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= 0004.0036.p (688 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310177|ref|YP_003774269.1| C4-dicarboxylate transport sens... 1382 0.0 gi|300313806|ref|YP_003777898.1| PAS/PAC HisKA ATPase_c domains ... 153 5e-38 gi|300310677|ref|YP_003774769.1| two component transmembrane sen... 138 1e-33 gi|300312655|ref|YP_003776747.1| C4-dicarboxylate transport sens... 118 1e-27 gi|300311768|ref|YP_003775860.1| PAS/PAC sensor hybrid histidine... 110 3e-25 >gi|300310177|ref|YP_003774269.1| C4-dicarboxylate transport sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 674 Score = 1382 bits (3576), Expect = 0.0, Method: Compositional matrix adjust. Identities = 674/674 (100%), Positives = 674/674 (100%) Query: 15 MKSIPPPPIAPQPSAASQLRASGRKTTMRWLIPFLLVCLFLATLIWLPRQAQQMEASERL 74 MKSIPPPPIAPQPSAASQLRASGRKTTMRWLIPFLLVCLFLATLIWLPRQAQQMEASERL Sbjct: 1 MKSIPPPPIAPQPSAASQLRASGRKTTMRWLIPFLLVCLFLATLIWLPRQAQQMEASERL 60 Query: 75 EQLIADSLWVEQAIRFQLSRDDESMRIIGREITNGRLHQEHFRSRLNALLRNNREFYRVT 134 EQLIADSLWVEQAIRFQLSRDDESMRIIGREITNGRLHQEHFRSRLNALLRNNREFYRVT Sbjct: 61 EQLIADSLWVEQAIRFQLSRDDESMRIIGREITNGRLHQEHFRSRLNALLRNNREFYRVT 120 Query: 135 WFNAEGRPVASTDDFPITRADLSKSSLMTGERARQMRRPLYSPPAVPPGIAEPMLMDYHV 194 WFNAEGRPVASTDDFPITRADLSKSSLMTGERARQMRRPLYSPPAVPPGIAEPMLMDYHV Sbjct: 121 WFNAEGRPVASTDDFPITRADLSKSSLMTGERARQMRRPLYSPPAVPPGIAEPMLMDYHV 180 Query: 195 PLFHDNHYVGSLVASYAVARILNEMVPWWFAQDNEISLTDTDDNVVARRTSGGPGLNVYT 254 PLFHDNHYVGSLVASYAVARILNEMVPWWFAQDNEISLTDTDDNVVARRTSGGPGLNVYT Sbjct: 181 PLFHDNHYVGSLVASYAVARILNEMVPWWFAQDNEISLTDTDDNVVARRTSGGPGLNVYT 240 Query: 255 HRRELELPGLTLVLHTNSTKSAPKLLPNLLVGSVIVLSLGLLWSLWALWRDINRRTKAEK 314 HRRELELPGLTLVLHTNSTKSAPKLLPNLLVGSVIVLSLGLLWSLWALWRDINRRTKAEK Sbjct: 241 HRRELELPGLTLVLHTNSTKSAPKLLPNLLVGSVIVLSLGLLWSLWALWRDINRRTKAEK 300 Query: 315 ALLNEAVFRAAMENSLVTGMRARDLEGRITYVNPAFCKMVGFAAEELVGKIPPMPYWAPE 374 ALLNEAVFRAAMENSLVTGMRARDLEGRITYVNPAFCKMVGFAAEELVGKIPPMPYWAPE Sbjct: 301 ALLNEAVFRAAMENSLVTGMRARDLEGRITYVNPAFCKMVGFAAEELVGKIPPMPYWAPE 360 Query: 375 AMDEYQERFSNVLAGRATPQFETIFQRRDGERFPVLIFESPLVDQDGKQTGWMGSILDIS 434 AMDEYQERFSNVLAGRATPQFETIFQRRDGERFPVLIFESPLVDQDGKQTGWMGSILDIS Sbjct: 361 AMDEYQERFSNVLAGRATPQFETIFQRRDGERFPVLIFESPLVDQDGKQTGWMGSILDIS 420 Query: 435 ERKRAEDLNRTQEEKLQASARLASMGEIASTLAHELNQPLAAISSYTTGALNLMQQGQAD 494 