RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780701|ref|YP_003065114.1| putative two-component sensor
histidine kinase transcriptional regulatory protein [Candidatus
Liberibacter asiaticus str. psy62]
(495 letters)
>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 = 162 bits (411), Expect = 2e-40
Identities = 92/242 (38%), Positives = 134/242 (55%), Gaps = 8/242 (3%)
Query: 236 DETRKRAEEENLAKSRFLASMSHELRTPLNAILGFSEVIELETMGPLNNETYKEYIGDIH 295
+ R AEE N AKS FLA+MSHE+RTPLN ILG +EL L ++ ++Y+ I+
Sbjct: 451 AKARAEAEEANRAKSAFLATMSHEIRTPLNGILG---TLELLGDTGLTSQ-QQQYLQVIN 506
Query: 296 RSGQHLLNLINEILDLSRIEAGRYELSESAISLIDIVRECIIMLQLRAQEKNIEIFQKID 355
RSG+ LL+++N+ILD S+IEAG +S L ++ + ++ RAQ K I++ I
Sbjct: 507 RSGESLLDILNDILDYSKIEAGHLSISPRPFDLNALLDDVHHLMVSRAQLKGIQLRLNIP 566
Query: 356 PSLSSVW-ADEKGMRQVILNLLSNAVKFTAIGGRVHVTVGWTSGRGQYISIKDNGPGIAE 414
L + W D +RQV++NL+ NA+KFT G V + V ++D G GIAE
Sbjct: 567 EQLPNWWQGDGPRIRQVLINLVGNAIKFTD-RGSVVLRVSLNDDSSLLFEVEDTGCGIAE 625
Query: 415 GEIPTVLTSFGQGSIAIKSAEQGVGLGLPIAQSIMANHGGQFLIRSKLREGVEVIAILPN 474
E T+ +F Q +S G GLGL I+Q ++ G+ + S+L G LP
Sbjct: 626 EEQATLFDAFTQADGRRRSG--GTGLGLAISQRLVEAMDGELGVESELGVGSCFWFTLPL 683
Query: 475 TR 476
TR
Sbjct: 684 TR 685
>gnl|CDD|185245 PRK15347, PRK15347, two component system sensor kinase SsrA;
Provisional.
Length = 921
Score = 157 bits (399), Expect = 6e-39
Identities = 80/241 (33%), Positives = 122/241 (50%), Gaps = 15/241 (6%)
Query: 236 DETRKRAEEENLAKSRFLASMSHELRTPLNAILGFSEVIELETMGPLNNETYKEYIGDI- 294
E ++RAE+ N KS L ++SHE+RTPLN +LG +EL PL E + D
Sbjct: 385 AEAKQRAEQANKRKSEHLTTISHEIRTPLNGVLG---ALELLQNTPLTAEQMD--LADTA 439
Query: 295 HRSGQHLLNLINEILDLSRIEAGRYELSESAISLIDIVRECIIMLQLRAQEKNIEIFQKI 354
+ LL +IN +LD SRIE+G+ LS +L+ ++ + ++ +Q AQ K++ + +
Sbjct: 440 RQCTLSLLAIINNLLDFSRIESGQMTLSLEETALLPLLDQAMLTIQGPAQSKSLTLRTFV 499
Query: 355 DPSLSSVWA-DEKGMRQVILNLLSNAVKFTAIGG-RVHVTVGWTSGRGQYISIKDNGPGI 412
+ D +RQ+++NLL NAVKFT GG R+ V + +++D G GI
Sbjct: 500 GAHVPLYLHLDSLRLRQILVNLLGNAVKFTETGGIRLRV---KRHEQQLCFTVEDTGCGI 556
Query: 413 AEGEIPTVLTSFGQGSIAIKSAEQGVGLGLPIAQSIMANHGGQFLIRSKLREGVEVIAIL 472
+ + T F Q QG GLGL IA S+ GG+ + S G +L
Sbjct: 557 DIQQQQQIFTPFYQADTHS----QGTGLGLTIASSLAKMMGGELTLFSTPGVGSCFSLVL 612
Query: 473 P 473
P
Sbjct: 613 P 613
>gnl|CDD|182968 PRK11107, PRK11107, hybrid sensory histidine kinase BarA;
Provisional.
Length = 919
Score = 150 bits (382), Expect = 6e-37
Identities = 90/244 (36%), Positives = 133/244 (54%), Gaps = 17/244 (6%)
Query: 227 ELEVAKSLSDETRKRAEEENLAKSRFLASMSHELRTPLNAILGFSEVIELETMGPLNNET 286
EL++AK KRA+E KS FLA+MSHELRTPLN ++GF+ L+T PL T
Sbjct: 278 ELDLAK-------KRAQEAARIKSEFLANMSHELRTPLNGVIGFTRQT-LKT--PLTP-T 326
Query: 287 YKEYIGDIHRSGQHLLNLINEILDLSRIEAGRYELSESAISLIDIVRECIIMLQLRAQEK 346
++Y+ I RS +LL +IN+ILD S++EAG+ L SL + + E + +L A EK
Sbjct: 327 QRDYLQTIERSANNLLAIINDILDFSKLEAGKLVLENIPFSLRETLDEVVTLLAHSAHEK 386
Query: 347 NIEIFQKIDPSL-SSVWADEKGMRQVILNLLSNAVKFTAIGGRVHVTVGWTSGRGQYIS- 404
+E+ IDP + +V D ++Q+I NL+ NA+KFT G + + V + +
Sbjct: 387 GLELTLNIDPDVPDNVIGDPLRLQQIITNLVGNAIKFTESGN-IDILVELRALSNTKVQL 445
Query: 405 ---IKDNGPGIAEGEIPTVLTSFGQGSIAIKSAEQGVGLGLPIAQSIMANHGGQFLIRSK 461
I+D G GI+E + + +F Q +I G GLGL I Q ++ GG S+
Sbjct: 446 EVQIRDTGIGISERQQSQLFQAFRQADASISRRHGGTGLGLVITQKLVNEMGGDISFHSQ 505
Query: 462 LREG 465
G
Sbjct: 506 PNRG 509
>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 = 129 bits (326), Expect = 2e-30
Identities = 71/230 (30%), Positives = 117/230 (50%), Gaps = 20/230 (8%)
Query: 245 ENLAKSR--FLASMSHELRTPLNAILGFSEVIELETM---GPLNNETYKEYIGDIHRSGQ 299
L + R F+A++SHELRTPL + G+ LET+ + E + + + Q
Sbjct: 108 RRLEQMRRDFVANVSHELRTPLTVLRGY-----LETLADGPDEDPEEWNRALEIMLEQSQ 162
Query: 300 HLLNLINEILDLSRIEAGRYELSESAI---SLIDIVRECIIMLQLRAQEKNIEIFQKIDP 356
+ +L+ ++L LSR+E+ L + + +L+D +R+ + +Q KN +I +ID
Sbjct: 163 RMQSLVEDLLTLSRLESAASPLEDEPVDMPALLDHLRD---EAEALSQGKNHQITFEIDG 219
Query: 357 SLSSVWADEKGMRQVILNLLSNAVKFTAIGGRVHVTVGWTS-GRGQYISIKDNGPGIAEG 415
+ V DE +R NL+SNA+K+T GG +TV W G G S+ D G GIA
Sbjct: 220 GV-DVLGDEDELRSAFSNLVSNAIKYTPEGG--TITVRWRRDGGGAEFSVTDTGIGIAPE 276
Query: 416 EIPTVLTSFGQGSIAIKSAEQGVGLGLPIAQSIMANHGGQFLIRSKLREG 465
+P + F + + G GLGL I + +++ H + I S+L +G
Sbjct: 277 HLPRLTERFYRVDKSRSRDTGGTGLGLAIVKHVLSRHHARLEIESELGKG 326
>gnl|CDD|182956 PRK11091, PRK11091, aerobic respiration control sensor protein
ArcB; Provisional.
Length = 779
Score = 120 bits (304), Expect = 7e-28
Identities = 82/258 (31%), Positives = 132/258 (51%), Gaps = 17/258 (6%)
Query: 239 RKRAEE--ENLA--KSRFLASMSHELRTPLNAILGFSEVIELETMGPLNNETYKEYIGDI 294
RKR ++ E + K+ F++++SHELRTPLN I+G S I L+T L E K Y+ I
Sbjct: 269 RKRYQDALEKASRDKTTFISTISHELRTPLNGIVGLSR-ILLDT--ELTAEQRK-YLKTI 324
Query: 295 HRSGQHLLNLINEILDLSRIEAGRYELSESAISLIDIVRECIIMLQLRAQEKNIEIFQKI 354
H S L N+ N+I+D+ ++E + +L I D + + + L+A++K + +
Sbjct: 325 HVSAITLGNIFNDIIDMDKMERRKLQLDNQPIDFTDFLADLENLSGLQAEQKGLRFDLEP 384
Query: 355 DPSL-SSVWADEKGMRQVILNLLSNAVKFTAIGGRVHVTVGWTSGRGQYISIKDNGPGIA 413
L V D +RQ++ NL+SNAVKFT GG V V V + G ++D+G GI
Sbjct: 385 LLPLPHKVITDGTRLRQILWNLISNAVKFTQQGG-VTVRVRYEEGDMLTFEVEDSGIGIP 443
Query: 414 EGEIPTVLTSFGQ--GSIAIKSAEQGVGLGLPIAQSIMANHGGQFLIRSKLREG----VE 467
E E+ + + Q S K A G G+GL +++ + GG + S+ +G +
Sbjct: 444 EDELDKIFAMYYQVKDSHGGKPA-TGTGIGLAVSKRLAQAMGGDITVTSEEGKGSCFTLT 502
Query: 468 VIAILPNTRVLNFIPEDN 485
+ A V + ED+
Sbjct: 503 IHAPAVAEEVEDAFDEDD 520
>gnl|CDD|183148 PRK11466, PRK11466, hybrid sensory histidine kinase TorS;
Provisional.
