BLASTP 2.2.18 [Mar-02-2008] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= 0020.0006.p (405 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313027|ref|YP_003777119.1| two component transmembrane sen... 522 e-149 gi|300311805|ref|YP_003775897.1| two component hybrid sensor his... 121 1e-28 gi|300311617|ref|YP_003775709.1| PAS/PAC sensor hybrid histidine... 113 3e-26 gi|300309882|ref|YP_003773974.1| multi-sensor hybrid histidine k... 99 4e-22 gi|300313806|ref|YP_003777898.1| PAS/PAC HisKA ATPase_c domains ... 96 7e-21 >gi|300313027|ref|YP_003777119.1| two component transmembrane sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 454 Score = 522 bits (1344), Expect = e-149, Method: Compositional matrix adjust. Identities = 256/395 (64%), Positives = 307/395 (77%), Gaps = 3/395 (0%) Query: 11 RFEYLIANTPAIIYSSVPSGDFKMTFVSENAARVLGYDPKEMVADPNFWFDHIHPDDAPD 70 R+ ++I NTPAIIYSSVPSGDF++TFVSENA+RVLGY+P EM+ DPNFWF+HIHPDD Sbjct: 34 RYRHIIGNTPAIIYSSVPSGDFRLTFVSENASRVLGYEPCEMLDDPNFWFNHIHPDDTAQ 93 Query: 71 IFSSLAMLFVEGERAYEYRFLTKDKRYLWMHDSLRLIRDENNNPVEVIGSLTNITERKLM 130 IFSSLAMLFVE ++ YEYRF T + YLWMHD+LRLIRD + P EVIG +T+IT RK M Sbjct: 94 IFSSLAMLFVEDQKIYEYRFRTSNGSYLWMHDTLRLIRDPDGTPQEVIGLMTDITGRKEM 153 Query: 131 EEALQRTGEEQRSLINKLKEAQEQLLQSEKMASIGQLAAGVAHEINNPVGFVSSNMKSLQ 190 E+ LQR EEQR LI +LK AQ QL+QSEK+ASIGQLAAGVAHEINNP+GFVS+N+ +L Sbjct: 154 EDTLQRQAEEQRKLIEQLKMAQAQLMQSEKLASIGQLAAGVAHEINNPIGFVSANLNTLG 213 Query: 191 TYVDQLLDVIARQEALLSDDSLSEDLRQQARQLSATADLAYLKGDVVELIAESLDGLKRV 250 YV LL+ I + L + ++Q R A ADLA+L DV EL+AES +GL+RV Sbjct: 214 NYVATLLEGIQLHQCLQGGALPAAMAQEQLRSFEARADLAFLSEDVTELLAESNEGLQRV 273 Query: 251 KDIVQSLKDFSHVGESDWQMVDIRKGLESTITIANNELKYKTVIERQYGELPLIKGLASQ 310 ++IVQSLKDFS +GES+WQM D+ +GL+ST+ IANNELKYK I +QYGELPL+K LAS+ Sbjct: 274 RNIVQSLKDFSRIGESNWQMTDLHRGLDSTLNIANNELKYKVSIVKQYGELPLVKCLASE 333 Query: 311 LNQVFMNLLVNAAHSIAERGTIRIRTECKEDWVYIQVEDTGCGIPPENLSRIFEPFFTTK 370 LNQVFMNLLVNAA +I+ERGT+ I T D V + + DTG GI PENL+RIFEPFFTTK Sbjct: 334 LNQVFMNLLVNAAQAISERGTVTICTARAGDKVSVSISDTGHGIAPENLNRIFEPFFTTK 393 Query: 371 PIGSGTGLGLSLSYGXA--HAGDERSPVSRQGQGT 403 P+GSGTGLGLSLSYG H GD R S G GT Sbjct: 394 PVGSGTGLGLSLSYGIVKKHGGDIRVS-SAPGCGT 427 >gi|300311805|ref|YP_003775897.1| two component