ERKRAEDLNRTQEEKLQASARLASMGEIASTLAHELNQPLAAISSYTTGALNLMQQGQAD Sbjct: 421 ERKRAEDLNRTQEEKLQASARLASMGEIASTLAHELNQPLAAISSYTTGALNLMQQGQAD 480 Query: 495 PKALQPALEKIHAQAQRAGHVIRSVHQFVKKREPARQRVQMRQLIDNVAPLIELQAQQFF 554 PKALQPALEKIHAQAQRAGHVIRSVHQFVKKREPARQRVQMRQLIDNVAPLIELQAQQFF Sbjct: 481 PKALQPALEKIHAQAQRAGHVIRSVHQFVKKREPARQRVQMRQLIDNVAPLIELQAQQFF 540 Query: 555 VVLQLQVPRSLPPVLGDQILLEQVILNLTRNGIQAMAAVPSARRILRVAAEVTRNEDGAE 614 VVLQLQVPRSLPPVLGDQILLEQVILNLTRNGIQAMAAVPSARRILRVAAEVTRNEDGAE Sbjct: 541 VVLQLQVPRSLPPVLGDQILLEQVILNLTRNGIQAMAAVPSARRILRVAAEVTRNEDGAE 600 Query: 615 SVTVSVTDQGHGIPDDVAARLFSPFFSTKAEGMGMGLNICRTTIEFHGGTLTYTDNPAGG 674 SVTVSVTDQGHGIPDDVAARLFSPFFSTKAEGMGMGLNICRTTIEFHGGTLTYTDNPAGG Sbjct: 601 SVTVSVTDQGHGIPDDVAARLFSPFFSTKAEGMGMGLNICRTTIEFHGGTLTYTDNPAGG 660 Query: 675 TIFRFSLPAQSGPD 688 TIFRFSLPAQSGPD Sbjct: 661 TIFRFSLPAQSGPD 674 >gi|300313806|ref|YP_003777898.1| PAS/PAC HisKA ATPase_c domains containing sensor signal transduction histidine kinase [Herbaspirillum seropedicae SmR1] Length = 524 Score = 153 bits (386), Expect = 5e-38, Method: Compositional matrix adjust. Identities = 99/341 (29%), Positives = 167/341 (48%), Gaps = 5/341 (1%) Query: 343 ITYVNPAFCKMVGFA-AEELVGKIPPMPYWAPEAMDEYQERFSNVLAGRATPQFETIFQR 401 + Y + C++ G A + P+ E E + +A T + E R Sbjct: 185 LMYCSDELCRIYGLAPGRNCITYEEFAAIMHPDDRQEVVETVNAAVAMGGTIRVEHRICR 244 Query: 402 RDGERFPVLIFESPLVDQDGKQTGWMGSILDISERKRAEDLNRTQEEKLQASARLASMGE 461 +D L + +DG T ++G+ DI+ R++ E R + ++ +R ++G+ Sbjct: 245 QDTGEVRYLSGIGKPIWRDGTFTEYVGTATDITVRRQNEYAIRAAQIDMERVSRANTVGQ 304 Query: 462 IASTLAHELNQPLAAISSYTTGALNLMQQGQADPKALQPALEKIHAQAQRAGHVIRSVHQ 521 + +++AHE+NQPL +I + +L + + D + + L I A+ QRAG +I + Sbjct: 305 LTASIAHEINQPLMSIVANAGASLRWLDRPVPDLEHARTGLRDIIAEGQRAGGIISGLRD 364 Query: 522 FVKKREPARQRVQMRQLIDNVAPLIELQAQQFFVVLQLQVPRSLPPVLGDQILLEQVILN 581 + P +RV + +I ++ L + ++ V L L + + VLGDQ+ L+QV+LN Sbjct: 365 LTRNAAPVCERVNLHAVIRHILTLSRSELERREVSLLLSLTPADAFVLGDQVQLQQVMLN 424 Query: 582 LTRNGIQAMAAVPSARRILRVAAEVTRNEDGAESVTVSVTDQGHGIPDDVAARLFSPFFS 641 L N I+AM+++P R+L + A + + V V D G GI + R+F F++ Sbjct: 425 LVVNAIEAMSSMPEHARVLSITASSCDE----QRIEVKVQDSGEGIAPEAMRRVFDAFYT 480 Query: 642 TKAEGMGMGLNICRTTIEFHGGTLTYTDNPAGGTIFRFSLP 682 TK GMGMGL ICR+ IE H G L G +F F LP Sbjct: 481 TKDSGMGMGLAICRSIIENHRGRLRVAAAQPHGALFSFDLP 521 >gi|300310677|ref|YP_003774769.1| two