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= 0002.0236.p (995 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309882|ref|YP_003773974.1| multi-sensor hybrid histidine k... 964 0.0 gi|300311617|ref|YP_003775709.1| PAS/PAC sensor hybrid histidine... 369 e-103 gi|300311805|ref|YP_003775897.1| two component hybrid sensor his... 253 7e-68 gi|300311768|ref|YP_003775860.1| PAS/PAC sensor hybrid histidine... 230 3e-61 gi|300313027|ref|YP_003777119.1| two component transmembrane sen... 111 2e-25 >gi|300309882|ref|YP_003773974.1| multi-sensor hybrid histidine kinase [Herbaspirillum seropedicae SmR1] Length = 845 Score = 964 bits (2492), Expect = 0.0, Method: Compositional matrix adjust. Identities = 478/593 (80%), Positives = 519/593 (87%) Query: 264 VQKEAIAELACLTRESERRRRFYESFLSTTPDLAYAWDLNHRFTYANRVLLQMWGKTWDE 323 ++ EA+AELA LT ESERRRRFYE+F +TTPDLAYAWDL HRFTYANRVLLQMWGKTWDE Sbjct: 124 LRHEAVAELARLTDESERRRRFYETFFATTPDLAYAWDLEHRFTYANRVLLQMWGKTWDE 183 Query: 324 AIGKNCLELGYEPWHAEMHSREIEQVRATKRPVRGDVPFNGTFGRRIYDYIIFPVLGPDG 383 AIGK CLELGYEPWHAEMHSREIEQVRATKRPVRGDVPFNGTFGRRIYDYIIFPVLGPDG Sbjct: 184 AIGKTCLELGYEPWHAEMHSREIEQVRATKRPVRGDVPFNGTFGRRIYDYIIFPVLGPDG 243 Query: 384 EVEAVAGTTRDVTERKNSEARQHALFRLAEAIRSAGSLGDIASAAAQIIGDALTARWVSY 443 EVEAVAGTTRDVT+RK+SEARQHAL LA+AIR+ S DIASAAA IIG+ALTARWVS+ Sbjct: 244 EVEAVAGTTRDVTDRKHSEARQHALLHLADAIRATDSPQDIASAAAHIIGEALTARWVSF 303 Query: 444 KSLGPAQQVEELGQWSFHQDDSAVAVLALHDERRVAQTVRSGSVMLVADVGTDARTAALR 503 +LGP +Q ++LGQW FH+DD A L H R + + + G MLVADV +DART AL Sbjct: 304 HTLGPQRQCQDLGQWRFHRDDDAERGLQAHARRPLQRVLEQGHPMLVADVSSDARTVALA 363 Query: 504 QEHLACGVASYMDVPLLDHEKLVGIVHVSSNLPRTWTDNELAIVREVSEQTRAAFERIRN 563 E A GV S+MDVP+L ++ V +V VSS+ PR WT+NELAIVREVSE+ AAFERIRN Sbjct: 364 DEQRALGVVSFMDVPVLAQDQPVALVQVSSDAPRVWTENELAIVREVSERACAAFERIRN 423 Query: 564 QQALAASEARLREINESLEAEVSARTRELMATEEALRHSQKIEAIGQLTGGLAHDFNNLL 623 Q+ALA SEARLR INESLEAEVSARTRELMATEEALRHSQKIEAIGQLTGGLAHDFNNLL Sbjct: 424 QRALAESEARLRAINESLEAEVSARTRELMATEEALRHSQKIEAIGQLTGGLAHDFNNLL 483 Query: 624 GGITGSLDLMRVRLVQGRGDELFRYIDLAARSAQRAASLTQRLLAFARRQTLDPRPTNVN 683 GGI+GSLDLMRVRLVQGRG+EL RY++LAARS QRAASLTQRLLAFARRQTL P+PT VN Sbjct: 484 GGISGSLDLMRVRLVQGRGEELLRYVELAARSTQRAASLTQRLLAFARRQTLAPKPTRVN 543 Query: 684 ALIGGMEELIRRTIGPAITLEVVTAVSLWPTFVDGPQLESALLNLCINARDAMPDGGRLT 743 ALI GMEELIRRTIGPAI LEVV A LWPTFVDGPQLESALLNLCINARDAMP GGRLT Sbjct: 544 ALISGMEELIRRTIGPAIVLEVVGAGGLWPTFVDGPQLESALLNLCINARDAMPGGGRLT 603 Query: 744 IETANKWLDDKWAQERDLPAGQYVCVSVTDNGSGMPPDVLARAFDPFFTTKPIGEGTGLG 