hybrid sensor histidine kinase/response regulator protein [Herbaspirillum seropedicae SmR1] Length = 1278 Score = 121 bits (304), Expect = 1e-28, Method: Compositional matrix adjust. Identities = 118/414 (28%), Positives = 190/414 (45%), Gaps = 70/414 (16%) Query: 16 IANTPAIIYSSVPSGDFKMTFVSENAA--RVLGYDPKEMVADPNFWFDHIHPDDAPDIFS 73 I N ++ +S + D + ++ N A R+LG +EM+ D HPDD P + Sbjct: 576 IFNQASVCFSEL---DLQGRYLRVNQALCRMLGRSEEEMLG--MTLADVTHPDDVP-MNM 629 Query: 74 SLAMLFVEGERAY--EYRFLTKDKRYLWMHDSLRLIRDENNNPVEVIGSLTNITERKLME 131 SL +E R++ E R+L D W+ + I D P +I T+ITER+ E Sbjct: 630 SLFNRCIEDGRSFTLEKRYLRPDGSTFWVSSDISRIVDGEGRPQAMIAVSTDITERRRAE 689 Query: 132 EALQRTGE--EQRSL--INKLKEAQEQLLQSEKMASIGQLAAGVAHEINNPVGFVSSNMK 187 EAL+ + EQR + I + A+ L Q +KM ++GQL GVAH+ NN + + N++ Sbjct: 690 EALRELNDTLEQRVVEEILERSRAEAALRQMQKMEAVGQLTGGVAHDFNNVLQIIGGNLQ 749 Query: 188 SLQTYVDQLLDVIARQEALLSDDSLSEDLRQQARQLSATADLAYLKGDVVELIAESLDGL 247 LQ+ D LD +RQ ++ ++ + + QL A A L+ + L Sbjct: 750 LLQS--DPRLDERSRQRVRIAIGAVDRGAKLSS-QLLAFARRQPLQPRSINL-------- 798 Query: 248 KRVKDIVQSLKDFSHVGESDWQMVDIRKGLESTITIANNELK--YKTVIERQYGELPLIK 305 + +VQ++ D +R+ + I I+ + T+++ Sbjct: 799 ---ERVVQNMDDL------------LRRAVGENIDISTRVAHDLWNTMLD---------- 833 Query: 306 GLASQLNQVFMNLLVNAAHSIAERG--TIRIRTECKED-------------WVYIQVEDT 350 +Q+ + +N +NA ++ G T++I ED +V +Q+ D Sbjct: 834 --PNQVENLIINTAINARDAMPSGGRLTVQIDNVRLEDPVFLSQADLAPGEYVELQISDN 891 Query: 351 GCGIPPENLSRIFEPFFTTKPIGSGTGLGLSLSYGXAHAGDERSPV-SRQGQGT 403 G G+ PE R FEPFFTTK G GTGLGLS++YG + S QG+GT Sbjct: 892 GAGMSPEVRDRAFEPFFTTKLEGEGTGLGLSMAYGFVKQSKGHISIHSEQGKGT 945 >gi|300311617|ref|YP_003775709.1| PAS/PAC sensor hybrid histidine kinase response regulator protein [Herbaspirillum seropedicae SmR1] Length = 688 Score = 113 bits (283), Expect = 3e-26, Method: Compositional matrix adjust. Identities = 99/375 (26%), Positives = 158/375 (42%), Gaps = 73/375 (19%) Query: 63 IHPDDAPDIFSSL-AMLFVEGERAYEYRFLTKDKRYLWMHDSLRLIRDENNNPVEVIGSL 121 +HPDD + + + L G A++YR +D RY W+ + R+ + P + G L Sbjct: 197 VHPDDRELLSARIREALARGGAYAHQYRTRRRDGRYYWLEANGRVEMTPDGIPSKFPGVL 256 Query: 122 TNITERKLMEEALQRTGEEQRSLINKLKE-----------AQEQLLQSEKMASIGQLAAG 170 +I R+ +E R R+L L++ A+E L Q++KM ++GQL G Sbjct: 257 