.
Length = 217
Score = 52.0 bits (125), Expect = 6e-07
Identities = 34/103 (33%), Positives = 55/103 (53%), Gaps = 4/103 (3%)
Query: 684 VLLVEDEDSVRRGSKRMLE-TRGYTV-HEAFSGTDALKVMEKLQGRVDIVISDVVMPEMD 741
VLLV+D + VR G +R+LE +G V EA G DA+K VD+V+ D+ MP +
Sbjct: 4 VLLVDDHELVRAGIRRILEDIKGIKVVGEACCGEDAVKWCR--TNAVDVVLMDMNMPGIG 61
Query: 742 GPTLLRELRKTYPSLKFIFISGYAEDAFSKNLPKDAKFSFLSK 784
G R++ + P +K I ++ + E+ + + +LSK
Sbjct: 62 GLEATRKILRYTPDVKIIMLTVHTENPLPAKVMQAGAAGYLSK 104
>gnl|CDD|130454 TIGR01387, cztR_silR_copR, heavy metal response regulator. Members
of this family contain a response regulator receiver
domain (Pfam:PF00072) and an associated transcriptional
regulatory region (Pfam:PF00486). 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. Most members
encoded by genes adjacent to genes for encoding a member
of the heavy metal sensor histidine kinase family
(TIGRFAMs:TIGR01386), its partner in the two-component
response regulator system.
Length = 218
Score = 51.0 bits (122), Expect = 1e-06
Identities = 40/120 (33%), Positives = 62/120 (51%), Gaps = 8/120 (6%)
Query: 684 VLLVEDEDSVRRGSKRMLETRGYTVHEAFSGTDALKVMEKLQGRVDIVISDVVMPEMDGP 743
+L+VEDE ++ L GY V A +G D L + K D++I DV++P MDG
Sbjct: 1 ILVVEDEQKTAEYLQQGLSESGYVVDAASNGRDGLHLALK--DDYDLIILDVMLPGMDGW 58
Query: 744 TLLRELRKTYPSLKFIFISGYAEDAFS---KNLPKDAKFSFLSKPFSLKQLATSVHELLQ 800
+L+ LR++ +F++ A D+ + K L A +L KPFS +L V LL+
Sbjct: 59 QILQTLRRSGKQTPVLFLT--ARDSVADKVKGLDLGAD-DYLVKPFSFSELLARVRTLLR 115
>gnl|CDD|182711 PRK10766, PRK10766, DNA-binding transcriptional regulator TorR;
Provisional.
Length = 221
Score = 50.4 bits (121), Expect = 2e-06
Identities = 39/118 (33%), Positives = 61/118 (51%), Gaps = 7/118 (5%)
Query: 684 VLLVEDEDSVRRGSKRMLETRGYTVHEAFSGTDALKVMEKLQGRVDIVISDVVMPEMDGP 743
+L+VEDE R + E GYTV EA SG ++M+ VD+++ D+ +P DG
Sbjct: 5 ILVVEDEPVTRARLQGYFEQEGYTVSEAASGAGMREIMQ--NQHVDLILLDINLPGEDGL 62
Query: 744 TLLRELRKTYPSLKFIFISGYAEDAFSK--NLPKDAKFSFLSKPFSLKQLATSVHELL 799
L RELR ++ I ++G D+ + L A +++KP L++L V LL
Sbjct: 63 MLTRELRSR-STVGIILVTG-RTDSIDRIVGLEMGAD-DYVTKPLELRELLVRVKNLL 117
>gnl|CDD|182950 PRK11083, PRK11083, DNA-binding response regulator CreB;
Provisional.
Length = 228
Score = 50.3 bits (121), Expect = 2e-06
Identities = 28/79 (35%), Positives = 44/79 (55%), Gaps = 2/79 (2%)
Query: 684 VLLVEDEDSVRRGSKRMLETRGYTVHEAFSGTDALKVMEKLQGRVDIVISDVVMPEMDGP 743
+LLVEDE ++ L++ G+TV G AL + Q D+VI DV +P++ G
Sbjct: 6 ILLVEDEQAIADTLVYALQSEGFTVEWFERGLPALDKLR--QQPPDLVILDVGLPDISGF 63
Query: 744 TLLRELRKTYPSLKFIFIS 762
L R+L +P+L IF++
Sbjct: 64 ELCRQLLAFHPALPVIFLT 82
>gnl|CDD|181966 PRK09581, pleD, response regulator PleD; Reviewed.
Length = 457
Score = 50.3 bits (121), Expect = 2e-06
Identities = 29/83 (34%), Positives = 48/83 (57%), Gaps = 11/83 (13%)
Query: 681 SAIVLLVEDEDSVRRGSKRMLETR----GYTVHEAFSGTDALKVMEKLQGRVDIVISDVV 736
+A +L+V+D + + ++LE + YTV A SG +A+ + E+ Q DI++ DV+
Sbjct: 2 TARILVVDDIPA----NVKLLEAKLLAEYYTVLTASSGAEAIAICEREQ--PDIILLDVM 55
Query: 737 MPEMDGPTLLRELRKTYPSLKFI 759
MP MDG + R L K+ P+ I
Sbjct: 56 MPGMDGFEVCRRL-KSDPATTHI 77
>gnl|CDD|182522 PRK10529, PRK10529, DNA-binding transcriptional activator KdpE;
Provisional.
Length = 225
Score = 49.0 bits (117), Expect = 4e-06
Identities = 37/111 (33%), Positives = 64/111 (57%), Gaps = 9/111 (8%)
Query: 684 VLLVEDEDSVRRGSKRMLETRGYTVHEAFSGTDALK--VMEKLQGRVDIVISDVVMPEMD 741
VL+VEDE ++RR + LE G V EA + L+ ++E + D++I D+ +P+ D
Sbjct: 4 VLIVEDEQAIRRFLRTALEGDGMRVFEA----ETLQRGLLEAATRKPDLIILDLGLPDGD 59
Query: 742 GPTLLRELRKTYPSLKFIFISGYAEDAFSKNLPKDAKFS-FLSKPFSLKQL 791
G +R+LR+ + ++ I +S +E++ K DA +LSKPF + +L
Sbjct: 60 GIEFIRDLRQ-WSAIPVIVLSARSEES-DKIAALDAGADDYLSKPFGIGEL 108
>gnl|CDD|183013 PRK11173, PRK11173, two-component response regulator; Provisional.
Length = 237
Score = 49.2 bits (118), Expect = 5e-06
Identities = 26/80 (32%), Positives = 46/80 (57%), Gaps = 3/80 (3%)
Query: 684 VLLVEDEDSVRRGSKRMLETRGYTVHEAFSGTDALKVMEKLQGRVDIVISDVVMPEMDGP 743
+L+VEDE R K + E GY V EA G + +++ + +++VI D+ +P +G
Sbjct: 6 ILIVEDELVTRNTLKSIFEAEGYDVFEATDGAEMHQILS--ENDINLVIMDINLPGKNGL 63
Query: 744 TLLRELRKTYPSLKFIFISG 763
L RELR+ ++ +F++G
Sbjct: 64 LLARELREQ-ANVALMFLTG 82
>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 = 47.4 bits (113), Expect = 1e-05
Identities = 28/75 (37%), Positives = 40/75 (53%), Gaps = 5/75 (6%)
Query: 580 DMVLVEVEDTGIGMSPDIMEKIFEPFF----TTKKVGEGTGLGLSVVYGIIRQSGGYILP 635
D V V V + G G+ P+ + ++F+ F+ GEGTGLGL++V I+ GG
Sbjct: 384 DEVRVSVSNPGPGIPPEHLSRLFDRFYRVDPARSNSGEGTGLGLAIVRSIMEAHGGRASA 443
Query: 636 ESEVGKGTIFRIFLP 650
ES GK T F + P
Sbjct: 444 ESPDGK-TRFILRFP 457
>gnl|CDD|181885 PRK09470, cpxA, two-component sensor protein; Provisional.