803 IETANKWLDD+WA ERDLP GQYVC+SVTD+G GMPPDVLARAFDPFFTTKPIG GTGLG Sbjct: 604 IETANKWLDDRWAHERDLPPGQYVCISVTDSGVGMPPDVLARAFDPFFTTKPIGAGTGLG 663 Query: 804 LSMVYGFARQSGGQVRLYSEVGQGSTVSIYLPRHQQNADAEEAEPALAPAAAG 856 LSMVYGFARQSGGQVRLYSEVGQG+TVSIYLPRHQ + D ++ AL AAG Sbjct: 664 LSMVYGFARQSGGQVRLYSEVGQGTTVSIYLPRHQHDGDEQDEADALDETAAG 716 Score = 72.0 bits (175), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 49/110 (44%), Positives = 59/110 (53%), Gaps = 5/110 (4%) Query: 18 AVALLPATPPARYPAAYLALDAQWRVVYADDAARALLGSSPGSGEATAGAVLWQVWPALA 77 + AL P PA P A+ ALD QWR V+ D A+ALL G+ G +WQ P L Sbjct: 2 STALSPDRLPALPPEAFFALDPQWRFVFLDSPAQALLNP---HGQDLLGRPIWQACPELL 58 Query: 78 GSLLEEALRATLADGQSRQ-CLYTPAGQT-QSYEVICTPQAQGVAVSLRA 125 GS LEE LRA AD +SR L P Q +Y V C A G++V LRA Sbjct: 59 GSPLEECLRAVQADQRSRDAVLIHPHHQPGPAYAVSCYAGAHGLSVKLRA 108 >gi|300311617|ref|YP_003775709.1| PAS/PAC sensor hybrid histidine kinase response regulator protein [Herbaspirillum seropedicae SmR1] Length = 688 Score = 369 bits (948), Expect = e-103, Method: Compositional matrix adjust. Identities = 182/288 (63%), Positives = 227/288 (78%), Gaps = 3/288 (1%) Query: 572 ARLREINESLEAEVSARTRELMATEEALRHSQKIEAIGQLTGGLAHDFNNLLGGITGSLD 631 A LR +NE+LE V RT L+ EEALR +QK+EA+GQLTGGLAHDFNN+L GI+GSL+ Sbjct: 274 AALRTLNETLEQRVEERTAALLNAEEALRQAQKMEAVGQLTGGLAHDFNNILAGISGSLE 333 Query: 632 LMRVRLVQGRGDELFRYIDLAARSAQRAASLTQRLLAFARRQTLDPRPTNVNALIGGMEE 691 LM+VRL QGR ++ R+++ A + +RAA+LTQRLLAF+RRQTLDP+P ++N ++ GM E Sbjct: 334 LMKVRLAQGRIGDIERHLNGAQSAVKRAAALTQRLLAFSRRQTLDPKPADLNRIVAGMHE 393 Query: 692 LIRRTIGPAITLEVVTAVSLWPTFVDGPQLESALLNLCINARDAMPDGGRLTIETANKWL 751 LI R++GPAI +E + A LW TFVD Q+E+ALLNLCINARDAMP GGRLTIETAN+WL Sbjct: 394 LIGRSVGPAIAVETIAAGGLWHTFVDIGQMENALLNLCINARDAMPHGGRLTIETANRWL 453 Query: 752 DDKWAQERDLPAGQYVCVSVTDNGSGMPPDVLARAFDPFFTTKPIGEGTGLGLSMVYGFA 811 DD A +R +P GQYV +SV+D G+GM P+V+ARAFDPFFTTKP G+GTGLGLSMVYGFA Sbjct: 454 DDIGALQRGVPPGQYVSLSVSDTGAGMSPEVVARAFDPFFTTKPTGQGTGLGLSMVYGFA 513 Query: 812 RQSGGQVRLYSEVGQGSTVSIYLPRHQQNADAEEA---EPALAPAAAG 856 QSGG VR+YSE+GQG+ V IYLPRH ++ E + PAA G Sbjct: 514 GQSGGTVRIYSELGQGAMVCIYLPRHVGEGGVDDLALPEESHVPAAPG 561 >gi|300311805|ref|YP_003775897.1| two component hybrid sensor histidine kinase/response regulator protein [Herbaspirillum seropedicae SmR1] Length = 1278 Score = 253 bits (645), Expect = 7e-68, Method: Compositional matrix adjust. Identities = 205/639 (32%), Positives = 303/639 (47%), Gaps = 93/639 (14%) Query: 224 EHRIADARGQYRWFLTRGKP-QLEAGSGRILHWYGTSTDIHVQKEAIAELACLTRESERR 