Length = 914
Score = 118 bits (296), Expect = 5e-27
Identities = 85/266 (31%), Positives = 130/266 (48%), Gaps = 18/266 (6%)
Query: 208 FKSNVKILSCQAEK-DDLI----AELEVAKSLSDETRKRAEEENLAKSRFLASMSHELRT 262
F+SNV L+ E+ + AEL+ + R AE+ + AKS FLA+MSHE+RT
Sbjct: 398 FRSNVHALNRHREQLAAQVKARTAELQELVIEHRQARAEAEKASQAKSAFLAAMSHEIRT 457
Query: 263 PLNAILGFSEVIELETMGPLNNETYKEYIGDIHRSGQHLLNLINEILDLSRIEAGRYE-- 320
PL ILG +L P N ++ + I SG+ LL ++N+ILD S IEAG
Sbjct: 458 PLYGILG---TAQLLADNPALNA-QRDDLRAITDSGESLLTILNDILDYSAIEAGGKNVS 513
Query: 321 LSESAISLIDIVRECIIMLQLRAQEKNIEIFQKIDPSL-SSVWADEKGMRQVILNLLSNA 379
+S+ ++ + ++ R + + I + I L +++ D + +RQVI NLLSNA
Sbjct: 514 VSDEPFEPRPLLESTLQLMSGRVKGRPIRLATDIADDLPTALMGDPRRIRQVITNLLSNA 573
Query: 380 VKFTAIGGRVHVTVGWTSGRGQYISIKDNGPGIAEGEIPTVLTSFGQGSIAIKSAEQGVG 439
++FT G V T G + ++D+G GI ++ + F Q S G G
Sbjct: 574 LRFTDEG--SIVLRSRTDGEQWLVEVEDSGCGIDPAKLAEIFQPFVQVS----GKRGGTG 627
Query: 440 LGLPIAQSIMANHGGQFLIRSKLREG 465
LGL I+ + GG+ S G
Sbjct: 628 LGLTISSRLAQAMGGELSATSTPEVG 653
>gnl|CDD|182962 PRK11100, PRK11100, sensory histidine kinase CreC; Provisional.
Length = 475
Score = 112 bits (282), Expect = 3e-25
Identities = 60/221 (27%), Positives = 111/221 (50%), Gaps = 10/221 (4%)
Query: 255 SMSHELRTPLNAILGFSEVIELETMGPLNNETYKEYIGDIHRSGQHLLNLINEILDLSRI 314
+++HEL++PL AI G +E+++ E P E + G+I L LI+ +L+L+R+
Sbjct: 262 TLTHELKSPLAAIRGAAELLQ-EDPPP---EDRARFTGNILTQSARLQQLIDRLLELARL 317
Query: 315 EAGRYELSESAISLIDIVRECIIMLQLRAQEKNIEIFQKIDPSLSSVWADEKGMRQVILN 374
E + ++L ++ E + + +A K I + ++ P + V D +RQ + N
Sbjct: 318 EQRQELEVLEPVALAALLEELVEAREAQAAAKGITL--RLRPDDARVLGDPFLLRQALGN 375
Query: 375 LLSNAVKFTAIGGRVHVTVGWTSGRGQYISIKDNGPGIAEGEIPTVLTSFGQGSIA-IKS 433
LL NA+ F+ GG + ++ + +S++D GPGI + +P + F S+ +
Sbjct: 376 LLDNAIDFSPEGGTITLSAEVDGEQVA-LSVEDQGPGIPDYALPRIFERF--YSLPRPAN 432
Query: 434 AEQGVGLGLPIAQSIMANHGGQFLIRSKLREGVEVIAILPN 474
+ GLGL + + HGG+ +R++ GV LP
Sbjct: 433 GRKSTGLGLAFVREVARLHGGEVTLRNRPEGGVLATLTLPR 473
>gnl|CDD|182169 PRK09959, PRK09959, hybrid sensory histidine kinase in
two-component regulatory system with EvgA; Provisional.
Length = 1197
Score = 110 bits (277), Expect = 6e-25
Identities = 86/259 (33%), Positives = 128/259 (49%), Gaps = 18/259 (6%)
Query: 220 EKDDLIAELEVAKSLSDETRKRAEEENLAKSRFLASMSHELRTPLNAILGFSEVIELETM 279
E DLI LEV R +A +AKS+FLA+MSHE+RTP+++I+GF +EL +
Sbjct: 690 ETRDLIHALEVE-------RNKAINATVAKSQFLATMSHEIRTPISSIMGF---LELLSG 739
Query: 280 GPLNNETYKEYIGDIHRSGQHLLNLINEILDLSRIEAGRYELSESAISLIDIVRECIIML 339
L+ E E I + +GQ LL LI EILD+ +IE+G Y+L + + +V+
Sbjct: 740 SGLSKEQRVEAISLAYATGQSLLGLIGEILDVDKIESGNYQLQPQWVDIPTLVQNTCHSF 799
Query: 340 QLRAQEKNIEIF-QKIDPSLSSVWADEKGMRQVILNLLSNAVKFTAIGGRVHVTVGWTSG 398
A K+I + P V D + +QV+ NLLSNA+KFT G V +T
Sbjct: 800 GAIAASKSIALSCSSTFPDHYLVKIDPQAFKQVLSNLLSNALKFTTEGA-VKITTSLGHI 858
Query: 399 RGQYISIK----DNGPGIAEGEIPTVLTSFGQGSIAIKSAEQGVGLGLPIAQSIMANHGG 454
+ IK D+G G+++ E + + Q S + G GLGL I + ++ N G
Sbjct: 859 DDNHAVIKMTIMDSGSGLSQEEQQQLFKRYSQTSAG--RQQTGSGLGLMICKELIKNMQG 916
Query: 455 QFLIRSKLREGVEVIAILP 473
+ S G +P
Sbjct: 917 DLSLESHPGIGTTFTITIP 935
>gnl|CDD|181772 PRK09303, PRK09303, adaptive-response sensory kinase; Validated.
Length = 380
Score = 110 bits (278), Expect = 7e-25
Identities = 77/249 (30%), Positives = 122/249 (48%), Gaps = 27/249 (10%)
Query: 234 LSDET-RKRAEEENL-----AKSRFLASMSHELRTPLNAILGFSEVIELETM-GPLNNET 286
LSDE R E E L K R LA ++H+LRTPL A + LET+ +E
Sbjct: 130 LSDELFVLRQENETLLEQLKFKDRVLAMLAHDLRTPLTA-----ASLALETLELGQIDED 184
Query: 287 YKEYIGDIHRSGQHLLN-------LINEILDLSRIEAGRYELSESAISLIDIVRECIIML 339
+ I + LI ++L++ R + + L + +E I+ L
Sbjct: 185 TELKPALIEQLQDQARRQLEEIERLITDLLEVGRTRWEALRFNPQKLDLGSLCQEVILEL 244
Query: 340 QLRAQEKNIEIFQKIDPSLSSVWADEKGMRQVILNLLSNAVKFTAIGGRVHVTV-GWTSG 398
+ R K++EI I L SV+AD++ +RQV+LNLL NA+K+T GG + +++ T+
Sbjct: 245 EKRWLAKSLEIQTDIPSDLPSVYADQERIRQVLLNLLDNAIKYTPEGGTITLSMLHRTTQ 304
Query: 399 RGQYISIKDNGPGIAEGEIPTVLTSFGQGSIAIKSAEQ--GVGLGLPIAQSIMANHGGQF 456
+ Q +SI D GPGI E E + + + + E G G+GL + + I+ H GQ
Sbjct: 305 KVQ-VSICDTGPGIPEEEQERIF----EDRVRLPRDEGTEGYGIGLSVCRRIVRVHYGQI 359
Query: 457 LIRSKLREG 465
+ S+ +G
Sbjct: 360 WVDSEPGQG 368
>gnl|CDD|183098 PRK11360, PRK11360, sensory histidine kinase AtoS; Provisional.
Length = 607
Score = 110 bits (276), Expect = 1e-24
Identities = 71/248 (28%), Positives = 119/248 (47%), Gaps = 21/248 (8%)
Query: 233 SLSDET-RKRAEE-----ENLAK-SRFLASMSHELRTPLNAILGFSEVIELETMGPLNNE 285
SD T RKR + E LA +A ++HE+R PL AI G+ ++ +T P
Sbjct: 367 IFSDLTERKRLQRRVARQERLAALGELVAGVAHEIRNPLTAIRGYVQIWRQQTSDP---- 422
Query: 286 TYKEYIGDIHRSGQHLLNLINEILDLSRIEAGRYELSESAISLIDIVRECIIMLQLRAQE 345
+EY+ + R L +I+++L+ SR E +SL +V E + + Q +
Sbjct: 423 PSQEYLSVVLREVDRLNKVIDQLLEFSRPR----ESQWQPVSLNALVEEVLQLFQTAGVQ 478
Query: 346 KNIEIFQKIDPSLSSVWADEKGMRQVILNLLSNAVKFTAIGGRVHVTVGWTSGRGQYISI 405
++ ++D L +WAD + ++QV+LN+L NAV+ + G++ + S +SI
Sbjct: 479 ARVDFETELDNELPPIWADPELLKQVLLNILINAVQAISARGKIRIRTWQYSDGQVAVSI 538
Query: 406 KDNGPGIAEGEIPTVLTSFGQGSIAIKSAEQGVGLGLPIAQSIMANHGGQFLIRSKLREG 465
+DNG GI + + F + +G GLGL ++Q I+ HGG + S+ G
Sbjct: 539 EDNGCGIDPELLKKIFDPF------FTTKAKGTGLGLALSQRIINAHGGDIEVESEPGVG 592
Query: 466 VEVIAILP 473
LP
Sbjct: 593 TTFTLYLP 600
>gnl|CDD|182496 PRK10490, PRK10490, sensor protein KdpD; Provisional.