Length = 461
Score = 47.2 bits (113), Expect = 2e-05
Identities = 23/62 (37%), Positives = 36/62 (58%), Gaps = 10/62 (16%)
Query: 579 KDMVLVEVEDTGIGMSPDIMEKIFEPFFTTKKVGE-------GTGLGLSVVYGIIRQSGG 631
KD + + V+D G G+ + E+IF PF+ +V E GTGLGL++V I+Q G
Sbjct: 381 KDGLTITVDDDGPGVPEEEREQIFRPFY---RVDEARDRESGGTGLGLAIVENAIQQHRG 437
Query: 632 YI 633
++
Sbjct: 438 WV 439
>gnl|CDD|181882 PRK09467, envZ, osmolarity sensor protein; Provisional.
Length = 435
Score = 47.2 bits (113), Expect = 2e-05
Identities = 27/76 (35%), Positives = 41/76 (53%), Gaps = 4/76 (5%)
Query: 578 TKDMVLVEVEDTGIGMSPDIMEKIFEPFFT--TKKVGEGTGLGLSVVYGIIRQSGGYI-L 634
+VED G G+ P+ ++ +F+PF + + GTGLGL++V I+ Q G + L
Sbjct: 358 EGKRAWFQVEDDGPGIPPEQLKHLFQPFTRGDSARGSSGTGLGLAIVKRIVDQHNGKVEL 417
Query: 635 PESEVGKGTIFRIFLP 650
SE G G R +LP
Sbjct: 418 GNSEEG-GLSARAWLP 432
>gnl|CDD|183172 PRK11517, PRK11517, transcriptional regulatory protein YedW;
Provisional.
Length = 223
Score = 46.0 bits (109), Expect = 3e-05
Identities = 31/117 (26%), Positives = 52/117 (44%), Gaps = 3/117 (2%)
Query: 684 VLLVEDEDSVRRGSKRMLETRGYTVHEAFSGTDALKVMEKLQGRVDIVISDVVMPEMDGP 743
+LL+ED + + L GY + G D L + L+ ++I D+++P MDG
Sbjct: 3 ILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYL--ALKDDYALIILDIMLPGMDGW 60
Query: 744 TLLRELRKTYPSLKFIFISGYAEDAFSKNLPKDAKFSFLSKPFSLKQLATSVHELLQ 800
+L+ LR + + + D + L A +L KPFS +L V L+
Sbjct: 61 QILQTLRTAKQTPVICLTARDSVDDRVRGLDSGAN-DYLVKPFSFSELLARVRAQLR 116
>gnl|CDD|182864 PRK10955, PRK10955, DNA-binding transcriptional regulator CpxR;
Provisional.
Length = 232
Score = 46.3 bits (110), Expect = 3e-05
Identities = 34/120 (28%), Positives = 61/120 (50%), Gaps = 10/120 (8%)
Query: 684 VLLVEDEDSVRRGSKRMLETRGYTVHEAFSGTDALKVMEKLQGRVDIVISDVVMPEMDGP 743
+LLV+D+ + K +LE G+ V A G AL + L +D+++ DV+MP+ +G
Sbjct: 4 ILLVDDDRELTSLLKELLEMEGFNVIVAHDGEQALDL---LDDSIDLLLLDVMMPKKNGI 60
Query: 744 TLLRELRKTYPSLKFIFISGYAED---AFSKNLPKDAKFSFLSKPFSLKQLATSVHELLQ 800
L+ELR+T+ I ++ + L D +L KPF+ ++L + +L+
Sbjct: 61 DTLKELRQTH-QTPVIMLTARGSELDRVLGLELGAD---DYLPKPFNDRELVARIRAILR 116
>gnl|CDD|170568 PRK10610, PRK10610, chemotaxis regulatory protein CheY;
Provisional.
Length = 129
Score = 45.7 bits (108), Expect = 4e-05
Identities = 30/68 (44%), Positives = 40/68 (58%), Gaps = 5/68 (7%)
Query: 685 LLVEDEDSVRRGSKRMLETRGY-TVHEAFSGTDALKVMEKLQ-GRVDIVISDVVMPEMDG 742
L+V+D ++RR + +L+ G+ V EA G DAL KLQ G VISD MP MDG
Sbjct: 9 LVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALN---KLQAGGFGFVISDWNMPNMDG 65
Query: 743 PTLLRELR 750
LL+ +R
Sbjct: 66 LELLKTIR 73
>gnl|CDD|185376 PRK15479, PRK15479, transcriptional regulatory protein TctD;
Provisional.
Length = 221
Score = 45.9 bits (109), Expect = 5e-05
Identities = 37/121 (30%), Positives = 54/121 (44%), Gaps = 10/121 (8%)
Query: 684 VLLVEDEDSVRRGSKRMLETRGYTVHEAFSGTDALKVMEKLQG-RVDIVISDVVMPEMDG 742
+LL ED + ++ L G+ V F D L LQ + + D+ MP MDG
Sbjct: 3 LLLAEDNRELAHWLEKALVQNGFAVDCVF---DGLAADHLLQSEMYALAVLDINMPGMDG 59
Query: 743 PTLLRELRK---TYPSLKFIFISGYAEDAFSKNLPKDAKFSFLSKPFSLKQLATSVHELL 799
+L+ LRK T P L S A+ N+ D +L KPF L++L + LL
Sbjct: 60 LEVLQRLRKRGQTLPVLLLTARSAVADRVKGLNVGAD---DYLPKPFELEELDARLRALL 116
Query: 800 Q 800
+
Sbjct: 117 R 117
>gnl|CDD|182652 PRK10693, PRK10693, response regulator of RpoS; Provisional.
Length = 303
Score = 45.0 bits (107), Expect = 7e-05
Identities = 16/54 (29%), Positives = 26/54 (48%), Gaps = 2/54 (3%)
Query: 709 HEAFSGTDALKVMEKLQGRVDIVISDVVMPEMDGPTLLRELRKTYPSLKFIFIS 762
A +G DAL+++ D++I D+ MP M+G + LR + IS
Sbjct: 1 VLAANGVDALELLGGF--TPDLIICDLAMPRMNGIEFVEHLRNRGDQTPVLVIS 52
>gnl|CDD|182168 PRK09958, PRK09958, DNA-binding transcriptional activator EvgA;
Provisional.
Length = 204
Score = 44.9 bits (106), Expect = 8e-05
Identities = 26/101 (25%), Positives = 46/101 (45%), Gaps = 3/101 (2%)
Query: 685 LLVEDEDSVRRGSKRMLETRGYTV-HEAFSGTDALKVMEKLQGRVDIVISDVVMPEMDGP 743
++++D + +L + E G A++ +E L+ DIVI DV +P ++G
Sbjct: 4 IIIDDHPLAIAAIRNLLIKNDIEILAELTEGGSAVQRVETLKP--DIVIIDVDIPGVNGI 61
Query: 744 TLLRELRKTYPSLKFIFISGYAEDAFSKNLPKDAKFSFLSK 784
+L LRK S I +S + + K+ F+SK
Sbjct: 62 QVLETLRKRQYSGIIIIVSAKNDHFYGKHCADAGANGFVSK 102
>gnl|CDD|182387 PRK10336, PRK10336, DNA-binding transcriptional regulator QseB;
Provisional.
Length = 219
Score = 43.3 bits (102), Expect = 2e-04
Identities = 34/122 (27%), Positives = 60/122 (49%), Gaps = 12/122 (9%)
Query: 684 VLLVEDEDSVRRGSKRMLETRGYTVH---EAFSGTDALKVMEKLQGRVDIVISDVVMPEM 740
+LL+ED+ + G K L G++V + G +AL D VI D+ +P M
Sbjct: 3 ILLIEDDMLIGDGIKTGLSKMGFSVDWFTQGRQGKEAL-----YSAPYDAVILDLTLPGM 57
Query: 741 DGPTLLRELRKTYPSLKFIFISGYAEDAFSKNLP--KDAKFSFLSKPFSLKQLATSVHEL 798
DG +LRE R+ + ++ A DA ++ + + +L KPF+L ++A + L
Sbjct: 58 DGRDILREWREKGQREPVLILT--ARDALAERVEGLRLGADDYLCKPFALIEVAARLEAL 115
Query: 799 LQ 800
++
Sbjct: 116 MR 117
>gnl|CDD|182962 PRK11100, PRK11100, sensory histidine kinase CreC; Provisional.