282 E+ I GQ RW +G+ Q + +G + G + D+ +K LA Sbjct: 382 EYHITRPDGQQRWLARKGEVVQDDPRTGS--RYVGVAFDVTARKLMEQALAASEASVRAN 439 Query: 283 RRFYESFLSTTPDLAYAWDLNHRFTYANRVLLQMWGKTWD-EAIGKNCLELGYEPWHAEM 341 F L +T ++ D T N LQ+ G + + +G+ ++ +P Sbjct: 440 NAFVRQLLDSTDQGFFSIDSAGIITLCNAAFLQLLGYAAEKDVLGRPIHDVILQPSEETQ 499 Query: 342 HSREIEQVRATKRPVRGDVPFNGTFGRRIYDYIIFPV------LGPDGEVEAVAGTTRDV 395 +RA + V V + F R D FPV + DG+++ T D+ Sbjct: 500 SRTGCAVLRAAREGVSAHVD-SENFLR--VDGTSFPVQYQTHPVWQDGQLQGALCTFVDL 556 Query: 396 TERKN-------SEARQHALFRLAEAIRSAGSLGDIASAAAQIIGDALTARWVSYKSLGP 448 TER+ SE R A+F A S L G L + LG Sbjct: 557 TERRRGLQALSWSENRLRAIFNQASVCFSELDLQ----------GRYLRVNQALCRMLGR 606 Query: 449 AQQVEELGQW---SFHQDDSAVAVLALHDERRVAQTVRSGSVMLVADVGTDARTAALRQE 505 +++ E LG H DD + ++ L D R+ L + Sbjct: 607 SEE-EMLGMTLADVTHPDDVPM------------------NMSLFNRCIEDGRSFTLEKR 647 Query: 506 HLACGVASYMDVPLLDHEKLVGIVHVSSNLPRTWTDNE------LAIVREVSEQTRAAFE 559 +L +++ VSS++ R D E +A+ +++E+ RA Sbjct: 648 YLRPDGSTFW---------------VSSDISRI-VDGEGRPQAMIAVSTDITERRRA--- 688 Query: 560 RIRNQQALAASEARLREINESLEAEVSARTRELMATEEALRHSQKIEAIGQLTGGLAHDF 619 E LRE+N++LE V E E ALR QK+EA+GQLTGG+AHDF Sbjct: 689 -----------EEALRELNDTLEQRVVEEILERSRAEAALRQMQKMEAVGQLTGGVAHDF 737 Query: 620 NNLLGGITGSLDLMRVRLVQGRGDELFRY-IDLAARSAQRAASLTQRLLAFARRQTLDPR 678 NN+L I G+L L++ R DE R + +A + R A L+ +LLAFARRQ L PR Sbjct: 738 NNVLQIIGGNLQLLQS---DPRLDERSRQRVRIAIGAVDRGAKLSSQLLAFARRQPLQPR 794 Query: 679 PTNVNALIGGMEELIRRTIGPAITLEVVTAVSLWPTFVDGPQLESALLNLCINARDAMPD 738 N+ ++ M++L+RR +G I + A LW T +D Q+E+ ++N INARDAMP Sbjct: 795 SINLERVVQNMDDLLRRAVGENIDISTRVAHDLWNTMLDPNQVENLIINTAINARDAMPS 854 Query: 739 GGRLTIETANKWLDDK-WAQERDLPAGQYVCVSVTDNGSGMPPDVLARAFDPFFTTKPIG 797 GGRLT++ N L+D + + DL G+YV + ++DNG+GM P+V RAF+PFFTTK G Sbjct: 855 GGRLTVQIDNVRLEDPVFLSQADLAPGEYVELQISDNGAGMSPEVRDRAFEPFFTTKLEG 914 Query: 798 EGTGLGLSMVYGFARQSGGQVRLYSEVGQGSTVSIYLPR 836 EGTGLGLSM YGF +QS G + ++SE G+G+T+ IY PR Sbjct: 915 EGTGLGLSMAYGFVKQSKGHISIHSEQGKGTTIRIYFPR 953 >gi|300311768|ref|YP_003775860.1| PAS/PAC sensor hybrid histidine kinase [Herbaspirillum seropedicae SmR1] Length = 552 Score = 230 bits (587), Expect = 3e-61, Method: Compositional matrix adjust. Identities = 126/246 (51%), Positives = 167/246 (67%), Gaps = 3/246 (1%) Query: 596 EEALRHSQKIEAIGQLTGGLAHDFNNLLGGITGSLDLMRVRLVQGRGD--ELFRYIDLAA 653 E+AL ++K+EA+GQLTGG+AHDFNNLL ITG LD++ + L + D + R D Sbjct: 164 EQALGQARKMEALGQLTGGIAHDFNNLLQVITGYLDMINLALRSDKPDLARVARSADSIR 223 Query: 654 RSAQRAASLTQRLLAFARRQTLDPRPTNVNALIGGMEELIRRTIGPAITLEVVTAVSLWP 