Length = 895
Score = 103 bits (260), Expect = 9e-23
Identities = 74/253 (29%), Positives = 121/253 (47%), Gaps = 22/253 (8%)
Query: 239 RKRAEEENLAKSRFLASMSHELRTPLNAILGFSEVIELETMGPLNNETYKEYIGDIHRSG 298
R +E E L + LA++SH+LRTPL + G +E++ L+ L +E +
Sbjct: 655 RLASEREQLRNA-LLAALSHDLRTPLTVLFGQAEILTLD----LASEGSP-HARQASEIR 708
Query: 299 QHLLN---LINEILDLSRIEAGRYELSESAISLIDIVRECIIMLQLRAQEKNIEIFQKID 355
Q +LN L+N +LD++RI++G + L + ++L ++V + ML+ I + +
Sbjct: 709 QQVLNTTRLVNNLLDMARIQSGGFNLRKEWLTLEEVVGSALQMLEPGLSGHPINL--SLP 766
Query: 356 PSLSSVWADEKGMRQVILNLLSNAVKFTA----IGGRVHVTVGWTSGRGQYISIKDNGPG 411
L+ + D +V++NLL NAVK+ IG HV G + + DNGPG
Sbjct: 767 EPLTLIHVDGPLFERVLINLLENAVKYAGAQAEIGIDAHV-----EGERLQLDVWDNGPG 821
Query: 412 IAEGEIPTVLTSFGQGSIAIKSAEQGVGLGLPIAQSIMANHGGQFLIRSKLREGVEVIAI 471
I G+ + F +G+ +SA GVGLGL I ++I+ HGG ++ G
Sbjct: 822 IPPGQEQLIFDKFARGN--KESAIPGVGLGLAICRAIVEVHGGTIWAENRPEGGACFRVT 879
Query: 472 LPNTRVLNFIPED 484
LP
Sbjct: 880 LPLETPPELEEFH 892
>gnl|CDD|182895 PRK11006, phoR, phosphate regulon sensor protein; Provisional.
Length = 430
Score = 102 bits (257), Expect = 2e-22
Identities = 79/260 (30%), Positives = 125/260 (48%), Gaps = 27/260 (10%)
Query: 228 LEVAKSLSDETRKRAEEENLAKSRFLASMSHELRTPLNAILGFSEVIELETM-GPLNNET 286
L VA+ D T+ E A+ F A++SHELRTPL + G+ E+++ + + G L +
Sbjct: 188 LMVAR---DVTQMHQLEG--ARRNFFANVSHELRTPLTVLQGYLEMMQDQPLEGALREKA 242
Query: 287 YKEYIGDIHRSGQHLLNLINEILDLSRIEAGRYELSESAISLIDIVRECIIMLQLRAQE- 345
R + L+ ++L LS+IEA I L + V + +ML++ +E
Sbjct: 243 LHTMREQTQR----MEGLVKQLLTLSKIEAA------PTIDLNEKV-DVPMMLRVLEREA 291
Query: 346 -----KNIEIFQKIDPSLSSVWADEKGMRQVILNLLSNAVKFTAIGGRVHVTVGW-TSGR 399
I ++D SL V+ +E +R I NL+ NAV T G H+TV W +
Sbjct: 292 QTLSQGKHTITFEVDNSL-KVFGNEDQLRSAISNLVYNAVNHTPEG--THITVRWQRVPQ 348
Query: 400 GQYISIKDNGPGIAEGEIPTVLTSFGQGSIAIKSAEQGVGLGLPIAQSIMANHGGQFLIR 459
G S++DNGPGIA IP + F + A G GLGL I + +++H + I
Sbjct: 349 GAEFSVEDNGPGIAPEHIPRLTERFYRVDKARSRQTGGSGLGLAIVKHALSHHDSRLEIE 408
Query: 460 SKLREGVEVIAILPNTRVLN 479
S++ +G +LP +
Sbjct: 409 SEVGKGTRFSFVLPERLIAK 428
>gnl|CDD|128669 smart00387, HATPase_c, Histidine kinase-like ATPases. Histidine
kinase-, DNA gyrase B-, phytochrome-like ATPases.
Length = 111
Score = 99.3 bits (248), Expect = 2e-21
Identities = 37/111 (33%), Positives = 56/111 (50%), Gaps = 2/111 (1%)
Query: 363 ADEKGMRQVILNLLSNAVKFTAIGGRVHVTVGWTSGRGQYISIKDNGPGIAEGEIPTVLT 422
D +RQV+ NLL NA+K+T GGR+ VT+ I+++DNGPGI ++ +
Sbjct: 1 GDPDRLRQVLSNLLDNAIKYTPEGGRITVTLERDGDHL-EITVEDNGPGIPPEDLEKIFE 59
Query: 423 SFGQGSIAIKSAEQGVGLGLPIAQSIMANHGGQFLIRSKLREGVEVIAILP 473
F + G GLGL I + ++ HGG+ + S+ G LP
Sbjct: 60 PFFRTD-GRSRKIGGTGLGLSIVKKLVELHGGEISVESEPGGGTTFTITLP 109
>gnl|CDD|182411 PRK10364, PRK10364, sensor protein ZraS; Provisional.
Length = 457
Score = 96.8 bits (241), Expect = 1e-20
Identities = 79/318 (24%), Positives = 146/318 (45%), Gaps = 44/318 (13%)
Query: 160 PYAVFLSF--FPVVVALSTQAIMSMHVLDISLAGMLATALSFFTYITYHLFKSNVKILSC 217
P A+F++F +V A + + ++ +L +LA+ L+FF Y Y
Sbjct: 170 PQAIFIAFDASNLVSAQAREQRNTLIILFALATVLLASLLAFFWYRRY------------ 217
Query: 218 QAEKDDLIAELEVAKSLSDETRKRAEEENLAKSRFLASMSHELRTPLNAILGFSEVI-EL 276
L + L DE +++ E+ +A A ++HE+R PL++I G ++ E
Sbjct: 218 ----------LRSRQLLQDEMKRK--EKLVALGHLAAGVAHEIRNPLSSIKGLAKYFAER 265
Query: 277 ETMGPLNNETYKEYIGDIHRSGQHLLN-LINEILDLSRIEAGRYELSESAISLIDIVREC 335
G ++ + + R LN +++E+L+L + L+ A+ L D++
Sbjct: 266 APAGGEAHQLAQVMAKEADR-----LNRVVSELLELVKPT----HLALQAVDLNDLINHS 316
Query: 336 IIMLQLRAQEKNIEIFQKIDPSLSSVWADEKGMRQVILNLLSNAVKFTAIGGRVHVTVGW 395
+ ++ A + I++ + +L + AD + QV+LNL NA++ G + VT
Sbjct: 317 LQLVSQDANSREIQLRFTANDTLPEIQADPDRLTQVLLNLYLNAIQAIGQHGVISVTASE 376
Query: 396 TSGRGQYISIKDNGPGIAEGEIPTVLTSFGQGSIAIKSAEQGVGLGLPIAQSIMANHGGQ 455
SG G IS+ D+G GIA ++ + T + + +G GLGL + +I+ HGG
Sbjct: 377 -SGAGVKISVTDSGKGIAADQLEAIFTPY------FTTKAEGTGLGLAVVHNIVEQHGGT 429
Query: 456 FLIRSKLREGVEVIAILP 473
+ S+ +G LP
Sbjct: 430 IQVASQEGKGATFTLWLP 447
>gnl|CDD|182772 PRK10841, PRK10841, hybrid sensory kinase in two-component
regulatory system with RcsB and YojN; Provisional.
Length = 924
Score = 96.2 bits (240), Expect = 2e-20
Identities = 76/253 (30%), Positives = 128/253 (50%), Gaps = 26/253 (10%)
Query: 223 DLIAELEVAKSLSDETRKRAEEENLAKSRFLASMSHELRTPLNAILGFSEVIELETMGPL 282
D+ A +++ +SL E + AE+ + +KS FLA++SHELRTPL I+G ++++ + L
Sbjct: 422 DVSARVKMEESLQ-EMAQAAEQASQSKSMFLATVSHELRTPLYGIIGNLDLLQTKE---L 477
Query: 283 NNETYKEYIGDIHRSGQHLLNLINEILDLSRIEAGRYELSESAISLIDIVRECIIMLQLR 342
+ + ++ S LL +I++ILD S+IE+ + ++ S +++
Sbjct: 478 PKGVDR-LVTAMNNSSSLLLKIISDILDFSKIESEQLKIEPREFSPREVINHITANYLPL 536
Query: 343 AQEKNIEIFQKIDPSL-SSVWADEKGMRQVILNLLSNAVKFTAIGGRV-HVTVGWTSGRG 400
+K + ++ I+P + ++ D ++QVI NLLSNA+KFT G V HV V G
Sbjct: 537 VVKKRLGLYCFIEPDVPVALNGDPMRLQQVISNLLSNAIKFTDTGCIVLHVRV-----DG 591
Query: 401 QY--ISIKDNGPGIAEGEIPTVLTSFGQGSIAIKSAEQGVGLGLPIAQSIMA-------- 450
Y ++D G GI E+ + F Q ++ QG GLGL I + ++
Sbjct: 592 DYLSFRVRDTGVGIPAKEVVRLFDPFFQVGTGVQRNFQGTGLGLAICEKLINMMDGDISV 651
Query: 451 ----NHGGQFLIR 459
G QF IR
Sbjct: 652 DSEPGMGSQFTIR 664
>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 = 95.9 bits (239), Expect = 2e-20
Identities = 70/241 (29%), Positives = 120/241 (49%), Gaps = 9/241 (3%)
Query: 215 LSCQAEKDDLIAEL-EVAKSLSDETRKRAEEENLAKSRFLASMSHELRTPLNAILGFSEV 273
L + + AEL E+A+S + R E+ S+F A ++HELRTPL +LG ++V
Sbjct: 207 LDQRLDPSRAPAELRELAQSF-NAMLGRLEDAFQRLSQFSADLAHELRTPLTNLLGQTQV 265
Query: 274 IELETMGPLNNETYKEYIGDIHRSGQHLLNLINEILDLSRIEAGRYELSESAISLIDIVR 333
+ P E Y+E + + L +++++L L+R + G+ L + L +
Sbjct: 266 ALSQ---PRTGEEYREVLESNLEELERLSRMVSDMLFLARADNGQLALERVRLDLAAELA 322
Query: 334 ECIIMLQLRAQEKNIEIFQKIDPSLSSVWADEKGMRQVILNLLSNAVKFTAIGGRVHVTV 393
+ + A+E+ + I + + V D + R+ I NLLSNA++ T GG + V +
Sbjct: 323 KVAEYFEPLAEERGVRIRVEGE---GLVRGDPQMFRRAISNLLSNALRHTPDGGTITVRI 379
Query: 394 GWTSGRGQYISIKDNGPGIAEGEIPTVLTSFGQGSIAIKSAEQGVGLGLPIAQSIMANHG 453
S + +S+ + GPGI + + F + A ++ +G GLGL I +SIM HG
Sbjct: 380 ERRSDEVR-VSVSNPGPGIPPEHLSRLFDRFYRVDPARSNSGEGTGLGLAIVRSIMEAHG 438
Query: 454 G 454
G
Sbjct: 439 G 439
>gnl|CDD|184354 PRK13837, PRK13837, two-component VirA-like sensor kinase;
Provisional.