Length = 475
Score = 43.3 bits (103), Expect = 2e-04
Identities = 50/201 (24%), Positives = 81/201 (40%), Gaps = 35/201 (17%)
Query: 462 IKHNANRAAILVRQLLAFSRKQTMRLTVLNLTEVIGNLRMMIQKLISEP----PQVKLTV 517
I + R L+ +LL +R + R + L V L ++++L+ +T+
Sbjct: 297 ILTQSARLQQLIDRLLELARLEQ-RQELEVLEPV--ALAALLEELVEAREAQAAAKGITL 353
Query: 518 DYERDLWGVKTDLSQFEQVLVNLCVNAHHAIMLK---ESGSLTVRTRNIPSTEIHTFNYS 574
D V D Q L NL NA + E G++T+
Sbjct: 354 RLRPDDARVLGDPFLLRQALGNLLDNA-----IDFSPEGGTITLSAE------------- 395
Query: 575 DLPTKDMVLVEVEDTGIGMSPDI-MEKIFEPFFTTKKVGEG---TGLGLSVVYGIIRQSG 630
+ V + VED G G+ PD + +IFE F++ + G TGLGL+ V + R G
Sbjct: 396 --VDGEQVALSVEDQGPGI-PDYALPRIFERFYSLPRPANGRKSTGLGLAFVREVARLHG 452
Query: 631 GYILPESEVGKGTIFRIFLPR 651
G + + G + + LPR
Sbjct: 453 GEVTLRNRPEGGVLATLTLPR 473
>gnl|CDD|182619 PRK10651, PRK10651, transcriptional regulator NarL; Provisional.
Length = 216
Score = 43.5 bits (103), Expect = 2e-04
Identities = 26/91 (28%), Positives = 48/91 (52%), Gaps = 6/91 (6%)
Query: 681 SAIVLLVEDEDSVRRGSKRMLET--RGYTVHEAFSGTDALKVMEKLQGRVDIVISDVVMP 738
A +LL++D +R G K+++ V EA +G +++ E L D+++ D+ MP
Sbjct: 6 PATILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESL--DPDLILLDLNMP 63
Query: 739 EMDGPTLLRELRKTYPSLKFIF--ISGYAED 767
M+G L +LR+ S + + +S + ED
Sbjct: 64 GMNGLETLDKLREKSLSGRIVVFSVSNHEED 94
>gnl|CDD|182101 PRK09835, PRK09835, sensor kinase CusS; Provisional.
Length = 482
Score = 43.2 bits (102), Expect = 2e-04
Identities = 56/240 (23%), Positives = 104/240 (43%), Gaps = 43/240 (17%)
Query: 427 IAHDFNNVLTAILLSSDHLLLQSRS----SDASFADLMEIKHNANRAAILVRQLLAFSRK 482
IAH+ +T ++ ++ L QSRS D +++L E+ R A +V +L ++
Sbjct: 269 IAHEIRTPITNLITQTEIALSQSRSQKELEDVLYSNLEEL----TRMAKMVSDMLFLAQA 324
Query: 483 QTMRLTVLNLTEVIGNLRMMIQKLI------SEPPQVKLTVD-YERDLWGVKTDLSQFEQ 535
+L + + +L + K+ +E V+L + G D +
Sbjct: 325 DNNQLI---PEKKMLDLADEVGKVFDFFEAWAEERGVELRFVGDPCQVAG---DPLMLRR 378
Query: 536 VLVNLCVNAHHAIMLKESGSLTVRTRNIPSTEIHTFNYSDLPTKDMVLVEVEDTGIGMSP 595
+ NL NA R P+ E T + V + VE+ G ++P
Sbjct: 379 AISNLLSNA---------------LRYTPAGEAITVRCQE--VDHQVQLVVENPGTPIAP 421
Query: 596 DIMEKIFEPFF----TTKKVGEGTGLGLSVVYGIIRQSGGYILPESEVGKGTIFRIFLPR 651
+ + ++F+ F+ + ++ GEG+G+GL++V I+ G + S+ +GT F I LPR
Sbjct: 422 EHLPRLFDRFYRVDPSRQRKGEGSGIGLAIVKSIVVAHKGTVAVTSDA-RGTRFVISLPR 480
>gnl|CDD|182537 PRK10547, PRK10547, chemotaxis protein CheA; Provisional.
Length = 670
Score = 43.2 bits (102), Expect = 3e-04
Identities = 23/53 (43%), Positives = 35/53 (66%), Gaps = 3/53 (5%)
Query: 601 IFEPFFTT-KKVGE--GTGLGLSVVYGIIRQSGGYILPESEVGKGTIFRIFLP 650
IF P F+T ++V + G G+G+ VV I++ GG++ +S+ GKGT RI LP
Sbjct: 470 IFAPGFSTAEQVTDVSGRGVGMDVVKRNIQEMGGHVEIQSKQGKGTTIRILLP 522
>gnl|CDD|131922 TIGR02875, spore_0_A, sporulation transcription factor Spo0A.
Spo0A, the stage 0 sporulation protein A, is a
transcription factor critical for the initiation of
sporulation. It contains a response regulator receiver
domain (pfam00072). In Bacillus subtilis, it works
together with response regulator Spo0F and the
phosphotransferase Spo0B, both of which are missing from
at least some sporulating species and thus not part of
the endospore forming bacteria minimal gene set. Spo0A,
however, is universal among endospore-forming species.
Length = 262
Score = 43.2 bits (102), Expect = 3e-04
Identities = 25/92 (27%), Positives = 51/92 (55%), Gaps = 4/92 (4%)
Query: 711 AFSGTDALKVMEKLQGRVDIVISDVVMPEMDGPTLLRELRKTYPSL--KFIFISGYAEDA 768
A +G DAL+++++ Q D+V+ D++MP +DG +L +L + S + I +S + ++
Sbjct: 34 AHNGVDALELIKEQQP--DVVVLDIIMPHLDGIGVLEKLNEIELSARPRVIMLSAFGQEK 91
Query: 769 FSKNLPKDAKFSFLSKPFSLKQLATSVHELLQ 800
++ ++ KPF L+ LA + +L
Sbjct: 92 ITQRAVALGADYYVLKPFDLEILAARIRQLAW 123
>gnl|CDD|182612 PRK10643, PRK10643, DNA-binding transcriptional regulator BasR;
Provisional.
Length = 222
Score = 43.1 bits (102), Expect = 3e-04
Identities = 35/128 (27%), Positives = 63/128 (49%), Gaps = 13/128 (10%)
Query: 684 VLLVEDEDSVRRGSKRMLETRGYTVHEAFSGTDALKVMEKLQGRVDIVISDVVMPEMDGP 743
+L+VED+ + +G L+T GY A + +A ++E G +V+ D+ +P+ DG
Sbjct: 3 ILIVEDDTLLLQGLILALQTEGYACDCASTAREAEALLE--SGHYSLVVLDLGLPDEDGL 60
Query: 744 TLLRELRKTYPSLKFIFISGYAEDAFS---KNLPKDAKFSFLSKPFSLKQLATSVHELL- 799
LLR R+ +L + ++ A D L A +L KPF+L++L + L+
Sbjct: 61 HLLRRWRQKKYTLPVLILT--ARDTLEDRVAGLDVGAD-DYLVKPFALEELHARIRALIR 117
Query: 800 ----QSDS 803
Q ++
Sbjct: 118 RHQGQGEN 125
>gnl|CDD|182895 PRK11006, phoR, phosphate regulon sensor protein; Provisional.