713 +++ +AA LTQ+LLAFAR+Q L+ R N+N+L G +L+ RT+G IT++ A LW Sbjct: 224 KASGKAAMLTQQLLAFARKQRLEGRTINLNSLTEGFTDLVSRTLGGDITVQTELARGLWN 283 Query: 714 TFVDGPQLESALLNLCINARDAMPDGGRLTIETANKWL-DDKWAQERDLPAGQYVCVSVT 772 +D Q+E ALLN+ INARDAM GR+ I TAN+ L D A + L G YV ++VT Sbjct: 284 CRLDPTQMEVALLNVLINARDAMNGRGRVRIRTANEDLADPDRAVQLGLKEGLYVSIAVT 343 Query: 773 DNGSGMPPDVLARAFDPFFTTKPIGEGTGLGLSMVYGFARQSGGQVRLYSEVGQGSTVSI 832 D+G G+ PD+L R DPFFTTK G+GTGLGLSMVYGF +QSGG VR+ S G+TV+I Sbjct: 344 DDGPGIAPDILPRVMDPFFTTKDEGKGTGLGLSMVYGFVKQSGGSVRITSGAEGGTTVTI 403 Query: 833 YLPRHQ 838 Y P Q Sbjct: 404 YFPATQ 409 >gi|300313027|ref|YP_003777119.1| two component transmembrane sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 454 Score = 111 bits (278), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 85/309 (27%), Positives = 143/309 (46%), Gaps = 73/309 (23%) Query: 575 REINESLEAEVSARTR---ELMATEEALRHSQKIEAIGQLTGGLAHDFNNLLGGITGSLD 631 +E+ ++L+ + + + +L + L S+K+ +IGQL G+AH+ NN +G ++ +L+ Sbjct: 151 KEMEDTLQRQAEEQRKLIEQLKMAQAQLMQSEKLASIGQLAAGVAHEINNPIGFVSANLN 210 Query: 632 LM-----------------------------RVRLVQGRGDELFRYIDLAARSA------ 656 + ++R + R D F D+ A Sbjct: 211 TLGNYVATLLEGIQLHQCLQGGALPAAMAQEQLRSFEARADLAFLSEDVTELLAESNEGL 270 Query: 657 QRAASLTQRLLAFARRQTLDPRPTNVNALIGGMEELIRRTIGPAITL---EVVTAVSLWP 713 QR ++ Q L F+R + + T+ + R + + + E+ VS+ Sbjct: 271 QRVRNIVQSLKDFSRIGESNWQMTD-----------LHRGLDSTLNIANNELKYKVSIVK 319 Query: 714 TFVDGP-------QLESALLNLCINARDAMPDGGRLTIETANKWLDDKWAQERDLPAGQY 766 + + P +L +NL +NA A+ + G +TI TA AG Sbjct: 320 QYGELPLVKCLASELNQVFMNLLVNAAQAISERGTVTICTAR--------------AGDK 365 Query: 767 VCVSVTDNGSGMPPDVLARAFDPFFTTKPIGEGTGLGLSMVYGFARQSGGQVRLYSEVGQ 826 V VS++D G G+ P+ L R F+PFFTTKP+G GTGLGLS+ YG ++ GG +R+ S G Sbjct: 366 VSVSISDTGHGIAPENLNRIFEPFFTTKPVGSGTGLGLSLSYGIVKKHGGDIRVSSAPGC 425 Query: 827 GSTVSIYLP 835 G+T +I LP Sbjct: 426 GTTFTIELP 434 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 0.133 0.405 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: 3,092,403 Number of extensions: 134679 Number of successful extensions: 593 Number of sequences better than 1.0e-08: 16 Number of HSP's gapped: 586 Number of HSP's successfully gapped: 17 Length of query: 995 Length of database: 1,619,870 Length adjustment: 95 Effective length of query: 900 Effective length of database: 1,170,045 Effective search space: 1053040500 Effective search space used: 1053040500 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 (21.7 bits) S2: 135 (56.6 bits)