Length = 828
Score = 84.3 bits (209), Expect = 6e-17
Identities = 67/262 (25%), Positives = 106/262 (40%), Gaps = 41/262 (15%)
Query: 236 DETRKRAEEENLAKSR------FLAS-MSHELRTPLNAILGFSEVIE--LETMGPLNNET 286
ET + A E L +R LAS ++H L AILG++E+ L
Sbjct: 430 LETERDALERRLEHARRLEAVGTLASGIAHNFNNILGAILGYAEMALNKLARHSRA---- 485
Query: 287 YKEYIGDIHRSGQHLLNLINEILDLSRIEAGRYELSESAISLIDIVRECIIMLQLRAQ-E 345
YI +I +G +I++IL R + E + L ++V E I LR
Sbjct: 486 -ARYIDEIISAGARARLIIDQILAFGR----KGERNTKPFDLSELVTE--IAPLLRVSLP 538
Query: 346 KNIEIFQKIDPSLSSVWADEKGMRQVILNLLSNAVKFTAIGGRVHVTVGWTSGR------ 399
+E+ D + V + ++QV++NL SNA + GRV +++ R
Sbjct: 539 PGVELDFDQDQEPAVVEGNPAELQQVLMNLCSNAAQAMDGAGRVDISLSRAKLRAPKVLS 598
Query: 400 ------GQY--ISIKDNGPGIAEGEIPTVLTSFGQGSIAIKSAEQGVGLGLPIAQSIMAN 451
G+Y + + D G GI E +P + F + G GLGL I++
Sbjct: 599 HGVLPPGRYVLLRVSDTGAGIDEAVLPHIFEPF------FTTRAGGTGLGLATVHGIVSA 652
Query: 452 HGGQFLIRSKLREGVEVIAILP 473
H G ++S + G LP
Sbjct: 653 HAGYIDVQSTVGRGTRFDVYLP 674
>gnl|CDD|128670 smart00388, HisKA, His Kinase A (phosphoacceptor) domain.
Dimerisation and phosphoacceptor domain of histidine
kinases.
Length = 66
Score = 80.7 bits (200), Expect = 9e-16
Identities = 39/70 (55%), Positives = 50/70 (71%), Gaps = 4/70 (5%)
Query: 248 AKSRFLASMSHELRTPLNAILGFSEVIELETMGPLNNETYKEYIGDIHRSGQHLLNLINE 307
AK FLA++SHELRTPL AI G+ E++E L+ E +EY+ I RS + LL LIN+
Sbjct: 1 AKREFLANLSHELRTPLTAIRGYLELLE---DTELSEEQ-REYLETILRSAERLLRLIND 56
Query: 308 ILDLSRIEAG 317
+LDLSRIEAG
Sbjct: 57 LLDLSRIEAG 66
>gnl|CDD|181882 PRK09467, envZ, osmolarity sensor protein; Provisional.
Length = 435
Score = 76.5 bits (189), Expect = 2e-14
Identities = 58/226 (25%), Positives = 96/226 (42%), Gaps = 31/226 (13%)
Query: 253 LASMSHELRTPLNAILGFSEVIELETMGPLNNETYKEYI-GDIHRSGQHLLNLINEILD- 310
+A +SH+LRTPL I +E M + E I DI N I++
Sbjct: 233 MAGVSHDLRTPLTRIRLATE------MMSEEDGYLAESINKDIEEC--------NAIIEQ 278
Query: 311 -LSRIEAGRYELSESAISLIDIVRECIIMLQLRAQEKNIE--IFQKIDPSLSSVWADEKG 367
+ + G+ E+ L ++ E I A E E I + P V +
Sbjct: 279 FIDYLRTGQ-EMPMEMADLNALLGEVI------AAESGYEREIETALQPGPIEVPMNPIA 331
Query: 368 MRQVILNLLSNAVKFTAIGGRVHVTVGWTSGRGQYISIKDNGPGIAEGEIPTVLTSFGQG 427
+++ + NL+ NA ++ G + V+ G R + ++D+GPGI ++ + F +G
Sbjct: 332 IKRALANLVVNAARYG--NGWIKVSSGTEGKRA-WFQVEDDGPGIPPEQLKHLFQPFTRG 388
Query: 428 SIAIKSAEQGVGLGLPIAQSIMANHGGQFLIRSKLREGVEVIAILP 473
A S G GLGL I + I+ H G+ + + G+ A LP
Sbjct: 389 DSARGS--SGTGLGLAIVKRIVDQHNGKVELGNSEEGGLSARAWLP 432
>gnl|CDD|182583 PRK10604, PRK10604, sensor protein RstB; Provisional.
Length = 433
Score = 72.7 bits (179), Expect = 2e-13
Identities = 59/205 (28%), Positives = 90/205 (43%), Gaps = 16/205 (7%)
Query: 257 SHELRTPLNAILGFSEVIELETMGPLNNETYKEYIGDIHRSGQHLLNLINEILDLSRIEA 316
+HELRTPL L + LE +N + E ++R L LI E+L +R++
Sbjct: 220 AHELRTPL-VRLRY----RLEM---SDNLSAAESQA-LNRDIGQLEALIEELLTYARLDR 270
Query: 317 GRYELSESAISLIDIVRECIIMLQLRAQEKNIEIFQKIDPSLSSVWA-DEKGMRQVILNL 375
+ EL S L + + +Q EK + + P A D + M +V+ NL
Sbjct: 271 PQNELHLSEPDLPAWLSTHLADIQAVTPEKTVRLDT---PHQGDYGALDMRLMERVLDNL 327
Query: 376 LSNAVKFTAIGGRVHVTVGWTSGRGQYISIKDNGPGIAEGEIPTVLTSFGQGSIAIKSAE 435
L+NA+++ RV V++ G + ++D+GPGI E V F + + A
Sbjct: 328 LNNALRYA--HSRVRVSL-LLDGNQACLIVEDDGPGIPPEERERVFEPFVRLDPSRDRAT 384
Query: 436 QGVGLGLPIAQSIMANHGGQFLIRS 460
G GLGL I SI GG
Sbjct: 385 GGCGLGLAIVHSIALAMGGSVNCDE 409
>gnl|CDD|182101 PRK09835, PRK09835, sensor kinase CusS; Provisional.
Length = 482
Score = 71.0 bits (174), Expect = 6e-13
Identities = 55/233 (23%), Positives = 106/233 (45%), Gaps = 23/233 (9%)
Query: 249 KSRFLASMSHELRTPLNAILGFSEVI--------ELETMGPLNNETYKEYIGDIHRSGQH 300
+S F A ++HE+RTP+ ++ +E+ ELE + N E
Sbjct: 262 QSNFSADIAHEIRTPITNLITQTEIALSQSRSQKELEDVLYSNLEEL-----------TR 310
Query: 301 LLNLINEILDLSRIEAGRYELSESAISLIDIVRECIIMLQLRAQEKNIEIFQKIDPSLSS 360
+ +++++L L++ + + + + L D V + + A+E+ +E+ +
Sbjct: 311 MAKMVSDMLFLAQADNNQLIPEKKMLDLADEVGKVFDFFEAWAEERGVEL--RFVGDPCQ 368
Query: 361 VWADEKGMRQVILNLLSNAVKFTAIGGRVHVTVGWTSGRGQYISIKDNGPGIAEGEIPTV 420
V D +R+ I NLLSNA+++T G + V + Q + +++ G IA +P +
Sbjct: 369 VAGDPLMLRRAISNLLSNALRYTPAGEAITVRCQEVDHQVQLV-VENPGTPIAPEHLPRL 427
Query: 421 LTSFGQGSIAIKSAEQGVGLGLPIAQSIMANHGGQFLIRSKLREGVEVIAILP 473
F + + + +G G+GL I +SI+ H G + S R G + LP
Sbjct: 428 FDRFYRVDPSRQRKGEGSGIGLAIVKSIVVAHKGTVAVTSDAR-GTRFVISLP 479
>gnl|CDD|182539 PRK10549, PRK10549, signal transduction histidine-protein kinase
BaeS; Provisional.