Length = 430
Score = 42.7 bits (101), Expect = 4e-04
Identities = 53/195 (27%), Positives = 85/195 (43%), Gaps = 32/195 (16%)
Query: 466 ANRAAILVRQLLAFSRKQTMRLTVLNLTEVIGNLRMMIQKLISEP-----PQVKLTVDYE 520
R LV+QLL S+ + ++L E + ++ MM++ L E + +T + +
Sbjct: 250 TQRMEGLVKQLLTLSKIEAA--PTIDLNEKV-DVPMMLRVLEREAQTLSQGKHTITFEVD 306
Query: 521 RDLWGVKTDLSQFEQVLVNLCVNA-HHAIMLKESGSLTVRTRNIPSTEIHTFNYSDLPTK 579
L V + Q + NL NA +H E +TVR + +P
Sbjct: 307 NSL-KVFGNEDQLRSAISNLVYNAVNHT---PEGTHITVRWQRVPQG------------- 349
Query: 580 DMVLVEVEDTGIGMSPDIMEKIFEPFFTTKKVGE----GTGLGLSVVYGIIRQSGGYILP 635
VED G G++P+ + ++ E F+ K G+GLGL++V + +
Sbjct: 350 --AEFSVEDNGPGIAPEHIPRLTERFYRVDKARSRQTGGSGLGLAIVKHALSHHDSRLEI 407
Query: 636 ESEVGKGTIFRIFLP 650
ESEVGKGT F LP
Sbjct: 408 ESEVGKGTRFSFVLP 422
>gnl|CDD|131209 TIGR02154, PhoB, phosphate regulon transcriptional regulatory
protein PhoB. PhoB is a DNA-binding response regulator
protein acting with PhoR in a 2-component system
responding to phosphate ion. PhoB acts as a positive
regulator of gene expression for phosphate-related genes
such as phoA, phoS, phoE and ugpAB as well as itself. It
is often found proximal to genes for the high-affinity
phosphate ABC transporter (pstSCAB; GenProp0190) and
presumably regulates these as well.
Length = 226
Score = 40.8 bits (96), Expect = 0.001
Identities = 37/124 (29%), Positives = 62/124 (50%), Gaps = 10/124 (8%)
Query: 681 SAIVLLVEDEDSVRRGSKRMLETRGYTVHEAFSGTDAL-KVMEKLQGRVDIVISDVVMPE 739
+ +L+VEDE ++R LE GY V EA G +AL + E+ D+++ D ++P
Sbjct: 2 TRRILVVEDEPAIRELIAYNLEKAGYDVVEAGDGDEALTLINERGP---DLILLDWMLPG 58
Query: 740 MDGPTLLRELRKTYPSLKFIFI----SGYAEDAFSKNLPKDAKFSFLSKPFSLKQLATSV 795
G L R LR+ P + I I + E+ + L A +++KPFS ++L +
Sbjct: 59 TSGIELCRRLRR-RPETRAIPIIMLTARGEEEDRVRGLETGAD-DYITKPFSPRELLARI 116
Query: 796 HELL 799
+L
Sbjct: 117 KAVL 120
>gnl|CDD|185267 PRK15369, PRK15369, two component system sensor kinase SsrB;
Provisional.
Length = 211
Score = 40.8 bits (96), Expect = 0.001
Identities = 24/87 (27%), Positives = 45/87 (51%), Gaps = 6/87 (6%)
Query: 684 VLLVEDEDSVRRGSKRMLET--RGYTVHEAFSGTDALKVMEK-LQGRVDIVISDVVMPEM 740
+LLV+D + + G K ML R V + + L+V Q DIVI D+ +P M
Sbjct: 6 ILLVDDHELIINGIKNMLAPYPRYKIVGQV---DNGLEVYNACRQLEPDIVILDLGLPGM 62
Query: 741 DGPTLLRELRKTYPSLKFIFISGYAED 767
+G ++ +L + +P++ + ++ E+
Sbjct: 63 NGLDVIPQLHQRWPAMNILVLTARQEE 89
>gnl|CDD|183591 PRK12555, PRK12555, chemotaxis-specific methylesterase;
Provisional.
Length = 337
Score = 38.3 bits (90), Expect = 0.007
Identities = 18/75 (24%), Positives = 28/75 (37%), Gaps = 8/75 (10%)
Query: 684 VLLVEDEDSVRRGSKRMLETRGYTVHE----AFSGTDALKVMEKLQGRVDIVISDVVMPE 739
+ +V D +R L HE A G A++ D+++ D+ MP
Sbjct: 3 IGIVNDSPLAVEALRRALARDP--DHEVVWVATDGAQAVERCAAQ--PPDVILMDLEMPR 58
Query: 740 MDGPTLLRELRKTYP 754
MDG R + P
Sbjct: 59 MDGVEATRRIMAERP 73
>gnl|CDD|128670 smart00388, HisKA, His Kinase A (phosphoacceptor) domain.
Dimerisation and phosphoacceptor domain of histidine
kinases.
Length = 66
Score = 38.3 bits (90), Expect = 0.007
Identities = 18/66 (27%), Positives = 26/66 (39%), Gaps = 1/66 (1%)
Query: 419 AVGTLAGGIAHDFNNVLTAILLSSDHLLLQSRSSDASFADLMEIKHNANRAAILVRQLLA 478
A ++H+ LTAI LL + S+ L I +A R L+ LL
Sbjct: 1 AKREFLANLSHELRTPLTAIRGYL-ELLEDTELSEEQREYLETILRSAERLLRLINDLLD 59
Query: 479 FSRKQT 484
SR +
Sbjct: 60 LSRIEA 65
>gnl|CDD|182154 PRK09935, PRK09935, transcriptional regulator FimZ; Provisional.
Length = 210
Score = 37.9 bits (88), Expect = 0.009
Identities = 25/116 (21%), Positives = 55/116 (47%), Gaps = 1/116 (0%)
Query: 685 LLVEDEDSVRRGSKRMLETRGYTVHEAFSGTDALKVMEKLQGR-VDIVISDVVMPEMDGP 743
+++ D + R S +L + + D ++ L+ R VD++I D+ +P DG
Sbjct: 6 VIIMDTHPIIRMSIEVLLQKNSELQIVLKTDDYRITIDYLRTRPVDLIIMDIDLPGTDGF 65
Query: 744 TLLRELRKTYPSLKFIFISGYAEDAFSKNLPKDAKFSFLSKPFSLKQLATSVHELL 799
T L+ +++ ++K +F+S +E ++ + F+SK + +V +L
Sbjct: 66 TFLKRIKQIQSTVKVLFLSSKSECFYAGRAIQAGANGFVSKCNDQNDIFHAVQMIL 121
>gnl|CDD|181883 PRK09468, ompR, osmolarity response regulator; Provisional.
Length = 239
Score = 38.0 bits (89), Expect = 0.010
Identities = 29/119 (24%), Positives = 58/119 (48%), Gaps = 8/119 (6%)
Query: 684 VLLVEDEDSVRRGSKRMLETRGYTVHEAFSGTDALKVMEKLQGR--VDIVISDVVMPEMD 741
+L+V+D+ +R +R L +G+ V A + + M++L R +++ D+++P D
Sbjct: 8 ILVVDDDMRLRALLERYLTEQGFQVRSAANA----EQMDRLLTRESFHLMVLDLMLPGED 63
Query: 742 GPTLLRELRKTYPSLKFIFISGYAEDAFS-KNLPKDAKFSFLSKPFSLKQLATSVHELL 799
G ++ R LR I ++ E+ L A +L KPF+ ++L + +L
Sbjct: 64 GLSICRRLRSQNNPTPIIMLTAKGEEVDRIVGLEIGAD-DYLPKPFNPRELLARIRAVL 121
>gnl|CDD|179106 PRK00742, PRK00742, chemotaxis-specific methylesterase;
Provisional.
Length = 354
Score = 37.1 bits (87), Expect = 0.019
Identities = 23/73 (31%), Positives = 37/73 (50%), Gaps = 4/73 (5%)
Query: 684 VLLVEDEDSVRRGSKRMLET-RGYTV-HEAFSGTDALKVMEKLQGRVDIVISDVVMPEMD 741
VL+V+D +RR +L + V A G +A + ++KL D++ DV MP MD
Sbjct: 6 VLVVDDSAFMRRLISEILNSDPDIEVVGTAPDGLEAREKIKKL--NPDVITLDVEMPVMD 63
Query: 742 GPTLLRELRKTYP 754
G L ++ + P
Sbjct: 64 GLDALEKIMRLRP 76
>gnl|CDD|182665 PRK10710, PRK10710, DNA-binding transcriptional regulator BaeR;
Provisional.
