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= 0004.0100.p (641 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311805|ref|YP_003775897.1| two component hybrid sensor his... 327 2e-90 gi|300311768|ref|YP_003775860.1| PAS/PAC sensor hybrid histidine... 298 9e-82 gi|300309882|ref|YP_003773974.1| multi-sensor hybrid histidine k... 271 9e-74 gi|300311617|ref|YP_003775709.1| PAS/PAC sensor hybrid histidine... 269 5e-73 gi|300313027|ref|YP_003777119.1| two component transmembrane sen... 138 1e-33 >gi|300311805|ref|YP_003775897.1| two component hybrid sensor histidine kinase/response regulator protein [Herbaspirillum seropedicae SmR1] Length = 1278 Score = 327 bits (838), Expect = 2e-90, Method: Compositional matrix adjust. Identities = 225/648 (34%), Positives = 327/648 (50%), Gaps = 45/648 (6%) Query: 26 DYAIYMLDPQGKVTSWNKGAQQFTGYSSD-DILGS--HFSVFYTAEDRDAGLPQKALDIA 82 D + +D G +T N Q GY+++ D+LG H + +E+ + L A Sbjct: 451 DQGFFSIDSAGIITLCNAAFLQLLGYAAEKDVLGRPIHDVILQPSEETQSRTGCAVLRAA 510 Query: 83 LRHG---KFEDEGWRLRKDGTTYWASSIIDPIIADNGELLGYAKITRDITEHKLAAQTLQ 139 R G + E + LR DGT++ P+ D G+L G D+TE + Q L Sbjct: 511 -REGVSAHVDSENF-LRVDGTSFPVQYQTHPVWQD-GQLQGALCTFVDLTERRRGLQALS 567 Query: 140 ASEQQFRLLVQGVTDYAIYMLSPEGRVTNWNAGAQRIKGYTADEVIGMHFSSFYTETDRS 199 SE + R + + L +GR N R+ G + +E++GM + + Sbjct: 568 WSENRLRAIFNQAS-VCFSELDLQGRYLRVNQALCRMLGRSEEEMLGMTLA----DVTHP 622 Query: 200 DGLPERA--LATAAEQGR-YEQEGLRVRKDGSTFWAHVIVDAIRSELGDLIGFAKVTRDV 256 D +P E GR + E +R DGSTFW + I G V+ D+ Sbjct: 623 DDVPMNMSLFNRCIEDGRSFTLEKRYLRPDGSTFWVSSDISRIVDGEGRPQAMIAVSTDI 682 Query: 257 TERR------------------ETALALSRANAALFQSQKMEALGQLTGGVAHDFNNLLA 298 TERR E L SRA AAL Q QKMEA+GQLTGGVAHDFNN+L Sbjct: 683 TERRRAEEALRELNDTLEQRVVEEILERSRAEAALRQMQKMEAVGQLTGGVAHDFNNVLQ 742 Query: 299 VASSGLQLLTVQFPDLENSRSLESIRRALS---RGAILTQQLLSFARQQPLQPETHEVNT 355 + LQLL P L + RS + +R A+ RGA L+ QLL+FAR+QPLQP + + Sbjct: 743 IIGGNLQLLQSD-PRL-DERSRQRVRIAIGAVDRGAKLSSQLLAFARRQPLQPRSINLER 800 Query: 356 LIADFESVLRRAGNSSIQFDIRKSPVPVMVKLDSTRFETALLNLVVNATQAMPDGGKVTI 415 ++ + + +LRRA +I R + LD + E ++N +NA AMP GG++T+ Sbjct: 801 VVQNMDDLLRRAVGENIDISTRVAHDLWNTMLDPNQVENLIINTAINARDAMPSGGRLTV 860 Query: 416 