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= 0001.0705.p (675 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... 1265 0.0 gi|300313806|ref|YP_003777898.1| PAS/PAC HisKA ATPase_c domains ... 145 8e-36 gi|300310677|ref|YP_003774769.1| two component transmembrane sen... 142 8e-35 gi|300312655|ref|YP_003776747.1| C4-dicarboxylate transport sens... 110 3e-25 gi|300311768|ref|YP_003775860.1| PAS/PAC sensor hybrid histidine... 103 4e-23 >gi|300310177|ref|YP_003774269.1| C4-dicarboxylate transport sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 674 Score = 1265 bits (3273), Expect = 0.0, Method: Compositional matrix adjust. Identities = 620/658 (94%), Positives = 644/658 (97%) Query: 17 SQLQASGRKTTMRWLIPFLLVCLFLVTLIWLPRQAQQMEASERLEQLIADSLWVEQAIRF 76 SQL+ASGRKTTMRWLIPFLLVCLFL TLIWLPRQAQQMEASERLEQLIADSLWVEQAIRF Sbjct: 17 SQLRASGRKTTMRWLIPFLLVCLFLATLIWLPRQAQQMEASERLEQLIADSLWVEQAIRF 76 Query: 77 QLSRDDESMRIIGREISNGRLHQDHFRSRLNALLRNNREFYRVTWFNADGQAIASTDDLP 136 QLSRDDESMRIIGREI+NGRLHQ+HFRSRLNALLRNNREFYRVTWFNA+G+ +ASTDD P Sbjct: 77 QLSRDDESMRIIGREITNGRLHQEHFRSRLNALLRNNREFYRVTWFNAEGRPVASTDDFP 136 Query: 137 ISRHDLSQSSLMTAERARKMRRPLYSPPAVPPGIAEPMLMDYHVPLFHDNHYIGSLVASY 196 I+R DLS+SSLMT ERAR+MRRPLYSPPAVPPGIAEPMLMDYHVPLFHDNHY+GSLVASY Sbjct: 137 ITRADLSKSSLMTGERARQMRRPLYSPPAVPPGIAEPMLMDYHVPLFHDNHYVGSLVASY 196 Query: 197 AVARILNEMVPWWFAQDNEISLTDTDDNVVARRTSGGPGLNVYTHRRELELPGLTLVLHT 256 AVARILNEMVPWWFAQDNEISLTDTDDNVVARRTSGGPGLNVYTHRRELELPGLTLVLHT Sbjct: 197 AVARILNEMVPWWFAQDNEISLTDTDDNVVARRTSGGPGLNVYTHRRELELPGLTLVLHT 256 Query: 257 NSTKSAPKLLPNLLVGSVIVLSLGLLWSLWALWRDINRRTKAEKALLNEAVFRAAMENSL 316 NSTKSAPKLLPNLLVGSVIVLSLGLLWSLWALWRDINRRTKAEKALLNEAVFRAAMENSL Sbjct: 257 NSTKSAPKLLPNLLVGSVIVLSLGLLWSLWALWRDINRRTKAEKALLNEAVFRAAMENSL 316 Query: 317 VTGMRARDLEGRITYVNPAFCKMVGFQAEELVGKVPPMPYWAPEAMDEYQERFSNVLAGR 376 VTGMRARDLEGRITYVNPAFCKMVGF AEELVGK+PPMPYWAPEAMDEYQERFSNVLAGR Sbjct: 317 VTGMRARDLEGRITYVNPAFCKMVGFAAEELVGKIPPMPYWAPEAMDEYQERFSNVLAGR 376 Query: 377 VTPQFETIFQRRDGERFPVLIFESPLVDQDGKQTGWMGSILDISERKRAEDLNRTQEEKL 436 TPQFETIFQRRDGERFPVLIFESPLVDQDGKQTGWMGSILDISERKRAEDLNRTQEEKL Sbjct: 377 ATPQFETIFQRRDGERFPVLIFESPLVDQDGKQTGWMGSILDISERKRAEDLNRTQEEKL 436 Query: 437 QASARLASMGEIASTLAHELNQPLAAISSYTTGALNMMQQGQAEPRALQPALEKIHAQAQ 496 QASARLASMGEIASTLAHELNQPLAAISSYTTGALN+MQQGQA+P+ALQPALEKIHAQAQ Sbjct: 437 QASARLASMGEIASTLAHELNQPLAAISSYTTGALNLMQQGQADPKALQPALEKIHAQAQ 496 