component transmembrane sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 508 Score = 138 bits (348), Expect = 1e-33, Method: Compositional matrix adjust. Identities = 105/350 (30%), Positives = 174/350 (49%), Gaps = 18/350 (5%) Query: 340 EGRITYVNPAFCKMVGFAAEELVGKIPPMPY---WAPEAMDEYQERFSNVLAGRATPQFE 396 +G I Y++ A K++G G+ PP + P++ +E QE + L + Sbjct: 164 DGGIEYLSDAGRKLLGVRP----GQNPPKNFVEQCLPDSQEELQELLTLALPDAISFPLR 219 Query: 397 TIFQRRDG-ERFPVLIFESPLVDQDGKQTGWMGSILDISERKRAEDLNRTQEEKLQASAR 455 R+DG R+ + ++ D K G + DI+++ AE+ R + L+ AR Sbjct: 220 YRIARKDGLVRWHHAVCRYIEIENDLK--GHLLHFHDITDQVEAEEARRRDQAALEYLAR 277 Query: 456 LASMGEIASTLAHELNQPLAAISSYTTGALNLMQQGQA---DPKALQPALEKIHAQAQRA 512 +MGE+A+ +AHEL+QPLAAI ++ G++ + +A + LE Q A Sbjct: 278 HNAMGEMATAIAHELSQPLAAIRNFLEGSVLRLNHSEALREQAGQIIWGLESAGRQVDHA 337 Query: 513 GHVIRSVHQFVKKREPARQRVQMRQLIDNVAPLIELQAQQFFVVLQLQVPRSLPPVLGDQ 572 +I+SV ++V K E + + + +++ V IE++A + V L++Q V ++ Sbjct: 338 AAIIKSVREYVVKLEQSEGLIDLNEVLAEVRWFIEMRAAEGRVQLEVQASEEALVVSCEK 397 Query: 573 ILLEQVILNLTRNGIQAMAAVPSARRILRVAAEVTRNEDGAESVTVSVTDQGHGIPDDVA 632 +L+ QVILNL N I+ M+ P +R RV + R + A ++V D+G GI Sbjct: 398 VLIGQVILNLAFNAIEEMSHFPENQR--RVCISLARKDQQA---LLTVADEGRGIDAGHR 452 Query: 633 ARLFSPFFSTKAEGMGMGLNICRTTIEFHGGTLTYTDNPAGGTIFRFSLP 682 RLF FFS+K G G+GL +C+ I H G + GT F F+LP Sbjct: 453 ERLFDGFFSSKVSGNGIGLALCKNIIARHRGDIWAQPAQVRGTRFCFTLP 502 >gi|300312655|ref|YP_003776747.1| C4-dicarboxylate transport sensor kinase transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 600 Score = 118 bits (296), Expect = 1e-27, Method: Compositional matrix adjust. Identities = 86/284 (30%), Positives = 149/284 (52%), Gaps = 13/284 (4%) Query: 402 RDGERFPVLIFESPLVDQDGKQTGWMGSILDISER-KRAEDLNRTQEEKLQASARLASMG 460 RD R E + ++ G+ T ++ E+ ++ E L RT + +L + +LA +G Sbjct: 321 RDALRRAAAELEQRIAERTGQLTAANQALEARYEKLQQTESLLRTTQNELVQAGKLAMLG 380 Query: 461 EIASTLAHELNQPLAAISSYTTGALNLMQQGQADPKALQPALEKIHAQAQRAGHVIRSVH 520 ++A+ + HELNQPL AI ++ A+ + +GQ+ +A++ LE I + + G +I + Sbjct: 381 QMAAGVTHELNQPLTAIRAFADNAVKFLARGQS-AQAVEN-LEYISSASATMGKIIAQLK 438 Query: 521 QFVKKREPARQRVQMRQLIDNVAPLIELQAQQFFVVLQLQVPRSLPPVLGDQILLEQVIL 580 F +K A V + Q I+ + L+ + Q+ + + + R+ V GD + EQV++ Sbjct: 439 GFARKSGEAVACVDLSQAIEASSLLLASECQKLGATISIDI-RAAACVTGDVVRTEQVLV 497 Query: 581 NLTRNGIQAMAAVPSARRILRVAAEVTRNEDGAESVTVSVTDQGHGIPDDVAARLFSPFF 