ATEKLTLRDKAV---GALPGGVYAKISVTDNGSGMTPEVQARVFEPFFTTKKAGQGTGLG 472 + + L D L G Y ++ ++DNG+GM+PEV+ R FEPFFTTK G+GTGLG Sbjct: 861 QIDNVRLEDPVFLSQADLAPGEYVELQISDNGAGMSPEVRDRAFEPFFTTKLEGEGTGLG 920 Query: 473 LSQVYGFITQSGGEVTLLSEVGFGTCFTIYIP--IDAEADAENTQSADNKQRSEIVLIVD 530 LS YGF+ QS G +++ SE G GT IY P +D E + + E +L+V+ Sbjct: 921 LSMAYGFVKQSKGHISIHSEQGKGTTIRIYFPRCLDEEVRIDEVRDLTVHGGDETILVVE 980 Query: 531 DQLDLLDITAELFRTMGYEAYTATNGAEALEVLERTPQIDILFTDVIMPDSISGIELAQI 590 D +L + ++GY A NG ALE+L+ ID++FTDV+MP S+ ELAQ Sbjct: 981 DDPNLQLTVIDTLSSLGYRVLKADNGERALEILQSGVAIDLVFTDVVMPGSVPVTELAQQ 1040 Query: 591 TRQRHPATKIILASGYPFPALTSNQQLSKEFAFLNKPYQLSDLAKILR 638 R P +I+ SGYP + +L L+KPY+++ LA+ +R Sbjct: 1041 ARLLVPDIEILFTSGYPRDTIVHEGRLDAGVELLSKPYRINQLAQRIR 1088 Score = 68.2 bits (165), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 42/116 (36%), Positives = 63/116 (54%), Gaps = 13/116 (11%) Query: 526 VLIVDDQLDLLDITAELFRTMGYEAYTATNGAEALEVLERTPQIDILFTDVIMPDSISGI 585 +L+V+D +D + EL T+G++A +G EAL+ LE D+LFTDV +P +SG+ Sbjct: 1166 LLVVEDNIDSQQLVCELLETLGHQARGVISGEEALQALEEQ-GFDVLFTDVNLP-GMSGV 1223 Query: 586 ELAQITRQRHPATKIILASGYPFPALTSNQQLSKEFAF----LNKPYQLSDLAKIL 637 ELA+ R P +I ASGY +++ F L KPY + L +IL Sbjct: 1224 ELAKAALGRFPDLAVIFASGY-------GTMVARNVGFAAHALPKPYDIDQLQEIL 1272 >gi|300311768|ref|YP_003775860.1| PAS/PAC sensor hybrid histidine kinase [Herbaspirillum seropedicae SmR1] Length = 552 Score = 298 bits (763), Expect = 9e-82, Method: Compositional matrix adjust. Identities = 187/492 (38%), Positives = 283/492 (57%), Gaps = 28/492 (5%) Query: 162 PEGRVTNWNAGAQRIKGYTADEVIGMHFSSFY-TETDRSDGLPERALATAAEQGRYEQEG 220 P+ + N + GY++ EV+G + ETDRS + AE+ E Sbjct: 64 PDNPIVFVNNAFINMTGYSSAEVVGKNCRFLQGPETDRS--VVAEVRRAVAERREIATEL 121 Query: 221 LRVRKDGSTFWAHVIVDAIRSELGDLIGFAKVTRDVTERRETALALSRANAALFQSQKME 280 L RK+GSTFW + + + + G+L F D++ RR+ A AL Q++KME Sbjct: 122 LNYRKNGSTFWNALFISPVYDQQGNLKYFFSSQLDISRRRD-------AEQALGQARKME 174 Query: 281 ALGQLTGGVAHDFNNLLAVASSGLQLLTVQF----PDLEN-SRSLESIRRALSRGAILTQ 335 ALGQLTGG+AHDFNNLL V + L ++ + PDL +RS +SIR+A + A+LTQ Sbjct: 175 ALGQLTGGIAHDFNNLLQVITGYLDMINLALRSDKPDLARVARSADSIRKASGKAAMLTQ 234 Query: 336 QLLSFARQQPLQPETHEVNTLIADFESVLRR--AGNSSIQFDIRKSPVPVMVKLDSTRFE 393 QLL+FAR+Q L+ T +N+L F ++ R G+ ++Q ++ + +LD T+ E Sbjct: 235 QLLAFARKQRLEGRTINLNSLTEGFTDLVSRTLGGDITVQTELARGLWNC--RLDPTQME 292 Query: 394 TALLNLVVNATQAMPDGGKVTI--ATEKLTLRDKAVG-ALPGGVYAKISVTDNGSGMTPE 450 ALLN+++NA AM G+V I A E L D+AV L G+Y I+VTD+G G+ P+ Sbjct: 293 VALLNVLINARDAMNGRGRVRIRTANEDLADPDRAVQLGLKEGLYVSIAVTDDGPGIAPD 352 Query: 451 VQARVFEPFFTTKKAGQGTGLGLSQVYGFITQSGGEVTLLSEVGFGTCFTIYIPIDAEAD 510 + RV +PFFTTK G+GTGLGLS VYGF+ QSGG V + S GT TIY P + Sbjct: 353 ILPRVMDPFFTTKDEGKGTGLGLSMVYGFVKQSGGSVRITSGAEGGTTVTIYFPATQDQV 412 Query: 511 AENTQSADNKQRS----EIVLIVDDQLDLLDITAELFRTMGYEAYTATNGAEALEVLERT 566 + DN+ +S E +L+VDD+L++ ++ + ++GY + AEAL+++ Sbjct: 413 GGGFEY-DNRSQSQGGQEHILVVDDRLEVAELAQTMLESLGYRVSMVNSPAEALQLIRSG 471 Query: 567 PQIDILFTDVIMPDSISGIELAQITRQRHPATKIILASGYPFPALTSNQQLSKEFAFLNK 626 +D+LFTD+IMP S++G+ LA+ ++ P K++L +GY +L EF L+K Sbjct: 472 RPVDLLFTDLIMPGSMNGVVLAREAKRMLPTIKVLLTTGYASESL-ERHGADGEFPVLDK 530 Query: 627 PYQLSDLAKILR 638 PY+ +LA+ +R Sbjct: 531 PYRHDELARKIR 542 >gi|300309882|ref|YP_003773974.1| multi-sensor hybrid histidine kinase [Herbaspirillum seropedicae SmR1] Length = 845 Score = 271 bits (694), Expect = 9e-74, Method: Compositional matrix adjust. Identities = 161/380 (42%), Positives = 222/380 (58%), Gaps = 13/380 (3%) Query: 272 ALFQSQKMEALGQLTGGVAHDFNNLLAVASSGLQLLTV---QFPDLENSRSLESIRRALS 328 AL SQK+EA+GQLTGG+AHDFNNLL S L L+ V Q E R +E R+ Sbjct: 458 ALRHSQKIEAIGQLTGGLAHDFNNLLGGISGSLDLMRVRLVQGRGEELLRYVELAARSTQ 517 Query: 329 RGAILTQQLLSFARQQPLQPETHEVNTLIADFESVLRRAGNSSIQFDIRKSPVPVMVKLD 388 R A LTQ+LL+FAR+Q L P+ VN LI+ E ++RR +I ++ + +D Sbjct: 518 RAASLTQRLLAFARRQTLAPKPTRVNALISGMEELIRRTIGPAIVLEVVGAGGLWPTFVD 577 Query: 389 STRFETALLNLVVNATQAMPDGGKVTIATEKLTLRDKAVGA--LPGGVYAKISVTDNGSG 446 + E+ALLNL +NA AMP GG++TI T L D+ LP G Y ISVTD+G G Sbjct: 578 GPQLESALLNLCINARDAMPGGGRLTIETANKWLDDRWAHERDLPPGQYVCISVTDSGVG 637 Query: 447 MTPEVQARVFEPFFTTKKAGQGTGLGLSQVYGFITQSGGEVTLLSEVGFGTCFTIYIPID 506 M P+V AR F+PFFTTK G GTGLGLS VYGF QSGG+V L SEVG GT +IY+P Sbjct: 638 MPPDVLARAFDPFFTTKPIGAGTGLGLSMVYGFARQSGGQVRLYSEVGQGTTVSIYLPRH 697 Query: 507 A-------EADAENTQSADNKQRSEIVLIVDDQLDLLDITAELFRTMGYEAYTATNGAEA 559 EADA + +A + E+VL+VDD+ + + AE+ GY+ A +G A Sbjct: 698 