Query: 497 RAGHVIRSVHQFVKKREPARQRLQIRQLVDNVAPLIELQAQQFFVVLQWQVPKSLPAVLG 556 RAGHVIRSVHQFVKKREPARQR+Q+RQL+DNVAPLIELQAQQFFVVLQ QVP+SLP VLG Sbjct: 497 RAGHVIRSVHQFVKKREPARQRVQMRQLIDNVAPLIELQAQQFFVVLQLQVPRSLPPVLG 556 Query: 557 DQVLLEQVLLNLTRNGIQAMAAVPSARRILRVSAELTRNDDGAESVTVSVIDQGHGITED 616 DQ+LLEQV+LNLTRNGIQAMAAVPSARRILRV+AE+TRN+DGAESVTVSV DQGHGI +D Sbjct: 557 DQILLEQVILNLTRNGIQAMAAVPSARRILRVAAEVTRNEDGAESVTVSVTDQGHGIPDD 616 Query: 617 VAARLFSPFFSTKAEGMGMGLNICRTTIEFHGGTLTYTDNPAGGTIFRFSLPAQGAQD 674 VAARLFSPFFSTKAEGMGMGLNICRTTIEFHGGTLTYTDNPAGGTIFRFSLPAQ D Sbjct: 617 VAARLFSPFFSTKAEGMGMGLNICRTTIEFHGGTLTYTDNPAGGTIFRFSLPAQSGPD 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 = 145 bits (367), Expect = 8e-36, Method: Compositional matrix adjust. Identities = 96/341 (28%), Positives = 168/341 (49%), Gaps = 5/341 (1%) Query: 329 ITYVNPAFCKMVGFQ-AEELVGKVPPMPYWAPEAMDEYQERFSNVLAGRVTPQFETIFQR 387 + Y + C++ G + P+ E E + +A T + E R Sbjct: 185 LMYCSDELCRIYGLAPGRNCITYEEFAAIMHPDDRQEVVETVNAAVAMGGTIRVEHRICR 244 Query: 388 RDGERFPVLIFESPLVDQDGKQTGWMGSILDISERKRAEDLNRTQEEKLQASARLASMGE 447 +D L + +DG T ++G+ DI+ R++ E R + ++ +R ++G+ Sbjct: 245 QDTGEVRYLSGIGKPIWRDGTFTEYVGTATDITVRRQNEYAIRAAQIDMERVSRANTVGQ 304 Query: 448 IASTLAHELNQPLAAISSYTTGALNMMQQGQAEPRALQPALEKIHAQAQRAGHVIRSVHQ 507 + +++AHE+NQPL +I + +L + + + + L I A+ QRAG +I + Sbjct: 305 LTASIAHEINQPLMSIVANAGASLRWLDRPVPDLEHARTGLRDIIAEGQRAGGIISGLRD 364 Query: 508 FVKKREPARQRLQIRQLVDNVAPLIELQAQQFFVVLQWQVPKSLPAVLGDQVLLEQVLLN 567 + P +R+ + ++ ++ L + ++ V L + + VLGDQV L+QV+LN Sbjct: 365 LTRNAAPVCERVNLHAVIRHILTLSRSELERREVSLLLSLTPADAFVLGDQVQLQQVMLN 424 Query: 568 LTRNGIQAMAAVPSARRILRVSAELTRNDDGAESVTVSVIDQGHGITEDVAARLFSPFFS 627 L N I+AM+++P R+L ++A + D+ + + V V D G GI + R+F F++ Sbjct: 425 LVVNAIEAMSSMPEHARVLSITA--SSCDE--QRIEVKVQDSGEGIAPEAMRRVFDAFYT 480 Query: 628 TKAEGMGMGLNICRTTIEFHGGTLTYTDNPAGGTIFRFSLP 668 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 = 142 bits (358), Expect = 8e-35, Method: Compositional matrix adjust. Identities = 107/350 (30%), Positives = 177/350 (50%), Gaps = 18/350 (5%) Query: 326 EGRITYVNPAFCKMVGFQAEELVGKVPPMPY---WAPEAMDEYQERFSNVLAGRVTPQFE 382 +G I Y++ A K++G + G+ PP + P++ +E QE + L ++ Sbjct: 164 DGGIEYLSDAGRKLLGVRP----GQNPPKNFVEQCLPDSQEELQELLTLALPDAISFPLR 219 Query: 383 TIFQRRDG-ERFPVLIFESPLVDQDGKQTGWMGSILDISERKRAEDLNRTQEEKLQASAR 441 R+DG R+ + ++ D K G + DI+++ AE+ R + L+ AR Sbjct: 220 