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= 0001.0029.p (631 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311617|ref|YP_003775709.1| PAS/PAC sensor hybrid histidine... 310 3e-85 gi|300311805|ref|YP_003775897.1| two component hybrid sensor his... 289 5e-79 gi|300309882|ref|YP_003773974.1| multi-sensor hybrid histidine k... 271 2e-73 gi|300311768|ref|YP_003775860.1| PAS/PAC sensor hybrid histidine... 223 4e-59 gi|300313027|ref|YP_003777119.1| two component transmembrane sen... 129 5e-31 >gi|300311617|ref|YP_003775709.1| PAS/PAC sensor hybrid histidine kinase response regulator protein [Herbaspirillum seropedicae SmR1] Length = 688 Score = 310 bits (793), Expect = 3e-85, Method: Compositional matrix adjust. Identities = 200/486 (41%), Positives = 271/486 (55%), Gaps = 42/486 (8%) Query: 158 VSDACKMHFGIAPESEF---TYDDLINAIHADDRQRHLDVIEAALLSKDDFSIEYQVVWP 214 V D FGI E D+L+ ++H DDR+ I AL ++ +Y+ Sbjct: 169 VDDGFAAAFGIPAERGLDGIKLDELMLSVHPDDRELLSARIREALARGGAYAHQYRTRRR 228 Query: 215 DGSVHWVQIRGQTLHNSVGVPIQMAGVSLDISDRREAEDRLLESESNLRQFNETLELRIQ 274 DG +W++ G+ G+P + GV +DI RR E + + LR NETLE R++ Sbjct: 229 DGRYYWLEANGRVEMTPDGIPSKFPGVLIDIEGRRAVEAERDRALAALRTLNETLEQRVE 288 Query: 275 ERTSELAQANDRLMKEMSERERTQIALVQAQKMEAIGRLTGGIAHDFNNLLNVIIGNVDL 334 ERT+ L A + AL QAQKMEA+G+LTGG+AHDFNN+L I G+++L Sbjct: 289 ERTAALLNAEE--------------ALRQAQKMEAVGQLTGGLAHDFNNILAGISGSLEL 334 Query: 335 IERLSSDERI---KRMAGSARNATKRGAKLTGQLLAFSRNQTLDLKAVDIASVIDGMKDL 391 ++ + RI +R A++A KR A LT +LLAFSR QTLD K D+ ++ GM +L Sbjct: 335 MKVRLAQGRIGDIERHLNGAQSAVKRAAALTQRLLAFSRRQTLDPKPADLNRIVAGMHEL 394 Query: 392 IAVSVGTGISISINVAEDLPRAVADANQIEMAILNLAINARDAMPDGGNLTINVQHRYAH 451 I SVG I++ A L D Q+E A+LNL INARDAMP GG LTI +R+ Sbjct: 395 IGRSVGPAIAVETIAAGGLWHTFVDIGQMENALLNLCINARDAMPHGGRLTIETANRWLD 454 Query: 452 D-GVLK----PGAYIVIEVKDTGTGITQEILSKVFDPFFTTKAVGKGTGLGLSQVYGIAD 506 D G L+ PG Y+ + V DTG G++ E++++ FDPFFTTK G+GTGLGLS VYG A Sbjct: 455 DIGALQRGVPPGQYVSLSVSDTGAGMSPEVVARAFDPFFTTKPTGQGTGLGLSMVYGFAG 514 Query: 507 QSGGLARIDSVVGKGTTVEVWLPV----AG----ALPVREHDQEMLDQPLEPKESGNILV 558 QSGG RI S +G+G V ++LP G ALP H P P S ILV Sbjct: 515 QSGGTVRIYSELGQGAMVCIYLPRHVGEGGVDDLALPEESH------VPAAPG-SKTILV 567 Query: 559 VEDDAQVRQFIVECLEILGYTVDQAENGWFGLEKLQRAH-FDLLIVDFLMP-GMNGAEVI 616 V+D+ VR VE L LGY+V +AE+G L ++ DLL+ D +P GMNG ++ Sbjct: 568 VDDEPLVRMVTVEVLRDLGYSVLEAEDGPSALRVVEACQEIDLLLTDVGLPNGMNGRQLA 