QHDGDEQDEADALDETAAGDGN-GEVVLVVDDEASIRMLVAEILSDAGYDVLQAEDGPGA 756 Query: 560 LEVLERTPQIDILFTDVIMPDSISGIELAQITRQRHPATKIILASGYPFPALTSNQQLSK 619 L +L+ +ID+L TDV +P ++G ++A R P ++ +GY A N L + Sbjct: 757 LRILQSKQRIDLLITDVGLPGGLNGRQVADAGRAARPDLHVLFITGYAENAAFDNGHLER 816 Query: 620 EFAFLNKPYQLSDLAKILRS 639 + KP+++ LA+ ++S Sbjct: 817 GMQLMTKPFKMEALARRVQS 836 >gi|300311617|ref|YP_003775709.1| PAS/PAC sensor hybrid histidine kinase response regulator protein [Herbaspirillum seropedicae SmR1] Length = 688 Score = 269 bits (688), Expect = 5e-73, Method: Compositional matrix adjust. Identities = 172/466 (36%), Positives = 250/466 (53%), Gaps = 46/466 (9%) Query: 211 AEQGRYEQEGLRVRKDGSTFWAH------------------VIVD-----AIRSELGDLI 247 A G Y + R+DG +W V++D A+ +E + Sbjct: 214 ARGGAYAHQYRTRRRDGRYYWLEANGRVEMTPDGIPSKFPGVLIDIEGRRAVEAERDRAL 273 Query: 248 GFAKVTRDVTERR--ETALALSRANAALFQSQKMEALGQLTGGVAHDFNNLLAVASSGLQ 305 + + E+R E AL A AL Q+QKMEA+GQLTGG+AHDFNN+LA S L+ Sbjct: 274 AALRTLNETLEQRVEERTAALLNAEEALRQAQKMEAVGQLTGGLAHDFNNILAGISGSLE 333 Query: 306 LLTVQFP-----DLENSRSLESIRRALSRGAILTQQLLSFARQQPLQPETHEVNTLIADF 360 L+ V+ D+E R L + A+ R A LTQ+LL+F+R+Q L P+ ++N ++A Sbjct: 334 LMKVRLAQGRIGDIE--RHLNGAQSAVKRAAALTQRLLAFSRRQTLDPKPADLNRIVAGM 391 Query: 361 ESVLRRAGNSSIQFDIRKSPVPVMVKLDSTRFETALLNLVVNATQAMPDGGKVTIATEKL 420 ++ R+ +I + + +D + E ALLNL +NA AMP GG++TI T Sbjct: 392 HELIGRSVGPAIAVETIAAGGLWHTFVDIGQMENALLNLCINARDAMPHGGRLTIETANR 451 Query: 421 TLRDKAVGAL----PGGVYAKISVTDNGSGMTPEVQARVFEPFFTTKKAGQGTGLGLSQV 476 L D +GAL P G Y +SV+D G+GM+PEV AR F+PFFTTK GQGTGLGLS V Sbjct: 452 WLDD--IGALQRGVPPGQYVSLSVSDTGAGMSPEVVARAFDPFFTTKPTGQGTGLGLSMV 509 Query: 477 YGFITQSGGEVTLLSEVGFGTCFTIYIP-------IDAEADAENTQSADNKQRSEIVLIV 529 YGF QSGG V + SE+G G IY+P +D A E + S+ +L+V Sbjct: 510 YGFAGQSGGTVRIYSELGQGAMVCIYLPRHVGEGGVDDLALPEESH-VPAAPGSKTILVV 568 Query: 530 DDQLDLLDITAELFRTMGYEAYTATNGAEALEVLERTPQIDILFTDVIMPDSISGIELAQ 589 DD+ + +T E+ R +GY A +G AL V+E +ID+L TDV +P+ ++G +LA Sbjct: 569 DDEPLVRMVTVEVLRDLGYSVLEAEDGPSALRVVEACQEIDLLLTDVGLPNGMNGRQLAD 628 Query: 590 ITRQRHPATKIILASGYPFPALTSNQQLSKEFAFLNKPYQLSDLAK 635 R P ++ +GY A+ ++ L + L KP+ LA+ Sbjct: 629 AIRAPRPDLPVLFVTGYAENAVLNHGHLERGMQVLTKPFAADVLAR 674 >gi|300313027|ref|YP_003777119.1| two