Length = 240
Score = 37.0 bits (86), Expect = 0.021
Identities = 21/78 (26%), Positives = 38/78 (48%), Gaps = 2/78 (2%)
Query: 674 PADLTGNSAIVLLVEDEDSVRRGSKRMLETRGYTVHEAFSGTDALKVMEKLQGRVDIVIS 733
+ N+ +L+VEDE + + L+ Y G + L + Q D+++
Sbjct: 3 ELPIDENTPRILIVEDEPKLGQLLIDYLQAASYATTLLSHGDEVLPYVR--QTPPDLILL 60
Query: 734 DVVMPEMDGPTLLRELRK 751
D+++P DG TL RE+R+
Sbjct: 61 DLMLPGTDGLTLCREIRR 78
>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 = 36.6 bits (85), Expect = 0.024
Identities = 21/102 (20%), Positives = 36/102 (35%), Gaps = 12/102 (11%)
Query: 166 LDHSPVGFMSADHQGKILYINATLAEWIGIDLTTFTSKS---ISIGDITAGEGLALIQAI 222
LD P D G++ Y NA AE G+ K+ + + A AL +A+
Sbjct: 1 LDSLPDALAVLDPDGRVRYANAAAAELFGLPPEELLGKTLAELLPPEDAARLERALRRAL 60
Query: 223 RTEPSHQKITTLDLD---------LRRIDNGHGIPVKIVHHI 255
E + L L+ L + + G + ++
Sbjct: 61 EGEEPIDFLEELLLNGEERHYELRLTPLRDPDGEVIGVLVIS 102
Score = 31.2 bits (71), Expect = 1.1
Identities = 22/116 (18%), Positives = 48/116 (41%), Gaps = 9/116 (7%)
Query: 294 FNNIPMAIASIDKKGRILRTNAHFLKLFPNCTEGDG---TSNDIFSIVHKNEKRKIIAAL 350
+++P A+A +D GR+ NA +LF + T ++ ++ AL
Sbjct: 1 LDSLPDALAVLDPDGRVRYANAAAAELF-GLPPEELLGKTLAELLPPED---AARLERAL 56
Query: 351 YDANDQKSDISPIDSPHPQDENRYFRFYISATLDRSTEAPEEQAILYTVEITEQKA 406
A + + I ++ E R++ ++ D E ++ + +ITE++
Sbjct: 57 RRALEGEEPIDFLEELLLNGEERHYELRLTPLRDPDGEV--IGVLVISRDITERRR 110
>gnl|CDD|163499 TIGR03787, marine_sort_RR, proteobacterial dedicated sortase system
response regulator. This model describes a family of
DNA-binding response regulator proteins, associated with
an adjacent histidine kinase (TIGR03785) to form a
two-component system. This system co-occurs with, and
often is adjacent to, a proteobacterial variant form of
the protein sorting transpeptidase called sortase
(TIGR03784), and a single target protein for the
sortase. We give this protein the gene symbol pdsR, for
Proteobacterial Dedicated Sortase system Response
regulator.
Length = 227
Score = 35.9 bits (83), Expect = 0.038
Identities = 24/82 (29%), Positives = 42/82 (51%), Gaps = 6/82 (7%)
Query: 684 VLLVEDEDSVRRGSKRMLETRGYTVHEAFSGTDALKVMEKLQGRV-DIVISDVVM-PEMD 741
+ +VEDE ++R L+ +GY V A M+ + R+ D+ I D+ + E+D
Sbjct: 3 IAIVEDEAAIRENYADALKRQGYQVTTYADRPSA---MQAFRQRLPDLAIIDIGLGEEID 59
Query: 742 GP-TLLRELRKTYPSLKFIFIS 762
G L ++LR +L IF++
Sbjct: 60 GGFMLCQDLRSLSATLPIIFLT 81
>gnl|CDD|179626 PRK03660, PRK03660, anti-sigma F factor; Provisional.
Length = 146
Score = 35.7 bits (83), Expect = 0.045
Identities = 23/71 (32%), Positives = 39/71 (54%), Gaps = 6/71 (8%)
Query: 578 TKDMVLVEVEDTGIGMSPDIMEKIFEPFFTTKKVGEGTGLGLSVVYGIIRQSGGYILPES 637
++ + + V D G G+ DI E + +P +TTK E +G+G +V+ + + + ES
Sbjct: 71 EEEELEITVRDEGKGI-EDIEEAM-QPLYTTKPELERSGMGFTVMESFMDE----VEVES 124
Query: 638 EVGKGTIFRIF 648
E GKGT R+
Sbjct: 125 EPGKGTTVRMK 135
>gnl|CDD|182431 PRK10403, PRK10403, transcriptional regulator NarP; Provisional.
Length = 215
Score = 35.6 bits (82), Expect = 0.049
Identities = 23/70 (32%), Positives = 37/70 (52%), Gaps = 4/70 (5%)
Query: 684 VLLVEDEDSVRRGSKRMLET--RGYTVHEAFSGTDALKVMEKLQGRVDIVISDVVMPEMD 741
VL+V+D +RRG +++LE V EA G A+ + +L D+++ D+ M M
Sbjct: 9 VLIVDDHPLMRRGVRQLLELDPGFEVVAEAGDGASAIDLANRLD--PDVILLDLNMKGMS 66
Query: 742 GPTLLRELRK 751
G L LR+
Sbjct: 67 GLDTLNALRR 76
>gnl|CDD|130980 TIGR01925, spIIAB, anti-sigma F factor. This model describes the
SpoIIAB anti-sigma F factor. Sigma F regulates spore
development in B subtilis. SpoIIAB binds to sigma F,
preventing formation of the transcription complex at the
promoter. SpoIIAA (anti-anti-sigma F factor) binds to
SpoIIAB to inhibit association with sigma F, however
SpoIIAB can phosphorylate SpoIIAA, causing
disassociation of the SpoIIAA/B complex. The SpoIIE
phosphatase dephosphorylates SpoIIAA.
Length = 137
Score = 35.7 bits (82), Expect = 0.055
Identities = 20/68 (29%), Positives = 34/68 (50%), Gaps = 6/68 (8%)
Query: 580 DMVLVEVEDTGIGMSPDIMEKIFEPFFTTKKVGEGTGLGLSVVYGIIRQSGGYILPESEV 639
V + V D GIG+ +E+ EP +T+K E +G+G +V+ + + +SE
Sbjct: 73 HEVYITVRDEGIGIEN--LEEAREPLYTSKPELERSGMGFTVMENFMDD----VSVDSEK 126
Query: 640 GKGTIFRI 647
KGT +
Sbjct: 127 EKGTKIIM 134
>gnl|CDD|182539 PRK10549, PRK10549, signal transduction histidine-protein kinase
BaeS; Provisional.
Length = 466
Score = 35.0 bits (81), Expect = 0.081
Identities = 16/58 (27%), Positives = 31/58 (53%), Gaps = 4/58 (6%)
Query: 580 DMVLVEVEDTGIGMSPDIMEKIFEPFFTTK----KVGEGTGLGLSVVYGIIRQSGGYI 633
+ + D+ G+S + ++K+FE F+ T+ + G+GLGL++ I+ G I
Sbjct: 383 KTLRLTFADSAPGVSDEQLQKLFERFYRTEGSRNRASGGSGLGLAICLNIVEAHNGRI 440
>gnl|CDD|182388 PRK10337, PRK10337, sensor protein QseC; Provisional.
