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= 0034.0364.p (564 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309416|ref|YP_003773508.1| two component sensor histidine ... 855 0.0 gi|300312426|ref|YP_003776518.1| nitrogen regulation (sensor his... 84 3e-17 gi|300311617|ref|YP_003775709.1| PAS/PAC sensor hybrid histidine... 74 3e-14 gi|300311805|ref|YP_003775897.1| two component hybrid sensor his... 73 5e-14 gi|300310697|ref|YP_003774789.1| two component hybrid sensor his... 72 2e-13 >gi|300309416|ref|YP_003773508.1| two component sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 760 Score = 855 bits (2208), Expect = 0.0, Method: Compositional matrix adjust. Identities = 446/562 (79%), Positives = 494/562 (87%), Gaps = 3/562 (0%) Query: 2 MRQARLSRGFSVVESDDSRPLNGESDADGNLRLHVVIAVPASSKAMGLQNDSRFLQILQP 61 MRQAR+SR FS VESDDSRP +G+SD+DGNLRLHVV+ VPA S+A+ LQ ++R+LQILQP Sbjct: 199 MRQARVSRAFSAVESDDSRPASGQSDSDGNLRLHVVVLVPAPSRALALQGETRYLQILQP 258 Query: 62 VPDYLATNAETLRLAYSEYQQRSVARSGLRKIYIVTLTLTLLLAIFGAIASAFLIASDLA 121 VPDYLA+NAETLRLAY+EYQQRSV+RSGLRKIY+VTLTLTLLLAIF AIASAFLIASDLA Sbjct: 259 VPDYLASNAETLRLAYNEYQQRSVSRSGLRKIYLVTLTLTLLLAIFAAIASAFLIASDLA 318 Query: 122 KPLLLLAEGTKAVAEGNLSPRPIVSTSDELGTLTQSFNTMTRQLLEARTSVEKNRAELEN 181 KPLLLLAEGTKAVAEGNLSPRPIVSTSDELGTLTQSFN MTRQLLEARTSVEKNRAELEN Sbjct: 319 KPLLLLAEGTKAVAEGNLSPRPIVSTSDELGTLTQSFNIMTRQLLEARTSVEKNRAELEN 378 Query: 182 AKAYLESVLANMSAGVMVLDSAFCIVSVNDSVRRILGYDFNGSTGTPLHTIDGQALFAEA 241 AKAYLESVLANMSAGVMVLD F I+S NDSVRRILG+DF+ GTPL TI+ QA FA+A Sbjct: 379 AKAYLESVLANMSAGVMVLDGQFNILSANDSVRRILGHDFSADIGTPLQTIEAQAPFAQA 438 Query: 242 IIKAFSEQRA-HLADSAEDGLHWQQQIELPHRSNSNSGSSNGDGAESSKDGSKTILLARG 300 +I+AFSEQ A H +DS DGLHWQ+Q EL + + S + G + D K LLARG Sbjct: 439 VIRAFSEQLAQHSSDSTPDGLHWQRQFELSRQPGAMLDSDDEQGGKPDHD--KLTLLARG 496 Query: 301 SHLPVQSGVGYVVVFDDISKVISAQRSIAWGEVARRLAHEIKNPLTPIQLSAERLQMRLA 360 SHLPV++GVGYVVVFDDIS VISAQRSIAWGEVARRLAHEIKNPLTPIQLSAERLQ RL+ Sbjct: 497 SHLPVENGVGYVVVFDDISNVISAQRSIAWGEVARRLAHEIKNPLTPIQLSAERLQHRLS 556 Query: 361 DKLLPQDAAILDKSTTTIVNQVSAMKRMVDDFREYAKTPPAKPSALDLNALTEEILHLYL 420 DKL+P DAAILDK TTTIVNQV+AMKRMVDDFR+YA+TPPAKP ALDLNAL EEIL+LYL Sbjct: 557 DKLMPADAAILDKGTTTIVNQVTAMKRMVDDFRDYARTPPAKPVALDLNALIEEILNLYL 616 Query: 421 AGDGRDTIHARLAPDLPKVMGDATQLRQVIHNLLQNAQDAVAENGGITPHIEVVTELVKY 480 AGDGRD IHARLAP + KVMGDATQLRQVIHNLLQNAQDAVA+ G + P I+V+TE + Sbjct: 617 AGDGRDAIHARLAPSMAKVMGDATQLRQVIHNLLQNAQDAVADEGEVAPRIDVLTEQIDI 676 Query: 481 QGSNGVARSAVRLSITDNGPGFSQKILASAFEPYVTSKPKGTGLGLAMVKKIVDEHGGRI 540 G++G + AVRLSI DNGPGFS KILA AFEPYVTSK