component transmembrane sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 454 Score = 138 bits (347), Expect = 1e-33, Method: Compositional matrix adjust. Identities = 120/421 (28%), Positives = 185/421 (43%), Gaps = 76/421 (18%) Query: 144 QFRLLVQGVTDYAIYMLSPEG--RVTNWNAGAQRIKGYTADEVI---GMHFSSFYTETDR 198 ++R ++ G T IY P G R+T + A R+ GY E++ F+ + + D Sbjct: 34 RYRHII-GNTPAIIYSSVPSGDFRLTFVSENASRVLGYEPCEMLDDPNFWFNHIHPD-DT 91 Query: 199 SDGLPERALATAAEQGRYEQEGLRVR-KDGSTFWAHVIVDAIRSELGDLIGFAKVTRDVT 257 + A+ +Q YE R R +GS W H + IR G + D+T Sbjct: 92 AQIFSSLAMLFVEDQKIYE---YRFRTSNGSYLWMHDTLRLIRDPDGTPQEVIGLMTDIT 148 Query: 258 ERRETALALSR--------------ANAALFQSQKMEALGQLTGGVAHDFNNLLAVASSG 303 R+E L R A A L QS+K+ ++GQL GVAH+ NN + S+ Sbjct: 149 GRKEMEDTLQRQAEEQRKLIEQLKMAQAQLMQSEKLASIGQLAAGVAHEINNPIGFVSAN 208 Query: 304 LQLLTVQFPDL-ENSRSLESIRRALSRGAILTQQLLSFARQQPLQPETHEVNTLIADFES 362 L L L E + + ++ A+ +QL SF + L + +V L+A+ Sbjct: 209 LNTLGNYVATLLEGIQLHQCLQGGALPAAMAQEQLRSFEARADLAFLSEDVTELLAESNE 268 Query: 363 VLRRA---------------------------------GNSSIQFDI----RKSPVPVMV 385 L+R N+ +++ + + +P +V Sbjct: 269 GLQRVRNIVQSLKDFSRIGESNWQMTDLHRGLDSTLNIANNELKYKVSIVKQYGELP-LV 327 Query: 386 KLDSTRFETALLNLVVNATQAMPDGGKVTIATEKLTLRDKAVGALPGGVYAKISVTDNGS 445 K ++ +NL+VNA QA+ + G VTI T + G +S++D G Sbjct: 328 KCLASELNQVFMNLLVNAAQAISERGTVTICTAR------------AGDKVSVSISDTGH 375 Query: 446 GMTPEVQARVFEPFFTTKKAGQGTGLGLSQVYGFITQSGGEVTLLSEVGFGTCFTIYIPI 505 G+ PE R+FEPFFTTK G GTGLGLS YG + + GG++ + S G GT FTI +PI Sbjct: 376 GIAPENLNRIFEPFFTTKPVGSGTGLGLSLSYGIVKKHGGDIRVSSAPGCGTTFTIELPI 435 Query: 506 D 506 D Sbjct: 436 D 436 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 0.133 0.374 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: 1,900,657 Number of extensions: 79268 Number of successful extensions: 451 Number of sequences better than 1.0e-08: 25 Number of HSP's gapped: 419 Number of HSP's successfully gapped: 28 Length of query: 641 Length of database: 1,619,870 Length adjustment: 91 Effective length of query: 550 Effective length of database: 1,188,985 Effective search space: 653941750 Effective search space used: 653941750 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: 134 (56.2 bits)