IDIEGRRAVEAERDRALAALRTLNETLEQRVEERTAALLNAEEALRQAQKMEAVGQLTGG 316 Query: 171 VAHEINNPVGFVSSNMKSLQTYVDQLLDVIARQEALLSDDSLSEDLRQQARQLSATADLA 230 +AH+ NN + +S +++ ++ + Q R Sbjct: 317 LAHDFNNILAGISGSLELMKVRL------------------------AQGR--------- 343 Query: 231 YLKGDVVELIAESLDGLKRVKDIVQSLKDFSHVGESDWQMVDIRKGLESTITIANNELKY 290 GD+ + + +KR + Q L FS D + D+ + I +EL Sbjct: 344 --IGDIERHLNGAQSAVKRAAALTQRLLAFSRRQTLDPKPADLNR-----IVAGMHELIG 396 Query: 291 KTVIERQYGELPLIKGL------ASQLNQVFMNLLVNAAHSIAERGTIRIRTECK----- 339 ++V E GL Q+ +NL +NA ++ G + I T + Sbjct: 397 RSVGPAIAVETIAAGGLWHTFVDIGQMENALLNLCINARDAMPHGGRLTIETANRWLDDI 456 Query: 340 ---------EDWVYIQVEDTGCGIPPENLSRIFEPFFTTKPIGSGTGLGLSLSYGXA-HA 389 +V + V DTG G+ PE ++R F+PFFTTKP G GTGLGLS+ YG A + Sbjct: 457 GALQRGVPPGQYVSLSVSDTGAGMSPEVVARAFDPFFTTKPTGQGTGLGLSMVYGFAGQS 516 Query: 390 GDERSPVSRQGQGTF 404 G S GQG Sbjct: 517 GGTVRIYSELGQGAM 531 >gi|300309882|ref|YP_003773974.1| multi-sensor hybrid histidine kinase [Herbaspirillum seropedicae SmR1] Length = 845 Score = 99.4 bits (246), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 96/340 (28%), Positives = 146/340 (42%), Gaps = 69/340 (20%) Query: 91 LTKDKRYLWMHDSLRLIRDENNNPVEVIGSLTNITERKLME-EALQRTGEEQ-----RSL 144 ++ D +W + L ++R+ + + N +R L E EA R E + Sbjct: 391 VSSDAPRVWTENELAIVREVSERACAAFERIRN--QRALAESEARLRAINESLEAEVSAR 448 Query: 145 INKLKEAQEQLLQSEKMASIGQLAAGVAHEINNPVGFVSSNMKSLQTYVDQLLDVIARQE 204 +L +E L S+K+ +IGQL G+AH+ NN +G +S ++ ++ + Q R E Sbjct: 449 TRELMATEEALRHSQKIEAIGQLTGGLAHDFNNLLGGISGSLDLMRVRLVQ-----GRGE 503 Query: 205 ALLSDDSLSEDLRQQARQLSATADLAYLKGDVVELIAESLDGLKRVKDIVQSLKDFSHVG 264 LL VEL A S +R + Q L F+ Sbjct: 504 ELLR---------------------------YVELAARST---QRAASLTQRLLAFARR- 532 Query: 265 ESDWQMVDIRKGLESTITIANNELKYKTVIERQYGELPLIKGL------ASQLNQVFMNL 318 Q + + + + EL +T+ E+ GL QL +NL Sbjct: 533 ----QTLAPKPTRVNALISGMEELIRRTIGPAIVLEVVGAGGLWPTFVDGPQLESALLNL 588 Query: 319 LVNAAHSIAERGTIRIRTECK---EDW-----------VYIQVEDTGCGIPPENLSRIFE 364 +NA ++ G + I T K + W V I V D+G G+PP+ L+R F+ Sbjct: 589 CINARDAMPGGGRLTIETANKWLDDRWAHERDLPPGQYVCISVTDSGVGMPPDVLARAFD 648 Query: 365 PFFTTKPIGSGTGLGLSLSYGXA-HAGDERSPVSRQGQGT 403 PFFTTKPIG+GTGLGLS+ YG A +G + S GQGT Sbjct: 649 PFFTTKPIGAGTGLGLSMVYGFARQSGGQVRLYSEVGQGT 688 >gi|300313806|ref|YP_003777898.1| PAS/PAC