KGTGLGLAMVKKIV+EHGGRI Sbjct: 677 AGADGQRQPAVRLSIMDNGPGFSAKILARAFEPYVTSKSKGTGLGLAMVKKIVEEHGGRI 736 Query: 541 DIQNRSDTRGAKILILLLKLAS 562 DIQNR+D RGAKI+ILL+KLAS Sbjct: 737 DIQNRTDGRGAKIVILLVKLAS 758 >gi|300312426|ref|YP_003776518.1| nitrogen regulation (sensor histidine kinase) transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 366 Score = 84.0 bits (206), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 71/242 (29%), Positives = 118/242 (48%), Gaps = 22/242 (9%) Query: 326 RSIAWGEVARRLAHEIKNPLTPIQLSAERLQMRLADKLLPQDAAILDKSTTTIVNQVSAM 385 +S A E+ R LAHEIKNPL I+ +A+ L++ L ++ L + L + T I+ + + Sbjct: 136 QSQANKELIRNLAHEIKNPLGGIRGAAQLLELELPERHLKE----LREYTQVIIKEADRL 191 Query: 386 KRMVDDFREYAKTPPAKPSALDLNALTEEILHLYLAGDGRD-TIHARLAPDLPKVMGDAT 444 + +VD + P ++++ + E + L +A + TI +P+ GD Sbjct: 192 QTLVDRLLAPHRHPHIV-GDVNIHEVCERVRSLVMAEFPQGLTIKRDYDLSIPEFRGDKE 250 Query: 445 QLRQVIHNLLQNAQDAVAE-----NGGITPHIEVVTEL----VKYQGSNGVARSAVRLSI 495 QL Q + N++ NA A+A+ +G + V ++ V+Y R A+ L I Sbjct: 251 QLIQAVLNIVHNAAQALADRIRAGDGELILRTRVSRQVTLSKVRY-------RLALDLHI 303 Query: 496 TDNGPGFSQKILASAFEPYVTSKPKGTGLGLAMVKKIVDEHGGRIDIQNRSDTRGAKILI 555 DNGPG I F P V+ + G+GLGL + + V +H G I+ +R +ILI Sbjct: 304 IDNGPGIPPDIQDRIFYPLVSGREGGSGLGLTLAQTFVHQHMGVIECDSRPGCTDFRILI 363 Query: 556 LL 557 L Sbjct: 364 PL 365 >gi|300311617|ref|YP_003775709.1| PAS/PAC sensor hybrid histidine kinase response regulator protein [Herbaspirillum seropedicae SmR1] Length = 688 Score = 74.3 bits (181), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 70/244 (28%), Positives = 114/244 (46%), Gaps = 21/244 (8%) Query: 324 AQRSIAWGEVARRLAHEIKNPLTPIQLSAERLQMRLADKLLPQDAAILDKSTTTIVNQVS 383 AQ+ A G++ LAH+ N L I S E +++RLA + L+ + + + + Sbjct: 304 AQKMEAVGQLTGGLAHDFNNILAGISGSLELMKVRLAQGRIGDIERHLNGAQSAVKRAAA 363 Query: 384 AMKRMVDDFREYAKTPPAKPSALDLNALTEEILHLYLAGDGRDT-----IHARLAPDLPK 438 +R++ +++ P DLN + + L GR + A L Sbjct: 364 LTQRLL----AFSRRQTLDPKPADLNRIVAGMHELI----GRSVGPAIAVETIAAGGLWH 415 Query: 439 VMGDATQLRQVIHNLLQNAQDAVAENGGITPHIEVVTELVKYQGS--NGVARSA-VRLSI 495 D Q+ + NL NA+DA+ G +T IE + G+ GV V LS+ Sbjct: 416 TFVDIGQMENALLNLCINARDAMPHGGRLT--IETANRWLDDIGALQRGVPPGQYVSLSV 473 Query: 496 TDNGPGFSQKILASAFEPYVTSKP--KGTGLGLAMVKKIVDEHGGRIDIQNRSDTRGAKI 553 +D G G S +++A AF+P+ T+KP +GTGLGL+MV + GG + I + +GA + Sbjct: 474 SDTGAGMSPEVVARAFDPFFTTKPTGQGTGLGLSMVYGFAGQSGGTVRIYSEL-GQGAMV 532 Query: 554 LILL 557 I L Sbjct: 533 CIYL 536 >gi|300311805|ref|YP_003775897.1| two component hybrid sensor histidine kinase/response regulator protein [Herbaspirillum seropedicae SmR1] Length = 1278 Score = 