Length = 449
Score = 34.2 bits (79), Expect = 0.14
Identities = 50/182 (27%), Positives = 79/182 (43%), Gaps = 37/182 (20%)
Query: 459 LMEIKHNANRAAILVRQLLAFSRKQTMRLTVLNLTEVIGNLRMMIQKLISEPPQVKLTVD 518
L+++ +RA LV QLL SR + L L I L ++Q +
Sbjct: 276 LLQLHAGIDRATRLVDQLLTLSRLDS--LDNLQDVAEI-PLEDLLQSAVM---------- 322
Query: 519 YERDLWGVKTDLSQFEQVLVNLCVNAHHAIMLKESGSLTVRTRNIPSTEIHTFNYSDLPT 578
D++ +Q + V L +NAH I + L++ RN+ I YS P
Sbjct: 323 ---DIYH----TAQQAGIDVRLTLNAHPVIRTGQPLLLSLLVRNLLDNAIR---YS--PQ 370
Query: 579 KDMVLV-------EVEDTGIGMSPDIMEKIFEPFFTTKKVGE---GTGLGLSVVYGIIRQ 628
+V V V D G G++P+ + +I E F+ + G+ G+GLGLS+V I +
Sbjct: 371 GSVVDVTLNARNFTVRDNGPGVTPEALARIGERFY--RPPGQEATGSGLGLSIVRRIAKL 428
Query: 629 SG 630
G
Sbjct: 429 HG 430
>gnl|CDD|128402 smart00091, PAS, PAS domain. PAS motifs appear in archaea,
eubacteria and eukarya. Probably the most surprising
identification of a PAS domain was that in EAG-like
K+-channels ([1]; Ponting & Aravind, in press).
Length = 67
Score = 33.5 bits (77), Expect = 0.19
Identities = 13/40 (32%), Positives = 17/40 (42%)
Query: 166 LDHSPVGFMSADHQGKILYINATLAEWIGIDLTTFTSKSI 205
L+ P G D G+ILY N E +G KS+
Sbjct: 7 LESLPDGIFVLDLDGRILYANPAAEELLGYSPEELIGKSL 46
Score = 32.8 bits (75), Expect = 0.36
Identities = 13/65 (20%), Positives = 26/65 (40%), Gaps = 1/65 (1%)
Query: 289 RFNRFFNNIPMAIASIDKKGRILRTNAHFLKLFPNCTEGDGTSNDIFSIVHKNEKRKIIA 348
R ++P I +D GRIL N +L + + + ++H ++ ++
Sbjct: 2 RLRAILESLPDGIFVLDLDGRILYANPAAEELL-GYSPEELIGKSLLELIHPEDREEVQE 60
Query: 349 ALYDA 353
AL
Sbjct: 61 ALQRL 65
>gnl|CDD|161776 TIGR00229, sensory_box, PAS domain S-box. The PAS domain was
previously described. This sensory box, or S-box domain
occupies the central portion of the PAS domain but is
more widely distributed. It is often tandemly repeated.
Known prosthetic groups bound in the S-box domain
include heme in the oxygen sensor FixL, FAD in the redox
potential sensor NifL, and a 4-hydroxycinnamyl
chromophore in photoactive yellow protein. Proteins
containing the domain often contain other regulatory
domains such as response regulator or sensor histidine
kinase domains. Other S-box proteins include
phytochromes and the aryl hydrocarbon receptor nuclear
translocator.
Length = 124
Score = 32.6 bits (75), Expect = 0.39
Identities = 12/43 (27%), Positives = 19/43 (44%), Gaps = 6/43 (13%)
Query: 152 QEKFFRELQNAIDYLDHSPVGFMSADHQGKILYINATLAEWIG 194
E+ +R + + SP + D +G ILY+N E G
Sbjct: 1 SEERYRAI------FESSPDAIIVIDLEGNILYVNPAFEEIFG 37
Score = 30.7 bits (70), Expect = 1.6
Identities = 34/134 (25%), Positives = 53/134 (39%), Gaps = 25/134 (18%)
Query: 28 LETIFMDSEPEGILITNERGHIIYANNAYNALTNAVWNKRTKSLESLLSRNQ-----EAS 82
IF +S P+ I++ + G+I+Y N A+ + S E L+ RN E
Sbjct: 5 YRAIF-ESSPDAIIVIDLEGNILYVNPAFEEIFGY-------SAEELIGRNVLELIPEED 56
Query: 83 EALYRLINSLRLKSEG---SEEFRLMQSLNNYSQNSEPHWYRLKARVLPISLHKEKLLYA 139
R L+ E SEE R+ + + ++ V PI + +L
Sbjct: 57 REEVRERIERLLEGEREPVSEERRV--------RRKDGSEIWVEVSVSPIRTNGGELGVV 108
Query: 140 WRITDITSERKDQE 153
+ DIT ERK E
Sbjct: 109 GIVRDIT-ERKQAE 121
Score = 29.2 bits (66), Expect = 4.9
Identities = 13/33 (39%), Positives = 18/33 (54%)
Query: 289 RFNRFFNNIPMAIASIDKKGRILRTNAHFLKLF 321
R+ F + P AI ID +G IL N F ++F
Sbjct: 4 RYRAIFESSPDAIIVIDLEGNILYVNPAFEEIF 36
>gnl|CDD|182702 PRK10755, PRK10755, sensor protein BasS/PmrB; Provisional.
Length = 356
Score = 32.2 bits (74), Expect = 0.52
Identities = 20/73 (27%), Positives = 33/73 (45%), Gaps = 1/73 (1%)
Query: 580 DMVLVEVEDTGIGMSPDIMEKIFEPFFTTKKVGEGTGLGLSVVYGIIR-QSGGYILPESE 638
++ VED G G+ ++ + F G GLGLS+V I + G + L +
Sbjct: 278 GGAVLAVEDEGPGIDESKCGELSKAFVRMDSRYGGIGLGLSIVSRITQLHHGQFFLQNRQ 337
Query: 639 VGKGTIFRIFLPR 651
GT ++LP+
Sbjct: 338 ERSGTRAWVWLPK 350
>gnl|CDD|161941 TIGR00585, mutl, DNA mismatch repair protein MutL. All proteins in
this family for which the functions are known are
involved in the process of generalized mismatch repair.
This family is based on the phylogenomic analysis of JA
Eisen (1999, Ph.D. Thesis, Stanford University).
Length = 312
Score = 32.2 bits (74), Expect = 0.57
Identities = 9/27 (33%), Positives = 14/27 (51%)
Query: 583 LVEVEDTGIGMSPDIMEKIFEPFFTTK 609
L+EV D G G+ + + E T+K
Sbjct: 53 LIEVSDNGSGIDKEDLPLACERHATSK 79
>gnl|CDD|178599 PLN03029, PLN03029, type-a response regulator protein; Provisional.
Length = 222
Score = 31.5 bits (71), Expect = 0.76
Identities = 28/102 (27%), Positives = 49/102 (48%), Gaps = 20/102 (19%)
Query: 677 LTGNSAI-VLLVEDEDSVRRGSKRMLETRGYTVHEAFSGTDALKVM-------------- 721
+T S VL V+D R+ +++L+T Y V SG+ ALK +
Sbjct: 3 ITTESQFHVLAVDDSLIDRKLIEKLLKTSSYQVTTVDSGSKALKFLGLHEDDRSNPDTPS 62
Query: 722 ----EKLQGRVDIVISDVVMPEMDGPTLLRELRKTYPSLKFI 759
+ V+++I+D MP M G LL++++++ SL+ I
Sbjct: 63 VSPNSHQEVEVNLIITDYCMPGMTGYDLLKKIKES-SSLRNI 103
>gnl|CDD|132434 TIGR03393, indolpyr_decarb, indolepyruvate decarboxylase, Erwinia
family. A family of closely related, thiamine
pyrophosphate-dependent enzymes includes indolepyruvate
decarboxylase (EC 4.1.1.74), phenylpyruvate
decarboxylase (EC 4.1.1.43), pyruvate decarboxylase (EC
4.1.1.1), branched-chain alpha-ketoacid decarboxylase,
etc.. Members of this group of homologs may overlap in
specificity. Within the larger family, this model
represents a clade of bacterial indolepyruvate
decarboxylases, part of a pathway for biosynthesis of
the plant hormone indole-3-acetic acid. Typically, these
species interact with plants, as pathogens or as
beneficial, root-associated bacteria.