Length = 466
Score = 68.5 bits (168), Expect = 3e-12
Identities = 48/203 (23%), Positives = 96/203 (47%), Gaps = 7/203 (3%)
Query: 252 FLASMSHELRTPLNAILGFSEVIELETMGPLNNETYKEYIGDIHRSGQHLLNLINEILDL 311
F+A +SHELRTPL + G ELE + + E + + L L++++ L
Sbjct: 243 FMADISHELRTPLAVLRG-----ELEAIQDGVRKFTPESVASLQAEVGTLTKLVDDLHQL 297
Query: 312 SRIEAGRYELSESAISLIDIVRECIIMLQLRAQEKNIEIFQKIDPSLSSVWADEKGMRQV 371
S + G ++ + L+ ++ + R + + + + S ++V+ D + Q+
Sbjct: 298 SLSDEGALAYRKTPVDLVPLLEVAGGAFRERFASRGLTLQLSLPDS-ATVFGDPDRLMQL 356
Query: 372 ILNLLSNAVKFTAIGGRVHVTVGWTSGRGQYISIKDNGPGIAEGEIPTVLTSFGQGSIAI 431
NLL N++++T GG +H++ ++ D+ PG+++ ++ + F + +
Sbjct: 357 FNNLLENSLRYTDSGGSLHISAEQRDKT-LRLTFADSAPGVSDEQLQKLFERFYRTEGSR 415
Query: 432 KSAEQGVGLGLPIAQSIMANHGG 454
A G GLGL I +I+ H G
Sbjct: 416 NRASGGSGLGLAICLNIVEAHNG 438
>gnl|CDD|182388 PRK10337, PRK10337, sensor protein QseC; Provisional.
Length = 449
Score = 65.4 bits (160), Expect = 3e-11
Identities = 54/216 (25%), Positives = 99/216 (45%), Gaps = 33/216 (15%)
Query: 251 RFLASMSHELRTPLNAILGFSEVIELETMGPLNNETYKEY-IGDIHRSGQHLLNLINEIL 309
RF + +HELR+PL A+ +EV +L ++ ++ + +H L++++L
Sbjct: 239 RFTSDAAHELRSPLAALKVQTEVAQLS----DDDPQARKKALLQLHAGIDRATRLVDQLL 294
Query: 310 DLSRIEAGRYELSESAISLIDIVRECIIMLQLRAQEKNIE---------IFQKIDPSLSS 360
LSR+++ + I L D+++ ++ + AQ+ I+ + + P L S
Sbjct: 295 TLSRLDSLDNLQDVAEIPLEDLLQSAVMDIYHTAQQAGIDVRLTLNAHPVIRTGQPLLLS 354
Query: 361 VWADEKGMRQVILNLLSNAVKFTAIGGRVHVTVGWTSGRGQYISIKDNGPGIAEGEIPTV 420
+ ++ NLL NA++++ G V VT+ + +++DNGPG+ P
Sbjct: 355 L---------LVRNLLDNAIRYSPQGSVVDVTL-----NARNFTVRDNGPGVT----PEA 396
Query: 421 LTSFGQGSIAIKSAEQ-GVGLGLPIAQSIMANHGGQ 455
L G+ E G GLGL I + I HG
Sbjct: 397 LARIGERFYRPPGQEATGSGLGLSIVRRIAKLHGMN 432
>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 = 59.9 bits (145), Expect = 1e-09
Identities = 58/244 (23%), Positives = 98/244 (40%), Gaps = 30/244 (12%)
Query: 242 AEEENLAKSR-FLASMSHELRTPLNAILGFSEVIELETMGPLNNETYKEYIGDIHRSGQH 300
AEEE L R L++ H L+ P+N I V++ N
Sbjct: 268 AEEERLEAIRETLSAAIHRLQGPMNLISAAISVLQRRGDDAGNPA--------------- 312
Query: 301 LLNLINEILDLSR--IEAGRYELSES------AISLIDIVRECIIMLQLRAQEKNIEIFQ 352
++ + L R +EA R + +S ++L I+R+ I + R I +
Sbjct: 313 SAAMLQQALSAGREHMEALRQVIPQSPQEIVVPVNLNQILRDVITLSTPRLLAAGIVVDW 372
Query: 353 KIDPSLSSVWADEKGMRQVILNLLSNAVKFTAIGG---RVHVTVGWTSGRGQYISIKDNG 409
+ +L ++ E +R + L+ NA++ I G R +G +SI D+G
Sbjct: 373 QPAATLPAILGRELQLRSLFKALVDNAIEAMNIKGWKRRELSITTALNGDLIVVSILDSG 432
Query: 410 PGIAEGEIPTVLTSFGQGSIAIKSAEQGVGLGLPIAQSIMANHGGQFLIRSKLREGVEVI 469
PGI + V F + + +G+GL +AQ I+A+HGG + EG +I
Sbjct: 433 PGIPQDLRYKVFEPF---FTTKGGSRKHIGMGLSVAQEIVADHGGIIDLDDDYSEGCRII 489
Query: 470 AILP 473
Sbjct: 490 VEFR 493
>gnl|CDD|182947 PRK11073, glnL, nitrogen regulation protein NR(II); Provisional.
Length = 348
Score = 55.5 bits (134), Expect = 3e-08
Identities = 66/256 (25%), Positives = 117/256 (45%), Gaps = 35/256 (13%)
Query: 215 LSCQAEKDDLIAELEVAKSLSDETRKRAEEEN-----LAKSRFLASMSHELRTPLNAILG 269
L+ Q + +I LE+A D R+ ++E+ +A + ++HE++ PL + G
Sbjct: 94 LTAQRLPEGMIL-LEMAPM--DNQRRLSQEQLQHAQQVAARDLVRGLAHEIKNPLGGLRG 150
Query: 270 FSEVIELETMGPLNNETYKEYIGDIHRSGQHLLNLINEILDLSRIEAGRYELSESAISLI 329
+++ L P + EY I L NL++ +L R G ++ES +
Sbjct: 151 AAQL--LSKALP--DPALTEYTKVIIEQADRLRNLVDRLLGPQR--PGT-HVTESIHKVA 203
Query: 330 DIVRECIIMLQLRAQEKNIEIFQKIDPSLSSVWADEKGMRQVILNLLSNAVK-FTAIGGR 388
+ V + ++ L + N+ + + DPSL + D + QV+LN++ NA++ GG
Sbjct: 204 ERVVQ---LVSLELPD-NVRLIRDYDPSLPELAHDPDQIEQVLLNIVRNALQALGPEGGT 259
Query: 389 VHV---TVGWTSGRGQY------ISIKDNGPGIAEGEIPTVLTSFGQGSIAIKSAEQGVG 439
+ + T + G+ I I+DNGPGI T+ G E G G
Sbjct: 260 ITLRTRTAFQLTLHGERYRLAARIDIEDNGPGIPPHLQDTLFYPMVSGR------EGGTG 313
Query: 440 LGLPIAQSIMANHGGQ 455
LGL IA++++ H G+
Sbjct: 314 LGLSIARNLIDQHSGK 329
>gnl|CDD|182702 PRK10755, PRK10755, sensor protein BasS/PmrB; Provisional.
Length = 356
Score = 54.6 bits (132), Expect = 6e-08
Identities = 58/237 (24%), Positives = 103/237 (43%), Gaps = 38/237 (16%)
Query: 252 FLASMSHELRTPLNAILGFSEVIELETMGPLNNETYKEYIGDIHRSGQHLLNLINEILDL 311
F A ++HELRTPL I + LE + ++ I + +++ + ++L L
Sbjct: 140 FTADVAHELRTPLAGIR-----LHLELLEKQHHIDVAPLIARL----DQMMHTVEQLLQL 190
Query: 312 SRIE----AGRYELSESAISLIDIV-----RECIIMLQLRAQEKNIEIFQKIDPSLSSVW 362
+R +G Y+ + L++ V E ML+ R Q + + +V
Sbjct: 191 ARAGQSFSSGHYQ----TVKLLEDVILPSQDELSEMLEQRQQT----LLLPESAADITVQ 242
Query: 363 ADEKGMRQVILNLLSNAVKFTAIGGRVHVTVGWTSGRGQYISIKDNGPGIAEGEIPTVLT 422
D +R ++ NL+ NA +++ G + + + G ++++D GPGI E +
Sbjct: 243 GDATLLRLLLRNLVENAHRYSPEGSTITIKLS-QEDGGAVLAVEDEGPGIDESKC----- 296
Query: 423 SFGQGSIAIKSAEQ---GVGLGLPIAQSIMANHGGQFLIRSKL-REGVEVIAILPNT 475
G+ S A + G+GLGL I I H GQF ++++ R G LP
Sbjct: 297 --GELSKAFVRMDSRYGGIGLGLSIVSRITQLHHGQFFLQNRQERSGTRAWVWLPKA 351
>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 = 54.0 bits (130), Expect = 8e-08
Identities = 67/330 (20%), Positives = 141/330 (42%), Gaps = 40/330 (12%)
Query: 170 VVVALSTQAIMSMH------VLDISLAGMLATALSFFTYITYHLFKSNVKILSCQAEK-- 221
V+ +T I ++ + ++ LA M L+ F + ++ ++ LS AE
Sbjct: 388 VIAEQTTNGIRTLRNSALEKLFNVILAIMSIGTLALFGFASW--ISWRIRRLSDDAEAAI 445
Query: 222 DD---LIAELEVAKS---LSDETRKRAEEENLAK----SRFLASMS----HELRTPLNAI 267
D + + ++S + D +R A+ +A+ + +L +MS HELRTP+ A+
Sbjct: 446 DSQGRISGAIPASRSRDEIGDLSRSFAQM--VARLRQYTHYLENMSSRLSHELRTPV-AV 502
Query: 268 LGFSEVIELETMGPLNNETYKEYIGDIHRSGQHLLNLINEILDLSRIEAGRYELSESAIS 327
+ S +E + L E ++Y+ + L ++N + + +R+E
Sbjct: 503 VRSS--LENLELQALEQEK-QKYLERAREGTERLSMILNNMSEATRLEQAIQSAEVEDFD 559
Query: 328 LIDIVRECIIMLQLRAQEKNIEIFQKIDPSLSSVWADEKGMRQVILNLLSNAVKFTAIGG 387
L +++ C+ Q+ + E+ P + + Q++ L+ NA +F+ G
Sbjct: 560 LSEVLSGCMQGYQMTYPPQRFELNIPETPLVMRGSPELIA--QMLDKLVDNAREFSPEDG 617
Query: 388 RVHVTVGWTSGRGQY-ISIKDNGPGIAEGEIPTVLTSFGQGSIAIKSAEQG--VGLGLPI 444
+ V + + + +++ + GP + E + S S+ + A+ +GLGL I
Sbjct: 618 LIEVGL--SQNKSHALLTVSNEGPPLPEDMGEQLFDSM--VSVRDQGAQDQPHLGLGLYI 673
Query: 445 AQSIMANHGGQFLIRSKLR-EGVEVIAILP 473
+ I H G+ ++ + +GV LP
Sbjct: 674 VRLIADFHQGRIQAENRQQNDGVVFRISLP 703
>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 = 52.8 bits (127), Expect = 2e-07
Identities = 44/163 (26%), Positives = 78/163 (47%), Gaps = 11/163 (6%)
Query: 311 LSRIEAGRYELSESAISLIDIVRECIIMLQLRAQEKNIEIFQKIDPSLSSVWADEKGMRQ 370
L+++ + E + + L+D++R + RAQ E+ ID LS V AD + + +
Sbjct: 528 LAQLRSKGLEEEKLCVDLVDLLRR--AIASKRAQGPRPEVS--IDTDLS-VRADRERLER 582
Query: 371 VILNLLSNAVKFTAIGGRVHVTVGWTSGRGQYISIKDNGPGIAEGEIPTVLTSFGQGSIA 430
V+ +L+ NA++ T GRV + V G I I+D+G G++ I L +
Sbjct: 583 VLGHLVQNALEATPGEGRVAIRVERECGAA-RIEIEDSGCGMSPAFIRERLFKPFDTT-- 639
Query: 431 IKSAEQGVGLGLPIAQSIMANHGGQFLIRSKLREGVEVIAILP 473
K A G+G+G+ + + GG+ + S +G +LP
Sbjct: 640 -KGA--GMGIGVYECRQYVEEIGGRIEVESTPGQGTIFTLVLP 679
>gnl|CDD|181885 PRK09470, cpxA, two-component sensor protein; Provisional.