73.2 bits (178), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 69/241 (28%), Positives = 112/241 (46%), Gaps = 18/241 (7%) Query: 325 QRSIAWGEVARRLAHEIKNPLTPIQLSAERLQMRLADKLLPQDAAILDKSTTTIVNQVSA 384 Q+ A G++ +AH+ N L Q+ LQ LL D + ++S + + A Sbjct: 721 QKMEAVGQLTGGVAHDFNNVL---QIIGGNLQ------LLQSDPRLDERSRQRVRIAIGA 771 Query: 385 MKR---MVDDFREYAKTPPAKPSALDLNALTEEILHLYLAGDGRDT-IHARLAPDLPKVM 440 + R + +A+ P +P +++L + + + L G + I R+A DL M Sbjct: 772 VDRGAKLSSQLLAFARRQPLQPRSINLERVVQNMDDLLRRAVGENIDISTRVAHDLWNTM 831 Query: 441 GDATQLRQVIHNLLQNAQDAVAENGGITPHIEVV--TELVKYQGSNGVARSAVRLSITDN 498 D Q+ +I N NA+DA+ G +T I+ V + V ++ V L I+DN Sbjct: 832 LDPNQVENLIINTAINARDAMPSGGRLTVQIDNVRLEDPVFLSQADLAPGEYVELQISDN 891 Query: 499 GPGFSQKILASAFEPYVTSK--PKGTGLGLAMVKKIVDEHGGRIDIQNRSDTRGAKILIL 556 G G S ++ AFEP+ T+K +GTGLGL+M V + G I I + +G I I Sbjct: 892 GAGMSPEVRDRAFEPFFTTKLEGEGTGLGLSMAYGFVKQSKGHISIHSEQ-GKGTTIRIY 950 Query: 557 L 557 Sbjct: 951 F 951 >gi|300310697|ref|YP_003774789.1| two component hybrid sensor histidine kinase/response regulator protein [Herbaspirillum seropedicae SmR1] Length = 916 Score = 71.6 bits (174), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 62/221 (28%), Positives = 106/221 (47%), Gaps = 28/221 (12%) Query: 336 RLAHEIKNPLTPIQLSAERLQMRLADKLLPQDAAILDKSTTTIVNQVSAMKRMVDDFREY 395 R++H+++ PLT I A+ +Q I+ M MV+D +Y Sbjct: 457 RISHDLRTPLTSILGFADMIQ---------ASGGPHAGHGRIIMRSARHMLTMVNDLIDY 507 Query: 396 AKTPP---AKPSALDLNALTEEILH--LYLAGDGRDTIHARLAPDLPKVMG-DATQLRQV 449 A+ P +P+ L L+AL +EI LA + ++PDLP V+ DA +L ++ Sbjct: 508 ARGDPLDTPQPTPLYLHALLQEIAQEGQVLAQRQHNHFTLDISPDLPPVLALDARRLHRI 567 Query: 450 IHNLLQNAQDAVAENGGITPHIEVVTELVKYQGSNGVA-RSAVRLSITDNGPGFSQKILA 508 + NLL NA E G I H V++Q + A + A+++ ++D G G + + + Sbjct: 568 LGNLLDNAAKYTRE-GRIGLH-------VQWQADHADAGKGALQIEVSDTGCGIAPQFQS 619 Query: 509 SAFEPY----VTSKPKGTGLGLAMVKKIVDEHGGRIDIQNR 545 FEP+ + G G+GLA+V+ V GG I ++++ Sbjct: 620 RIFEPFERADADRRQPGIGMGLAIVRLWVQRMGGSIVLESQ 660 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 0.316 0.131 0.359 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: 1,557,712 Number of extensions: 62644 Number of successful extensions: 403 Number of sequences better than 1.0e-08: 23 Number of HSP's gapped: 395 Number of HSP's successfully gapped: 23 Length of query: 564 Length of database: 1,619,870 Length adjustment: 90 Effective length of query: 474 Effective length of database: 1,193,720 Effective search space: 565823280 Effective search space used: 565823280 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: 133 (55.8 bits)