Length = 539
Score = 31.8 bits (72), Expect = 0.77
Identities = 25/111 (22%), Positives = 40/111 (36%), Gaps = 38/111 (34%)
Query: 677 LTGNSAIVLLVEDEDSVRRGSKRM----LETRGYTVHEAFSGTD---------------- 716
L G+ + L +++ S+ R + L GYTV A G +
Sbjct: 428 LIGDGSAQLTIQELGSMLRDKQHPIILVLNNEGYTVERAIHGAEQRYNDIALWNWTHLPQ 487
Query: 717 AL------------------KVMEKLQGRVDIVISDVVMPEMDGPTLLREL 749
AL V+EK+ + + +VV+P+ D P LL L
Sbjct: 488 ALSLDPQSECWRVSEAEQLADVLEKVAAHERLSLIEVVLPKADIPPLLGAL 538
>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 = 31.6 bits (72), Expect = 0.81
Identities = 21/73 (28%), Positives = 33/73 (45%), Gaps = 5/73 (6%)
Query: 583 LVEVEDTGIGMSPDIMEKIFEPFFT----TKKVGEGTGLGLSVVYGIIRQSGGYILPESE 638
L+ V + G + D+ E++F+ + + GLGL +V I G I E+
Sbjct: 631 LLTVSNEGPPLPEDMGEQLFDSMVSVRDQGAQDQPHLGLGLYIVRLIADFHQGRIQAENR 690
Query: 639 V-GKGTIFRIFLP 650
G +FRI LP
Sbjct: 691 QQNDGVVFRISLP 703
>gnl|CDD|182754 PRK10815, PRK10815, sensor protein PhoQ; Provisional.
Length = 485
Score = 31.1 bits (71), Expect = 1.3
Identities = 24/72 (33%), Positives = 33/72 (45%), Gaps = 1/72 (1%)
Query: 578 TKDMVLVEVEDTGIGMSPDIMEKIFEPFFTTKKVGEGTGLGLSVVYGIIRQSGGYIL-PE 636
T + + + VED G G+ E IF+ + G GLGLSV I Q G I +
Sbjct: 405 TDEHLHIVVEDDGPGIPESKRELIFDRGQRADTLRPGQGLGLSVAREITEQYEGKISAGD 464
Query: 637 SEVGKGTIFRIF 648
S +G + IF
Sbjct: 465 SPLGGARMEVIF 476
>gnl|CDD|182660 PRK10701, PRK10701, DNA-binding transcriptional regulator RstA;
Provisional.
Length = 240
Score = 30.8 bits (70), Expect = 1.6
Identities = 13/41 (31%), Positives = 23/41 (56%), Gaps = 2/41 (4%)
Query: 714 GTDALKVMEKLQGRVDIVISDVVMPEMDGPTLLRELRKTYP 754
G A + + Q D+V+ D+++P DG T+ R+LR +
Sbjct: 34 GDRAEATILREQP--DLVLLDIMLPGKDGMTICRDLRPKWQ 72
>gnl|CDD|162672 TIGR02040, PpsR-CrtJ, transcriptional regulator PpsR. This model
represents the transcriptional regulator PpsR which is
strictly associated with photosynthetic proteobacteria
and found in photosynthetic operons. PpsR has been
reported to be a repressor. These proteins contain a
Helix-Turn_Helix motif of the "fis" type (pfam02954).
Length = 442
Score = 30.2 bits (68), Expect = 2.0
Identities = 13/46 (28%), Positives = 18/46 (39%)
Query: 275 NCDSGDPSGTIANMRFNRFFNNIPMAIASIDKKGRILRTNAHFLKL 320
+ P G + R ++ P AI D G I N FL+L
Sbjct: 239 PAGATQPVGDELSENLARLYHEAPDAIVFSDADGTIRGANEAFLEL 284
>gnl|CDD|177538 PHA03136, PHA03136, thymidine kinase; Provisional.
Length = 378
Score = 30.1 bits (67), Expect = 2.2
Identities = 15/46 (32%), Positives = 20/46 (43%), Gaps = 4/46 (8%)
Query: 200 FTSKSISIGDITAGEGLALIQAIRTEPSHQKITTLDLD----LRRI 241
F + G + G+ +ALI I EP I +DLD RI
Sbjct: 164 FPAAQFLSGALEFGDLIALISGIPDEPHGGNIVIMDLDECEHAERI 209
>gnl|CDD|179773 PRK04184, PRK04184, DNA topoisomerase VI subunit B; Validated.
Length = 535
Score = 29.9 bits (68), Expect = 2.5
Identities = 16/54 (29%), Positives = 25/54 (46%), Gaps = 14/54 (25%)
Query: 579 KDMVLVEVEDTGIGMSPDIMEKIF-EPFFTTKKVGEGTGLGLSVVYGIIRQSGG 631
KD V VED G G+ P+ + K+F + + +K + +RQS G
Sbjct: 72 KDHYRVTVEDNGPGIPPEEIPKVFGKLLYGSK-------------FHNLRQSRG 112
>gnl|CDD|152018 pfam11582, DUF3240, Protein of unknown function (DUF3240). This
family of proteins with unknown function appears to be
restricted to Proteobacteria.
Length = 100
Score = 29.9 bits (68), Expect = 3.0
Identities = 16/61 (26%), Positives = 26/61 (42%), Gaps = 3/61 (4%)
Query: 703 TRGYTVHEA--FSGTDAL-KVMEKLQGRVDIVISDVVMPEMDGPTLLRELRKTYPSLKFI 759
G+T+ A AL + E+++G D V ++V+P D LL LR
Sbjct: 28 VSGFTLLPAAGHGREHALFDIAEQVRGYRDAVAVEIVLPAADLEELLAHLRAANAHTPIR 87
Query: 760 F 760
+
Sbjct: 88 Y 88
>gnl|CDD|183114 PRK11388, PRK11388, DNA-binding transcriptional regulator DhaR;
Provisional.
Length = 638
Score = 29.6 bits (67), Expect = 3.0
Identities = 10/35 (28%), Positives = 20/35 (57%)
Query: 172 GFMSADHQGKILYINATLAEWIGIDLTTFTSKSIS 206
G ++ D QG + ++NA A + +D T ++I+
Sbjct: 215 GVIAWDEQGNLQFLNAQAARLLRLDATASQGRAIT 249
>gnl|CDD|182591 PRK10618, PRK10618, phosphotransfer intermediate protein in
two-component regulatory system with RcsBC; Provisional.
Length = 894
Score = 29.5 bits (67), Expect = 3.5
Identities = 41/175 (23%), Positives = 70/175 (40%), Gaps = 33/175 (18%)
Query: 579 KDMVLVEVEDTGIGMSPDIMEKIFEPFFT---TKKVGEGTGLGLSVVYGIIRQSGGYILP 635
D + + + DTG G+S ++ + PF + G+ +GL + + R+ GG++
Sbjct: 597 PDRLTIRILDTGAGVSIKELDNLHFPFLNQTQGDRYGKASGLTFFLCNQLCRKLGGHLTI 656
Query: 636 ESEVGKGTIFRIFLPRYVQEHTQESHYSHDIAIIPQEEPADLTGNSAIVLLVEDEDSVRR 695
+S G GT + I L + E +EE L G + ++ + +E VR+
Sbjct: 657 KSREGLGTRYSIHLK--MLAADPEV---------EEEEEKLLDGVTVLLDITSEE--VRK 703
Query: 696 GSKRMLETRG---YTVHEAFSGTDALKVMEKLQGRVDIVISDVVMPE-MDGPTLL 746
R LE G T E + DI ++D P + TLL
Sbjct: 704 IVTRQLENWGATCITPDERLISQEY-----------DIFLTD--NPSNLTASTLL 745
>gnl|CDD|180408 PRK06114, PRK06114, short chain dehydrogenase; Provisional.
Length = 254
Score = 29.4 bits (66), Expect = 4.2
Identities = 16/56 (28%), Positives = 28/56 (50%), Gaps = 8/56 (14%)
Query: 379 ISATLDRSTEAPEEQAILYTVEITEQKALEARMAQTQKLNAVGTL-----AGGIAH 429
++ T + EA +AI ++T + L A +A+T+ +G L A GIA+
Sbjct: 46 LAETAEH-IEAAGRRAIQIAADVTSKADLRAAVARTE--AELGALTLAVNAAGIAN 98
>gnl|CDD|184877 PRK14877, PRK14877, conjugal transfer mating pair stabilization
protein TraN; Provisional.