Length = 461
Score = 50.7 bits (122), Expect = 8e-07
Identities = 52/218 (23%), Positives = 88/218 (40%), Gaps = 39/218 (17%)
Query: 251 RFLASMSHELRTPL------NAIL----GFS---EVIELETMGPLNNETYKEYIGDIHRS 297
R L+ +SHELRTPL A+L G S E IE E
Sbjct: 245 RLLSDISHELRTPLTRLQLATALLRRRQGESKELERIETEA------------------- 285
Query: 298 GQHLLNLINEILDLSRIEAGRYELSESAISLIDIVRECIIMLQLRAQEKNIEIFQKIDPS 357
Q L ++IN++L LSR + + L + E + + A++ + P
Sbjct: 286 -QRLDSMINDLLVLSRNQQ-KNHLERETFKANSLWSEVLEDAKFEAEQMGKSLTVSAPPG 343
Query: 358 LSSVWADEKGMRQVILNLLSNAVKFTAIGGRVHVTVGWT-SGRGQYISIKDNGPGIAEGE 416
+ + + + N++ NA+++ + V ++ G I++ D+GPG+ E E
Sbjct: 344 PWPINGNPNALASALENIVRNALRY----SHTKIEVAFSVDKDGLTITVDDDGPGVPEEE 399
Query: 417 IPTVLTSFGQGSIAIKSAEQGVGLGLPIAQSIMANHGG 454
+ F + A G GLGL I ++ + H G
Sbjct: 400 REQIFRPFYRVDEARDRESGGTGLGLAIVENAIQQHRG 437
>gnl|CDD|182591 PRK10618, PRK10618, phosphotransfer intermediate protein in
two-component regulatory system with RcsBC; Provisional.
Length = 894
Score = 45.3 bits (108), Expect = 3e-05
Identities = 39/198 (19%), Positives = 81/198 (40%), Gaps = 18/198 (9%)
Query: 244 EENL-AKSRFLASMSHELRTPLNAILGFSEVIELETMGPLNNETYKEYIGDIHRSGQHLL 302
E+N A+ FL ++ EL+ PL ++ +L + + + L+
Sbjct: 444 EKNQQARKAFLQNIGDELKQPLQSLA--QLAAQLRQTSDEEQQQ--PELDQLAEQSDVLV 499
Query: 303 NLINEILDLSRIEAGRYELSESAISLIDIVRECIIMLQLRAQEKNIEIFQKIDPSLSSVW 362
L++ I L+ +E ++ + SL D++ E + + + K +++ +
Sbjct: 500 RLVDNIQLLNMLETQDWKPEQELFSLQDLIDEVLPEVLPAIKRKGLQLLIHNHLKAEQLR 559
Query: 363 -ADEKGMRQVILNLLSNAVKFTAIGGRVHVTVGWTSGRGQ--YISIKDNGPGIAEGEI-- 417
D +R+++L LL+ A+ TA G++ + V I I D G G++ E+
Sbjct: 560 IGDRDALRKILLLLLNYAITTTAY-GKITLEVDQDESSPDRLTIRILDTGAGVSIKELDN 618
Query: 418 -------PTVLTSFGQGS 428
T +G+ S
Sbjct: 619 LHFPFLNQTQGDRYGKAS 636
>gnl|CDD|184141 PRK13557, PRK13557, histidine kinase; Provisional.
Length = 540
Score = 43.5 bits (103), Expect = 1e-04
Identities = 57/263 (21%), Positives = 99/263 (37%), Gaps = 47/263 (17%)
Query: 236 DETRKRAEEENLAKSRFLASM-------SHELRTPLNAILGFSEVIELETMGPLNNETYK 288
D +R+R E+ L +++ + ++ +H+ L + G+ +VI+
Sbjct: 143 DVSRRRDAEDALRQAQKMEALGQLTGGIAHDFNNLLQVMSGYLDVIQA------ALSHPD 196
Query: 289 EYIGDIHRSGQHL-------LNLINEILDLSRIEAGRYELSESAISLIDIVRECIIMLQL 341
G + RS +++ L ++L +R + L ++L +V M +L
Sbjct: 197 ADRGRMARSVENIRAAAERAATLTQQLLAFAR----KQRLEGRVLNLNGLVSG---MGEL 249
Query: 342 --RAQEKNIEIFQKIDPSLSSVWADEKGMRQVILNLLSNAVKFTAIGGRVHVTV------ 393
R + I + P L + D +LN+L NA GGRV +
Sbjct: 250 AERTLGDAVTIETDLAPDLWNCRIDPTQAEVALLNVLINARDAMPEGGRVTIRTRNVEIE 309
Query: 394 --------GWTSGRGQYISIKDNGPGIAEGEIPTVLTSFGQGSIAIKSAEQGVGLGLPIA 445
G GR I++ D G G+ + V+ F K +G GLGL +
Sbjct: 310 DEDLAMYHGLPPGRYVSIAVTDTGSGMPPEILARVMDPF----FTTKEEGKGTGLGLSMV 365
Query: 446 QSIMANHGGQFLIRSKLREGVEV 468
GG I S++ EG V
Sbjct: 366 YGFAKQSGGAVRIYSEVGEGTTV 388
>gnl|CDD|182952 PRK11086, PRK11086, sensory histidine kinase DcuS; Provisional.
Length = 542
Score = 38.4 bits (90), Expect = 0.004
Identities = 33/107 (30%), Positives = 56/107 (52%), Gaps = 13/107 (12%)
Query: 371 VILNLLSNAVKFTAIG----GRVHVTVGWTSGRGQYISIKDNGPGIAEGEIPTVLTSFGQ 426
++ NL+ NA A+G G + V++ + +G + + D+GPGIA EI + F +
Sbjct: 437 ILGNLIENA--LEAVGGEEGGEISVSLHYRNGW-LHCEVSDDGPGIAPDEIDAI---FDK 490
Query: 427 GSIAIKSAEQGVGLGLPIAQSIMANHGGQFLIRSKLREGVEVIAILP 473
G + K + +GVGL L + QS+ N GG + S+ G + +P
Sbjct: 491 G-YSTKGSNRGVGLYL-VKQSV-ENLGGSIAVESEPGVGTQFFVQIP 534
>gnl|CDD|182754 PRK10815, PRK10815, sensor protein PhoQ; Provisional.
Length = 485
Score = 36.5 bits (85), Expect = 0.016
Identities = 36/133 (27%), Positives = 57/133 (42%), Gaps = 18/133 (13%)
Query: 344 QEKNIEIFQKIDPSLSSVWADEKG-MRQVILNLLSNAVK----FTAIGGRVHVTVGWTSG 398
Q K + I I P ++ + EK +V+ N+L NA K F I R +
Sbjct: 356 QRKGVNITLDISPEIT--FVGEKNDFMEVMGNVLDNACKYCLEFVEISARQ-------TD 406
Query: 399 RGQYISIKDNGPGIAEGEIPTVLTSFGQGSIAIKSAEQGVGLGLPIAQSIMANHGGQFLI 458
+I ++D+GPGI E + + F +G A + G GLGL +A+ I + G+
Sbjct: 407 EHLHIVVEDDGPGIPESKRELI---FDRGQRA-DTLRPGQGLGLSVAREITEQYEGKISA 462
Query: 459 RSKLREGVEVIAI 471
G + I
Sbjct: 463 GDSPLGGARMEVI 475
>gnl|CDD|129816 TIGR00733, TIGR00733, putative oligopeptide transporter, OPT
family. This protein represents a small family of
integral membrane proteins from Gram-negative bacteria,
a Gram-positive bacteria, and an archaeal species.