627 Query: 617 AAAXMP 622 A P Sbjct: 628 DAIRAP 633 >gi|300311805|ref|YP_003775897.1| two component hybrid sensor histidine kinase/response regulator protein [Herbaspirillum seropedicae SmR1] Length = 1278 Score = 289 bits (739), Expect = 5e-79, Method: Compositional matrix adjust. Identities = 181/453 (39%), Positives = 253/453 (55%), Gaps = 44/453 (9%) Query: 171 ESEFTYDDLINAIHADDRQRHLDVIEAALLSKDDFSIEYQVVWPDGSVHWVQIRGQTLHN 230 E E L + H DD ++ + + F++E + + PDGS WV + + Sbjct: 608 EEEMLGMTLADVTHPDDVPMNMSLFNRCIEDGRSFTLEKRYLRPDGSTFWVSSDISRIVD 667 Query: 231 SVGVPIQMAGVSLDISDRREAEDRLLESESNLRQFNETLELRIQERTSELAQANDRLMKE 290 G P M VS DI++RR AE+ LR+ N+TLE R+ E E Sbjct: 668 GEGRPQAMIAVSTDITERRRAEE-------ALRELNDTLEQRVVE--------------E 706 Query: 291 MSERERTQIALVQAQKMEAIGRLTGGIAHDFNNLLNVIIGNVDLIE---RLSSDERIKRM 347 + ER R + AL Q QKMEA+G+LTGG+AHDFNN+L +I GN+ L++ RL DER ++ Sbjct: 707 ILERSRAEAALRQMQKMEAVGQLTGGVAHDFNNVLQIIGGNLQLLQSDPRL--DERSRQR 764 Query: 348 AGSARNATKRGAKLTGQLLAFSRNQTLDLKAVDIASVIDGMKDLIAVSVGTGISISINVA 407 A A RGAKL+ QLLAF+R Q L +++++ V+ M DL+ +VG I IS VA Sbjct: 765 VRIAIGAVDRGAKLSSQLLAFARRQPLQPRSINLERVVQNMDDLLRRAVGENIDISTRVA 824 Query: 408 EDLPRAVADANQIEMAILNLAINARDAMPDGGNLTINVQHRYAHDGV------LKPGAYI 461 DL + D NQ+E I+N AINARDAMP GG LT+ + + D V L PG Y+ Sbjct: 825 HDLWNTMLDPNQVENLIINTAINARDAMPSGGRLTVQIDNVRLEDPVFLSQADLAPGEYV 884 Query: 462 VIEVKDTGTGITQEILSKVFDPFFTTKAVGKGTGLGLSQVYGIADQSGGLARIDSVVGKG 521 +++ D G G++ E+ + F+PFFTTK G+GTGLGLS YG QS G I S GKG Sbjct: 885 ELQISDNGAGMSPEVRDRAFEPFFTTKLEGEGTGLGLSMAYGFVKQSKGHISIHSEQGKG 944 Query: 522 TTVEVWLPVAGALPVREHDQEM-LDQPLEPKESG---NILVVEDDAQVRQFIVECLEILG 577 TT+ ++ P R D+E+ +D+ + G ILVVEDD ++ +++ L LG Sbjct: 945 TTIRIYFP-------RCLDEEVRIDEVRDLTVHGGDETILVVEDDPNLQLTVIDTLSSLG 997 Query: 578 YTVDQAENGWFGLEKLQRA-HFDLLIVDFLMPG 609 Y V +A+NG LE LQ DL+ D +MPG Sbjct: 998 YRVLKADNGERALEILQSGVAIDLVFTDVVMPG 1030 >gi|300309882|ref|YP_003773974.1| multi-sensor hybrid histidine kinase [Herbaspirillum seropedicae SmR1] Length = 845 Score = 271 bits (692), Expect = 2e-73, Method: Compositional matrix adjust. Identities = 168/381 (44%), Positives = 226/381 (59%), Gaps = 37/381 (9%) Query: 255 LLESESNLRQFNETLELRIQERTSELAQANDRLMKEMSERERTQIALVQAQKMEAIGRLT 314 L ESE+ LR NE+LE + RT EL T+ AL +QK+EAIG+LT Sbjct: 427 LAESEARLRAINESLEAEVSARTRELMA--------------TEEALRHSQKIEAIGQLT 472 Query: 315 