Length = 1062
Score = 28.9 bits (64), Expect = 5.5
Identities = 13/31 (41%), Positives = 19/31 (61%)
Query: 185 INATLAEWIGIDLTTFTSKSISIGDITAGEG 215
+NA L +W G D T+ S S ++G+ TA G
Sbjct: 721 VNAQLIKWTGGDTGTWASMSNAVGEWTASAG 751
>gnl|CDD|182771 PRK10840, PRK10840, transcriptional regulator RcsB; Provisional.
Length = 216
Score = 28.6 bits (64), Expect = 5.9
Identities = 24/88 (27%), Positives = 45/88 (51%), Gaps = 7/88 (7%)
Query: 680 NSAIVLLVEDEDSVRRGSKRMLETRGY--TVHEAFSGTDALKVMEKLQGRVDIVISDVVM 737
N+ V++ +D V G ++ LE + V E T + + KL ++I+D+ M
Sbjct: 2 NNMNVIIADDHPIVLFGIRKSLEQIEWVNVVGEFEDSTALINNLPKLD--AHVLITDLSM 59
Query: 738 P---EMDGPTLLRELRKTYPSLKFIFIS 762
P DG TL++ +++ +PSL I ++
Sbjct: 60 PGDKYGDGITLIKYIKRHFPSLSIIVLT 87
>gnl|CDD|149000 pfam07701, HNOBA, Heme NO binding associated. The HNOBA domain is
found associated with the HNOB domain and pfam00211 in
soluble cyclases and signalling proteins. The HNOB
domain is predicted to function as a heme-dependent
sensor for gaseous ligands, and transduce diverse
downstream signals, in both bacteria and animals.
Length = 209
Score = 28.3 bits (64), Expect = 7.4
Identities = 10/47 (21%), Positives = 18/47 (38%), Gaps = 1/47 (2%)
Query: 293 FFNNIPMAIASIDKKGRILRTNAHFLKLFPNCTEGDGTSNDIFSIVH 339
F P + D+ I++ L++ P G D+F +V
Sbjct: 13 FCKAFPFHLV-FDRDMEIVQAGEGLLRVLPKLLLGKKKLTDVFELVR 58
>gnl|CDD|128518 smart00222, Sec7, Sec7 domain. Domain named after the S.
cerevisiae SEC7 gene product, which is required for
proper protein transport through the Golgi. The domain
facilitates guanine nucleotide exchange on the small
GTPases, ARFs (ADP ribosylation factors).
Length = 187
Score = 28.4 bits (64), Expect = 7.6
Identities = 24/124 (19%), Positives = 42/124 (33%), Gaps = 22/124 (17%)
Query: 12 LLAIGSIEMTIKPK------IPLETIFMDSEPE--GILITNER------GHIIYANNAYN 57
LL+ GS++ KPK + D + L NE G + ++ +N
Sbjct: 5 LLSEGSVKFNDKPKKGIDSLQEKGFLAKDDPQDVADFLSKNEGLNKKAIGDYLGEHDEFN 64
Query: 58 ALTNAVWNKRTKSLESLLSRNQEASEALYRLINSLRLKSEGSEEFRLMQ--SLNNYSQNS 115
V + + ++ +AL + S RL E + RL++ S N
Sbjct: 65 ---RLVLHAFVDLFDF---SAKDLDQALREFLESFRLPGEAQKIDRLLEAFSSRYCECNP 118
Query: 116 EPHW 119
Sbjct: 119 SVFS 122
>gnl|CDD|77219 PRK09519, recA, DNA recombination protein RecA; Reviewed.
Length = 790
Score = 28.1 bits (62), Expect = 8.3
Identities = 25/96 (26%), Positives = 44/96 (45%), Gaps = 5/96 (5%)
Query: 549 MLKESGSLTVRTRNIPSTEIHTFNYSDLPTKDMVLVEVEDTGI-GMSPDIMEKIFEPFFT 607
ML E +V +P+ TF DL +++ + E + SP + F+ +
Sbjct: 650 MLAEELRYSVIREVLPTRRARTF---DLEVEELHTLVAEGVVVHNCSPPFKQAEFDILYG 706
Query: 608 TKKVGEGTGLGLSVVYGIIRQSGGYILPESE-VGKG 642
EG+ + + V G+IR+SG + E E +G+G
Sbjct: 707 KGISREGSLIDMGVDQGLIRKSGAWFTYEGEQLGQG 742
>gnl|CDD|116029 pfam07407, Seadorna_VP6, Seadornavirus VP6 protein. This family
consists of several VP6 proteins from the Banna virus as
well as a related protein VP5 from the Kadipiro virus.
Members of this family are typically of around 420
residues in length. The function of this family is
unknown.
Length = 420
Score = 28.1 bits (62), Expect = 8.6
Identities = 32/130 (24%), Positives = 53/130 (40%), Gaps = 6/130 (4%)
Query: 548 IMLKESGSLTVRTRNIPSTEIHTFNYSDLPTKDMV-LVEVEDTGIGMSPDIMEKIFEPFF 606
L+E + + T+IH SD T D+V +E+ D IM+K+ EP
Sbjct: 35 AALREENAKLKKENEALKTKIHRLE-SDWTTSDIVEKIELMDAQFDRIGKIMDKMREPML 93
Query: 607 TTKKVGEGTGLGLSVVYGIIRQSGGYILPESEVGKGTIFRIFLPRYVQEHTQESHYSHDI 666
+ E G L+ V G++R SEV + + RY + T++ + I
Sbjct: 94 FKRDDIELHGDLLARVEGLLRIKN----ERSEVEFDKDIQCIVGRYFSDETKQRNLEKMI 149
Query: 667 AIIPQEEPAD 676
++ AD
Sbjct: 150 KSFEYDDIAD 159
>gnl|CDD|182755 PRK10816, PRK10816, DNA-binding transcriptional regulator PhoP;
Provisional.
Length = 223
Score = 28.2 bits (63), Expect = 9.8
Identities = 30/123 (24%), Positives = 57/123 (46%), Gaps = 8/123 (6%)
Query: 684 VLLVEDEDSVRRGSKRMLETRGYTVHEAFSGTDALKVMEKLQGRVDIVISDVVMPEMDGP 743
VL+VED +R K L+ G+ V A +A + + DI I D+ +P+ DG
Sbjct: 3 VLVVEDNALLRHHLKVQLQDAGHQVDAAEDAKEADYYLN--EHLPDIAIVDLGLPDEDGL 60
Query: 744 TLLRELRK---TYPSLKFIFISGYAEDAFSKNLPKDAKFSFLSKPFSLKQLATSVHELLQ 800
+L+R R + P L + + + D +++KPF ++++ + L++
Sbjct: 61 SLIRRWRSNDVSLPILVLTARESWQDKVEVLSAGAD---DYVTKPFHIEEVMARMQALMR 117
Query: 801 SDS 803
+S
Sbjct: 118 RNS 120
>gnl|CDD|181722 PRK09243, PRK09243, nicotinate phosphoribosyltransferase;
Validated.
Length = 464
Score = 28.2 bits (64), Expect = 9.9
Identities = 8/33 (24%), Positives = 18/33 (54%), Gaps = 1/33 (3%)
Query: 219 IQAIRTEPSHQKITTLDLDLRRIDNGHGIPVKI 251
++ IR + ++ +L + +R+ N H PV +
Sbjct: 429 LEEIR-AYAAAQLASLPEEYKRLLNPHAYPVDL 460
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 0.134 0.379
Gapped
Lambda K H
0.267 0.0664 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 12,867,350
Number of extensions: 855597
Number of successful extensions: 1920
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1828
Number of HSP's successfully gapped: 108
Length of query: 803
Length of database: 5,994,473
Length adjustment: 101
Effective length of query: 702
Effective length of database: 3,812,065
Effective search space: 2676069630
Effective search space used: 2676069630
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)