Members of this family contain 15 to 18 GES predicted
transmembrane regions, and this family has extensive
homology to a family of yeast tetrapeptide transporters,
including isp4 (Schizosaccharomyces pombe) and Opt1
(Candida albicans). EspB, an apparent equivalog from
Myxococcus xanthus, shares an operon with a two
component system regulatory protein, and is required for
the normal timing of sporulation after the aggregation
of cells. This is consistent with a role in transporting
oligopeptides as signals across the membrane.
Length = 591
Score = 33.3 bits (76), Expect = 0.16
Identities = 36/166 (21%), Positives = 56/166 (33%), Gaps = 45/166 (27%)
Query: 55 FVLLVANIGTWFTQNPIFPMWSLITLAVYAANLSLGKKVMNSDIKIGEVYVWRIW----- 109
F + + W PI+ +LS W IW
Sbjct: 206 FAMFLGGAIAWGVAIPIYTAKMGS-----PGDLSAL------------DLAWTIWSTKVR 248
Query: 110 -LLVGQIAIGLCWTLLTLVEPGT--------------------WTPEYLTIYKSATLLIA 148
+ VG I + WTLL L P T E L I T L+A
Sbjct: 249 YIGVGAIVVAALWTLLKLRGPIARGIKAGLEAARRRQAGEAVLRTEEDLPINIVLT-LVA 307
Query: 149 LSISALSNFMLPYAVFLSFFPVVVALSTQAIMSMHVLDISLAGMLA 194
L + L++F+L YA L + +A+ ++ + ++AG +A
Sbjct: 308 LFVIPLADFLL-YAPILHNIGMAIAVMAVLMLIIGFFVAAIAGYMA 352
>gnl|CDD|162931 TIGR02578, cas_TM1811_Csm1, CRISPR-associated protein, Csm1 family.
The family is designated Csm2, for CRISPR/Cas Subtype
Mtube Protein 2. A typical example is TM1811 from
Thermotoga maritima. CRISPR are Clustered Regularly
Interspaced Short Palindromic Repeats. This protein
family belongs to a conserved gene cluster regularly
found near CRISPR repeats.
Length = 648
Score = 31.2 bits (71), Expect = 0.65
Identities = 46/203 (22%), Positives = 68/203 (33%), Gaps = 33/203 (16%)
Query: 196 ALSFFTYITYHLFKSNVKILSCQAEKDDLIAELEVAKSLSDETR------KRAEEENLAK 249
L L K+ VK + DDLIA E S + R EEE +
Sbjct: 43 LLEVLDKKADDLLKNLVKSHHEEDYLDDLIARAERLASGLEIIDRLEAGDDREEEELGNE 102
Query: 250 SRFLASMSHELRTP--LNAILGFS---------EVIELETMGPLNNETYKEYI----GDI 294
L S ++ L GF + E + E YK + GD+
Sbjct: 103 EEPLVSPFPKIPLGNSLRNAGGFKPKYPLKSLNRAVPPENDNKASQENYKRLMEKFLGDL 162
Query: 295 ------HRSGQHLLNLINEILDLSRIEAGRYELSESAISLIDIVR-ECII--MLQLRAQE 345
+ LL + E L S + A S+ +SL D ++ I L +E
Sbjct: 163 EKLKPSYPDKIELLLTLFEKL-WSFVPAATNGGSKPDVSLYDHLKLTAAIASALYRYLKE 221
Query: 346 KNI--EIFQKIDPSLSSVWADEK 366
N + K+D ++ W EK
Sbjct: 222 NNTKDDALAKLDSAIDEDWNGEK 244
>gnl|CDD|162468 TIGR01656, Histidinol-ppas, histidinol-phosphate phosphatase family
domain. This domain is a member of the
haloacid-dehalogenase (HAD) superfamily of
aspartate-nucleophile hydrolases. This superfamily is
distinguished by the presence of three motifs: an
N-terminal motif containing the nucleophilic aspartate,
a central motif containing an conserved serine or
threonine, and a C-terminal motif containing a conserved
lysine (or arginine) and conserved aspartates. More
specifically, the domian modelled here is a member of
subfamily III of the HAD-superfamily by virtue of
lacking a "capping" domain in either of the two common
positions, between motifs 1 and 2, or between motifs 2
and 3.
Length = 147
Score = 30.5 bits (69), Expect = 1.1
Identities = 19/76 (25%), Positives = 35/76 (46%), Gaps = 11/76 (14%)
Query: 414 EGEIPTVLTSFGQG-SIAIKSAEQGVGLGLPIAQSIMANHGGQFLIRSKLREGVEVIAIL 472
G +P +LT G ++ + + + G+G G A++ A +G ++ + GV V +L
Sbjct: 30 PGAVPALLTLRAAGYTVVVVTNQSGIGRGYFSAEAFRAPNGR--VLELLRQLGVAVDGVL 87
Query: 473 --PNTRVLNFIPEDNH 486
P+ P DN
Sbjct: 88 FCPHH------PADNC 97
>gnl|CDD|179773 PRK04184, PRK04184, DNA topoisomerase VI subunit B; Validated.
Length = 535
Score = 30.2 bits (69), Expect = 1.1
Identities = 12/24 (50%), Positives = 17/24 (70%), Gaps = 3/24 (12%)
Query: 403 ISIKDNGPGIAEGEIPTVLTSFGQ 426
++++DNGPGI EIP V FG+
Sbjct: 77 VTVEDNGPGIPPEEIPKV---FGK 97
>gnl|CDD|129363 TIGR00261, traB, pheromone shutdown-related protein TraB. traB is
a plasmid encoded gene that functions in the shutdown of
the peptide sex pheromone cPD1 which is produced by the
plasmid free recipient cell prior to conjugative
transfer in Enterococcus faecalis. Once the recipient
acquires the plasmid, production of cPD1 is shut down.
The gene product may play another role in the other
species in the family.
Length = 380
Score = 30.2 bits (68), Expect = 1.3
Identities = 18/64 (28%), Positives = 26/64 (40%), Gaps = 2/64 (3%)
Query: 330 DIVRECIIMLQLRAQEKNIEIFQKIDPSLSSVWADEKG--MRQVILNLLSNAVKFTAIGG 387
I E +L+ A K ++ KI P + V DE+ M +L N A+ G
Sbjct: 144 KIEDEIEKLLEQDALSKIMKELSKISPKVKKVLIDERDEFMANKLLEGEGNKNIIVAVVG 203
Query: 388 RVHV 391
HV
Sbjct: 204 AGHV 207
>gnl|CDD|168637 PRK06661, PRK06661, hypothetical protein; Provisional.
Length = 231
Score = 29.8 bits (67), Expect = 1.7
Identities = 14/55 (25%), Positives = 23/55 (41%), Gaps = 2/55 (3%)
Query: 174 LSTQAIMSMHVLDISLAGMLATALSFFTYITYHLFKSNVKILSCQAEKDDLIAEL 228
T A +++ L L + AL F+ I+YH N L + L+ +L
Sbjct: 95 YHTPASIAVSALKCGLLPISQWALHFYDRISYH--NYNSLALDADKQSSRLVNDL 147
>gnl|CDD|129656 TIGR00565, trpE_proteo, anthranilate synthase component I,
proteobacterial subset. This enzyme resembles some
other chorismate-binding enzymes, including
para-aminobenzoate synthase (pabB) and isochorismate
synthase. There is a fairly deep split between two sets,
seen in the pattern of gaps as well as in amino acid
sequence differences. This group includes proteobacteria
such as E. coli and Helicobacter pylori but also the
gram-positive organism Corynebacterium glutamicum. The
second group includes eukaryotes, archaea, and most
other bacterial lineages; sequences from the second
group may resemble pabB more closely than other trpE
from this group.
Length = 498
Score = 29.5 bits (66), Expect = 2.0
Identities = 18/59 (30%), Positives = 29/59 (49%), Gaps = 3/59 (5%)
Query: 429 IAIKSAEQGVGLGLPIAQSIMANHGGQFL--IRSKLREGVEVIAILPNTRVLNFIPEDN 485
+ + +A + LG + ++ +GG L + + L GVE + I PN RVL F P
Sbjct: 37 LLVDAALKITCLGDTVTIQALSPNGGALLQLLDAALPAGVEAV-IQPNARVLRFPPVSP 94
>gnl|CDD|163023 TIGR02794, tolA_full, TolA protein. TolA couples the inner
membrane complex of itself with TolQ and TolR to the
outer membrane complex of TolB and OprL (also called
Pal). Most of the length of the protein consists of
low-complexity sequence that may differ in both length
and composition from one species to another,
complicating efforts to discriminate TolA (the most
divergent gene in the tol-pal system) from paralogs such
as TonB. Selection of members of the seed alignment and
criteria for setting scoring cutoffs are based largely
conserved operon struction. //The Tol-Pal complex is
required for maintaining outer membrane integrity. Also
involved in transport (uptake) of colicins and
filamentous DNA, and implicated in pathogenesis.
Transport is energized by the proton motive force. TolA
is an inner membrane protein that interacts with
periplasmic TolB and with outer membrane porins ompC,
phoE and lamB.
Length = 346
Score = 29.0 bits (65), Expect = 3.1
Identities = 12/32 (37%), Positives = 18/32 (56%)
Query: 218 QAEKDDLIAELEVAKSLSDETRKRAEEENLAK 249
QAE++ AK ++E +K+AE E AK
Sbjct: 151 QAEEEAKAKAAAEAKKKAEEAKKKAEAEAKAK 182
>gnl|CDD|152110 pfam11674, DUF3270, Protein of unknown function (DUF3270). This
family of proteins with unknown function appears to be
restricted to Streptococcus.