GGIAHDFNNLLNVIIGNVDLIE-RL--SSDERIKRMAGSARNATKRGAKLTGQLLAFSRN 371 GG+AHDFNNLL I G++DL+ RL E + R A +T+R A LT +LLAF+R Sbjct: 473 GGLAHDFNNLLGGISGSLDLMRVRLVQGRGEELLRYVELAARSTQRAASLTQRLLAFARR 532 Query: 372 QTLDLKAVDIASVIDGMKDLIAVSVGTGISISINVAEDLPRAVADANQIEMAILNLAINA 431 QTL K + ++I GM++LI ++G I + + A L D Q+E A+LNL INA Sbjct: 533 QTLAPKPTRVNALISGMEELIRRTIGPAIVLEVVGAGGLWPTFVDGPQLESALLNLCINA 592 Query: 432 RDAMPDGGNLTINVQH-----RYAHDGVLKPGAYIVIEVKDTGTGITQEILSKVFDPFFT 486 RDAMP GG LTI + R+AH+ L PG Y+ I V D+G G+ ++L++ FDPFFT Sbjct: 593 RDAMPGGGRLTIETANKWLDDRWAHERDLPPGQYVCISVTDSGVGMPPDVLARAFDPFFT 652 Query: 487 TKAVGKGTGLGLSQVYGIADQSGGLARIDSVVGKGTTVEVWLPVAGALPVREHDQEMLDQ 546 TK +G GTGLGLS VYG A QSGG R+ S VG+GTTV ++ LP +HD + D+ Sbjct: 653 TKPIGAGTGLGLSMVYGFARQSGGQVRLYSEVGQGTTVSIY------LPRHQHDGDEQDE 706 Query: 547 --PLEPKESGN-----ILVVEDDAQVRQFIVECLEILGYTVDQAENGWFGLEKLQ-RAHF 598 L+ +G+ +LVV+D+A +R + E L GY V QAE+G L LQ + Sbjct: 707 ADALDETAAGDGNGEVVLVVDDEASIRMLVAEILSDAGYDVLQAEDGPGALRILQSKQRI 766 Query: 599 DLLIVDFLMP-GMNGAEVIAA 618 DLLI D +P G+NG +V A Sbjct: 767 DLLITDVGLPGGLNGRQVADA 787 >gi|300311768|ref|YP_003775860.1| PAS/PAC sensor hybrid histidine kinase [Herbaspirillum seropedicae SmR1] Length = 552 Score = 223 bits (567), Expect = 4e-59, Method: Compositional matrix adjust. Identities = 153/387 (39%), Positives = 208/387 (53%), Gaps = 27/387 (6%) Query: 245 ISDRREAEDRLLESESNLRQFNETLELR-IQERTSELAQANDRLMKEMSERERTQIALVQ 303 +++RRE LL N F L + + ++ L + ++S R + AL Q Sbjct: 111 VAERREIATELLNYRKNGSTFWNALFISPVYDQQGNLKYFFSSQL-DISRRRDAEQALGQ 169 Query: 304 AQKMEAIGRLTGGIAHDFNNLLNVIIGNVDLIE-RLSSDE----RIKRMAGSARNATKRG 358 A+KMEA+G+LTGGIAHDFNNLL VI G +D+I L SD+ R+ R A S R A+ + Sbjct: 170 ARKMEALGQLTGGIAHDFNNLLQVITGYLDMINLALRSDKPDLARVARSADSIRKASGKA 229 Query: 359 AKLTGQLLAFSRNQTLDLKAVDIASVIDGMKDLIAVSVGTGISISINVAEDLPRAVADAN 418 A LT QLLAF+R Q L+ + +++ S+ +G DL++ ++G I++ +A L D Sbjct: 230 AMLTQQLLAFARKQRLEGRTINLNSLTEGFTDLVSRTLGGDITVQTELARGLWNCRLDPT 289 Query: 419 QIEMAILNLAINARDAMPDGGNLTINVQHRYAHDG------VLKPGAYIVIEVKDTGTGI 472 Q+E+A+LN+ INARDAM G + I + D LK G Y+ I V D G GI Sbjct: 290 QMEVALLNVLINARDAMNGRGRVRIRTANEDLADPDRAVQLGLKEGLYVSIAVTDDGPGI 349 Query: 473 TQEILSKVFDPFFTTKAVGKGTGLGLSQVYGIADQSGGLARIDSVVGKGTTVEVWLP--- 529 +IL +V DPFFTTK GKGTGLGLS VYG QSGG RI S GTTV ++ P Sbjct: 350 APDILPRVMDPFFTTKDEGKGTGLGLSMVYGFVKQSGGSVRITSGAEGGTTVTIYFPATQ 409 Query: 530 --VAGALPVREHDQEMLDQPLEPKESGNILVVEDDAQVRQFIVECLEILGYTVDQAENGW 587 V G Q Q +ILVV+D +V + LE LGY V + Sbjct: 410 DQVGGGFEYDNRSQSQGGQE-------HILVVDDRLEVAELAQTMLESLGYRVSMVNSPA 462 Query: 588 FGLEKLQRAH-FDLLIVDFLMPG-MNG 612 L+ ++ DLL D +MPG MNG Sbjct: 463 EALQLIRSGRPVDLLFTDLIMPGSMNG 489 >gi|300313027|ref|YP_003777119.1| two component transmembrane sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 454 Score = 129 bits (325), Expect = 5e-31, Method: Compositional matrix adjust. Identities = 101/389 (25%), Positives = 165/389 (42%), Gaps = 74/389 (19%) Query: 180 INAIHADDRQRHLDVIEAALLSKDDFSIEYQVVWPDGSVHWVQIRGQTLHNSVGVPIQMA 239 N IH DD + + A L +D EY+ +GS W+ + + + G P ++ Sbjct: 83 FNHIHPDDTAQIFSSL-AMLFVEDQKIYEYRFRTSNGSYLWMHDTLRLIRDPDGTPQEVI 141 Query: 240 GVSLDISDRREAEDRLLESESNLRQFNETLELRIQERTSELAQANDRLMKEMSERERTQI 299 G+ DI+ R+E ED L R+ E L++ Q Sbjct: 142 GLMTDITGRKEMEDTLQRQAEEQRKLIEQLKM-------------------------AQA 176 Query: 300 ALVQAQKMEAIGRLTGGIAHDFNNLLNVIIGNVDLI------------------------ 335 L+Q++K+ +IG+L G+AH+ NN + + N++ + Sbjct: 177 QLMQSEKLASIGQLAAGVAHEINNPIGFVSANLNTLGNYVATLLEGIQLHQCLQGGALPA 236 Query: 336 ----ERLSS----------DERIKRMAGSARNATKRGAKLTGQLLAFSRNQTLDLKAVDI 381 E+L S E + + + +R + L FSR + + D+ Sbjct: 237 AMAQEQLRSFEARADLAFLSEDVTELLAESNEGLQRVRNIVQSLKDFSRIGESNWQMTDL 296 Query: 382 ASVIDGMKDLIAVSVGTGISISINVAEDLPRAVADANQIEMAILNLAINARDAMPDGGNL 441 +D ++ + +SI E LP A+++ +NL +NA A+ + G + Sbjct: 297 HRGLDSTLNIANNELKYKVSIVKQYGE-LPLVKCLASELNQVFMNLLVNAAQAISERGTV 355 Query: 442 TINVQHRYAHDGVLKPGAYIVIEVKDTGTGITQEILSKVFDPFFTTKAVGKGTGLGLSQV 501 TI + G + + + DTG GI E L+++F+PFFTTK VG GTGLGLS Sbjct: 356 TICTA---------RAGDKVSVSISDTGHGIAPENLNRIFEPFFTTKPVGSGTGLGLSLS 406 Query: 502 YGIADQSGGLARIDSVVGKGTTVEVWLPV 530 YGI + GG R+ S G GTT + LP+ Sbjct: 407 YGIVKKHGGDIRVSSAPGCGTTFTIELPI 435 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 0.318 0.134 0.376 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: 1,921,192 Number of extensions: 82894 Number of successful extensions: 535 Number of sequences better than 1.0e-08: 24 Number of HSP's gapped: 507 Number of HSP's successfully gapped: 24 Length of query: 631 Length of database: 1,619,870 Length adjustment: 91 Effective length of query: 540 Effective length of database: 1,188,985 Effective search space: 642051900 Effective search space used: 642051900 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: 133 (55.8 bits)