HisKA ATPase_c domains containing sensor signal transduction histidine kinase [Herbaspirillum seropedicae SmR1] Length = 524 Score = 95.5 bits (236), Expect = 7e-21, Method: Compositional matrix adjust. Identities = 87/378 (23%), Positives = 158/378 (41%), Gaps = 75/378 (19%) Query: 34 MTFVSENAARVLGYDPKEMVADPNFWFDHIHPDDAPDIFSSL-AMLFVEGERAYEYRFLT 92 + + S+ R+ G P + +HPDD ++ ++ A + + G E+R Sbjct: 185 LMYCSDELCRIYGLAPGRNCITYEEFAAIMHPDDRQEVVETVNAAVAMGGTIRVEHRICR 244 Query: 93 KDK---RYL-------WMHDSLRLIRDENNNPVEVIGSLTNITERKLMEEALQRTGEEQR 142 +D RYL W + E +G+ T+IT R+ E A+ Sbjct: 245 QDTGEVRYLSGIGKPIWRDGTF----------TEYVGTATDITVRRQNEYAI-------- 286 Query: 143 SLINKLKEAQEQLLQSEKMASIGQLAAGVAHEINNPVGFVSSNMKSLQTYVDQLLDVIAR 202 + AQ + + + ++GQL A +AHEIN P+ + +N + ++D+ Sbjct: 287 ------RAAQIDMERVSRANTVGQLTASIAHEINQPLMSIVANAGASLRWLDR------- 333 Query: 203 QEALLSDDSLSEDLRQQARQLSATADLAYLKGDVVELIAESLDGLKRVKDIVQSLKDFSH 262 DL + + + ++IAE +R I+ L+D + Sbjct: 334 ----------------------PVPDLEHARTGLRDIIAEG----QRAGGIISGLRDLTR 367 Query: 263 VGESDWQMVDIRKGLESTITIANNELKYKTV--IERQYGELPLIKGLASQLNQVFMNLLV 320 + V++ + +T++ +EL+ + V + + G QL QV +NL+V Sbjct: 368 NAAPVCERVNLHAVIRHILTLSRSELERREVSLLLSLTPADAFVLGDQVQLQQVMLNLVV 427 Query: 321 NAAHSIAE-----RGTIRIRTECKEDWVYIQVEDTGCGIPPENLSRIFEPFFTTKPIGSG 375 NA +++ R + C E + ++V+D+G GI PE + R+F+ F+TTK G G Sbjct: 428 NAIEAMSSMPEHARVLSITASSCDEQRIEVKVQDSGEGIAPEAMRRVFDAFYTTKDSGMG 487 Query: 376 TGLGLSLSYGXAHAGDER 393 GL + S H G R Sbjct: 488 MGLAICRSIIENHRGRLR 505 Database: BlastDatabases/689/689 Posted date: Apr 10, 2011 12:15 AM Number of letters in database: 1,619,870 Number of sequences in database: 4735 Lambda K H 0.317 0.134 0.380 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 4735 Number of Hits to DB: 1,089,791 Number of extensions: 40165 Number of successful extensions: 245 Number of sequences better than 1.0e-08: 14 Number of HSP's gapped: 248 Number of HSP's successfully gapped: 16 Length of query: 405 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 318 Effective length of database: 1,207,925 Effective search space: 384120150 Effective search space used: 384120150 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 (21.6 bits) S2: 132 (55.5 bits)