640 NL RN + A+ R + V EV G ++ V + D G GI D+VA LF PFF Sbjct: 498 NLLRNALDAVEEAEHKR--IAVVLEVA----GGYAL-VRIRDSGGGIADEVAPHLFEPFF 550 Query: 641 STK--AEGMGMGLNICRTTIEFHGGTLTYTDNPAGGTIFRFSLP 682 +TK ++G+G+GL I + ++ G L+ ++ GG F LP Sbjct: 551 TTKSSSKGLGLGLAISSSIVQAMNGQLSAHNHEEGGAEFVVRLP 594 >gi|300311768|ref|YP_003775860.1| PAS/PAC sensor hybrid histidine kinase [Herbaspirillum seropedicae SmR1] Length = 552 Score = 110 bits (276), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 93/352 (26%), Positives = 159/352 (45%), Gaps = 23/352 (6%) Query: 343 ITYVNPAFCKMVGFAAEELVGKIPPMPYWAPEAMDEYQERFSNVLAGRATPQFETIFQRR 402 I +VN AF M G+++ E+VGK PE +A R E + R+ Sbjct: 68 IVFVNNAFINMTGYSSAEVVGKNCRF-LQGPETDRSVVAEVRRAVAERREIATELLNYRK 126 Query: 403 DGERFPVLIFESPLVDQDGKQTGWMGSILDISERKRAEDLNRTQEEKLQASARLASMGEI 462 +G F +F SP+ DQ G + S LDIS R+ AE + L + ++ ++G++ Sbjct: 127 NGSTFWNALFISPVYDQQGNLKYFFSSQLDISRRRDAE-------QALGQARKMEALGQL 179 Query: 463 ASTLAHELNQPLAAISSYTTGALNL-MQQGQADPKALQPALEKIHAQAQRAGHVIRSVHQ 521 +AH+ N L I+ Y +NL ++ + D + + + I + +A + + + Sbjct: 180 TGGIAHDFNNLLQVITGYLD-MINLALRSDKPDLARVARSADSIRKASGKAAMLTQQLLA 238 Query: 522 FVKKREPARQRVQMRQLIDNVAPLIELQAQQFFVVLQLQVPRSLPPVLGDQILLEQVILN 581 F +K+ + + + L + L+ + + +Q ++ R L D +E +LN Sbjct: 239 FARKQRLEGRTINLNSLTEGFTDLVS-RTLGGDITVQTELARGLWNCRLDPTQMEVALLN 297 Query: 582 LTRNGIQAMAAVPSARRILRVAAEVTRNEDGAES--------VTVSVTDQGHGIPDDVAA 633 + N AM R +R A E + D A V+++VTD G GI D+ Sbjct: 298 VLINARDAMNGRGRVR--IRTANEDLADPDRAVQLGLKEGLYVSIAVTDDGPGIAPDILP 355 Query: 634 RLFSPFFSTKAE--GMGMGLNICRTTIEFHGGTLTYTDNPAGGTIFRFSLPA 683 R+ PFF+TK E G G+GL++ ++ GG++ T GGT PA Sbjct: 356 RVMDPFFTTKDEGKGTGLGLSMVYGFVKQSGGSVRITSGAEGGTTVTIYFPA 407 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 0.320 0.134 0.397 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: 1,986,871 Number of extensions: 79592 Number of successful extensions: 417 Number of sequences better than 1.0e-08: 27 Number of HSP's gapped: 400 Number of HSP's successfully gapped: 27 Length of query: 688 Length of database: 1,619,870 Length adjustment: 92 Effective length of query: 596 Effective length of database: 1,184,250 Effective search space: 705813000 Effective search space used: 705813000 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 (21.8 bits) S2: 134 (56.2 bits)