Length = 90
Score = 28.9 bits (65), Expect = 3.1
Identities = 13/49 (26%), Positives = 24/49 (48%), Gaps = 4/49 (8%)
Query: 44 SLFRVSPILPLFVLLVANIGTWFTQNPIFPMWSLITLAVYAANLSLGKK 92
++F ++ +L F+LL + T+F FP+ I+L + KK
Sbjct: 46 AVFCITTVLFSFILLSLKLTTFFA----FPLAITISLGITQLVRKGIKK 90
>gnl|CDD|181988 PRK09609, PRK09609, hypothetical protein; Provisional.
Length = 312
Score = 28.9 bits (65), Expect = 3.2
Identities = 18/83 (21%), Positives = 37/83 (44%), Gaps = 4/83 (4%)
Query: 133 TPEYLTIYKSATLLIALSISALSNFMLPYAVFLSFFPVVVALSTQAIMSM-HVLDISLAG 191
L I + ++ + + F + FL+ P+V+ A++ +V+ +S A
Sbjct: 206 NKRSLMILIISGFILMIIFVIWARFFIKPKRFLTIAPIVI---FSALLEPINVILLSSAD 262
Query: 192 MLATALSFFTYITYHLFKSNVKI 214
+ L F T++ H+ S +KI
Sbjct: 263 AQSLGLDFDTWLFIHIITSPIKI 285
>gnl|CDD|149251 pfam08066, PMC2NT, PMC2NT (NUC016) domain. This domain is found at
the N-terminus of 3'-5' exonucleases with HRDC domains,
and also in putative exosome components.
Length = 91
Score = 28.0 bits (63), Expect = 5.3
Identities = 14/71 (19%), Positives = 27/71 (38%), Gaps = 9/71 (12%)
Query: 288 KEYIGDIHRSGQHLLNLINEILDLSRIEAGRYELSESAISLIDIVRECIIMLQLRAQEKN 347
E+ + Q LL+LIN++L + S ++ E + + N
Sbjct: 24 PEFSQSLDEQSQRLLSLINDLLQS--AGSKSDIPDRSDEDDVEDQWEGV-------VDVN 74
Query: 348 IEIFQKIDPSL 358
+ +K+D L
Sbjct: 75 DSLLEKVDTLL 85
>gnl|CDD|184870 PRK14868, PRK14868, DNA topoisomerase VI subunit B; Provisional.
Length = 795
Score = 28.2 bits (63), Expect = 5.4
Identities = 17/51 (33%), Positives = 23/51 (45%), Gaps = 15/51 (29%)
Query: 399 RGQY--ISIKDNGPGIAEGEIPTVL-------------TSFGQGSIAIKSA 434
G Y + ++DNGPGI + +IP V S GQ I I +A
Sbjct: 78 VGDYYRLVVEDNGPGITKEQIPKVFGKLLYGSRFHAREQSRGQQGIGISAA 128
>gnl|CDD|182850 PRK10935, PRK10935, nitrate/nitrite sensor protein NarQ;
Provisional.
Length = 565
Score = 27.9 bits (63), Expect = 5.9
Identities = 40/153 (26%), Positives = 59/153 (38%), Gaps = 40/153 (26%)
Query: 338 ML-QLRAQEKNIEIFQKIDPSLSSVWADEKGMRQV-ILNL----LSNAVKFTAIGGRVHV 391
ML QLR Q + +I +D L S D + +QV +L + NA+K A + V
Sbjct: 441 MLDQLRNQ-TDAKI--TLDCRLPSQALDAQ--QQVHLLQIIREATLNAIKH-ANASEIAV 494
Query: 392 TVGWTSGRGQY-ISIKDNGPGIAEGEIPTVLTSFGQGSIAIKSAEQGVGLGLPIAQSIM- 449
+ T+ G++ +SI+D+G GI E +K E GL IM
Sbjct: 495 SC-VTNPDGEHTVSIRDDGIGIGE----------------LKEPEGHYGLN------IMQ 531
Query: 450 ---ANHGGQFLIRSKLREGVEVIAILPNTRVLN 479
GG I G V P+ +
Sbjct: 532 ERAERLGGTLTISQPPGGGTTVSLTFPSQQEPE 564
>gnl|CDD|163120 TIGR03055, photo_alph_chp2, putative photosynthetic complex
assembly protein 2. This uncharacterized protein family
was identified, by the method of partial phylogenetic
profiling, as having a matching phylogenetic
distribution to that of the photosynthetic reaction
center of the alpha-proteobacterial type. It is nearly
always encoded near other photosynthesis-related genes,
including puhA.
Length = 245
Score = 27.8 bits (62), Expect = 6.6
Identities = 28/114 (24%), Positives = 44/114 (38%), Gaps = 17/114 (14%)
Query: 108 IWLLVGQIAIGLCWTLLTLVEP---GTWTPEYLTIYK-SATLLIALSISALSNFMLPYAV 163
+W + +A G+ +LT G WT L + + SA L + L + L+ LP +
Sbjct: 108 LWHEICLLACGILVLVLTWGAENQVGLWTFVVLWVMRVSAKLNLFLGVPNLNAEFLPDHL 167
Query: 164 -FLS----------FFPVVVALSTQA--IMSMHVLDISLAGMLATALSFFTYIT 204
L FP+ V L T A +M LD + A + +T
Sbjct: 168 AHLKSYFRRKPMNALFPISVTLLTAALVVMIERALDAATAPHEVVGFALLATLT 221
>gnl|CDD|180427 PRK06149, PRK06149, hypothetical protein; Provisional.
Length = 972
Score = 27.7 bits (62), Expect = 6.8
Identities = 15/39 (38%), Positives = 23/39 (58%), Gaps = 1/39 (2%)
Query: 11 DVGLLISPTGDHLG-LEYPSKMDFDREIITLHVESLFRV 48
++G+++ PTGDHL L+ + DRE V+ L RV
Sbjct: 929 ELGVIMQPTGDHLNILKIKPPLCLDRESADFFVDMLDRV 967
>gnl|CDD|131051 TIGR01996, PTS-II-BC-sucr, PTS system, sucrose-specific IIBC
component. This family is closely related to the
trehalose transporting PTS IIBC enzymes and the B and C
domains of each are described by subfamily-domain level
TIGRFAMs models (TIGR00826 and TIGR00852, respectively).
Length = 461
Score = 27.6 bits (62), Expect = 7.6
Identities = 13/42 (30%), Positives = 22/42 (52%), Gaps = 2/42 (4%)
Query: 58 LVANIGTWFTQNPIFPMWSLITLAVYAANLSLGKKVMNSDIK 99
L+AN T N +FP+ S+ +A A L++ K + +K
Sbjct: 329 LLANTKTGG--NFLFPIASMANVAQGGAALAVFFKTKDKKLK 368
>gnl|CDD|131958 TIGR02912, sulfite_red_C, sulfite reductase, subunit C. Members of
this protein family include the C subunit, one of three
subunits, of the anaerobic sulfite reductase of
Salmonella, and close homologs from various Clostridum
species, where the three-gene neighborhood is preserved.
Two such gene clusters are found in Clostridium
perfringens, but it may be that these sets of genes
correspond to the distinct assimilatory and
dissimilatory forms as seen in Clostridium pasteurianum.
Note that any one of these enzymes may have secondary
substates such as NH2OH, SeO3(2-), and SO3(2-).
Heterologous expression of the anaerobic sulfite
reductase of Salmonella confers on Escherichia coli the
ability to produce hydrogen sulfide gas from sulfite.
Length = 314
Score = 27.5 bits (61), Expect = 7.9
Identities = 14/48 (29%), Positives = 22/48 (45%), Gaps = 5/48 (10%)
Query: 362 WADEKGMRQVILNLLSNAVKFT---AIGGRVHVTVGWTSGRGQYISIK 406
W DE + ++ILN ++ A GG+ H +G+ R Y K
Sbjct: 248 WVDEDSIVKIILNTYDYITEYIDKNAPGGKEH--IGYIVDRTGYQEFK 293
>gnl|CDD|162176 TIGR01052, top6b, DNA topoisomerase VI, B subunit. This model
describes DNA topoisomerase VI, an archaeal type II DNA
topoisomerase (DNA gyrase).
Length = 488
Score = 27.5 bits (61), Expect = 8.1
Identities = 17/41 (41%), Positives = 24/41 (58%), Gaps = 4/41 (9%)
Query: 403 ISIKDNGPGIAEGEIPTVLTSFGQGSIA---IKS-AEQGVG 439
++++DNGPGI E IP V GS I+S +QG+G
Sbjct: 67 VTVEDNGPGIPEEYIPKVFGKMLAGSKFHRIIQSRGQQGIG 107
>gnl|CDD|106506 PRK13560, PRK13560, hypothetical protein; Provisional.
Length = 807
Score = 27.3 bits (60), Expect = 10.0
Identities = 11/37 (29%), Positives = 18/37 (48%)
Query: 404 SIKDNGPGIAEGEIPTVLTSFGQGSIAIKSAEQGVGL 440
++K P A G I + G G + + A+ G+GL
Sbjct: 723 ALKHAFPDGAAGNIKVEIREQGDGMVNLCVADDGIGL 759
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
0.321 0.137 0.396
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: 7,927,963
Number of extensions: 520576
Number of successful extensions: 1260
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1177
Number of HSP's successfully gapped: 82
Length of query: 495
Length of database: 5,994,473
Length adjustment: 97
Effective length of query: 398
Effective length of database: 3,898,497
Effective search space: 1551601806
Effective search space used: 1551601806
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 59 (26.6 bits)