YRIARKDGLVRWHHAVCRYIEIENDLK--GHLLHFHDITDQVEAEEARRRDQAALEYLAR 277 Query: 442 LASMGEIASTLAHELNQPLAAISSYTTGALNMMQQGQA---EPRALQPALEKIHAQAQRA 498 +MGE+A+ +AHEL+QPLAAI ++ G++ + +A + + LE Q A Sbjct: 278 HNAMGEMATAIAHELSQPLAAIRNFLEGSVLRLNHSEALREQAGQIIWGLESAGRQVDHA 337 Query: 499 GHVIRSVHQFVKKREPARQRLQIRQLVDNVAPLIELQAQQFFVVLQWQVPKSLPAVLGDQ 558 +I+SV ++V K E + + + +++ V IE++A + V L+ Q + V ++ Sbjct: 338 AAIIKSVREYVVKLEQSEGLIDLNEVLAEVRWFIEMRAAEGRVQLEVQASEEALVVSCEK 397 Query: 559 VLLEQVLLNLTRNGIQAMAAVPSARRILRVSAELTRNDDGAESVTVSVIDQGHGITEDVA 618 VL+ QV+LNL N I+ M+ P +R RV L R D A ++V D+G GI Sbjct: 398 VLIGQVILNLAFNAIEEMSHFPENQR--RVCISLARKDQQA---LLTVADEGRGIDAGHR 452 Query: 619 ARLFSPFFSTKAEGMGMGLNICRTTIEFHGGTLTYTDNPAGGTIFRFSLP 668 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 = 110 bits (276), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 83/284 (29%), Positives = 148/284 (52%), Gaps = 13/284 (4%) Query: 388 RDGERFPVLIFESPLVDQDGKQTGWMGSILDISER-KRAEDLNRTQEEKLQASARLASMG 446 RD R E + ++ G+ T ++ E+ ++ E L RT + +L + +LA +G Sbjct: 321 RDALRRAAAELEQRIAERTGQLTAANQALEARYEKLQQTESLLRTTQNELVQAGKLAMLG 380 Query: 447 EIASTLAHELNQPLAAISSYTTGALNMMQQGQAEPRALQPALEKIHAQAQRAGHVIRSVH 506 ++A+ + HELNQPL AI ++ A+ + +GQ+ +A++ LE I + + G +I + Sbjct: 381 QMAAGVTHELNQPLTAIRAFADNAVKFLARGQS-AQAVEN-LEYISSASATMGKIIAQLK 438 Query: 507 QFVKKREPARQRLQIRQLVDNVAPLIELQAQQFFVVLQWQVPKSLPAVLGDQVLLEQVLL 566 F +K A + + Q ++ + L+ + Q+ + + ++ V GD V EQVL+ Sbjct: 439 GFARKSGEAVACVDLSQAIEASSLLLASECQKLGATISIDI-RAAACVTGDVVRTEQVLV 497 Query: 567 NLTRNGIQAMAAVPSARRILRVSAELTRNDDGAESVTVSVIDQGHGITEDVAARLFSPFF 626 NL RN + A+ R + V E+ G ++ V + D G GI ++VA LF PFF Sbjct: 498 NLLRNALDAVEEAEHKR--IAVVLEVA----GGYAL-VRIRDSGGGIADEVAPHLFEPFF 550 Query: 627 STK--AEGMGMGLNICRTTIEFHGGTLTYTDNPAGGTIFRFSLP 668 +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 = 103 bits (258), Expect = 4e-23, Method: Compositional matrix adjust. Identities = 88/351 (25%), Positives = 154/351 (43%), Gaps = 21/351 (5%) Query: 329 ITYVNPAFCKMVGFQAEELVGKVPPMPYWAPEAMDEYQERFSNVLAGRVTPQFETIFQRR 388 I +VN AF M G+ + E+VGK PE +A R E + R+ Sbjct: 68 IVFVNNAFINMTGYSSAEVVGKNCRF-LQGPETDRSVVAEVRRAVAERREIATELLNYRK 126 Query: 389 DGERFPVLIFESPLVDQDGKQTGWMGSILDISERKRAEDLNRTQEEKLQASARLASMGEI 448 +G F +F SP+ DQ G + S LDIS R+ AE + L + ++ ++G++ Sbjct: 127 NGSTFWNALFISPVYDQQGNLKYFFSSQLDISRRRDAE-------QALGQARKMEALGQL 179 Query: 449 ASTLAHELNQPLAAISSYTTGALNMMQQGQAEPRALQPALEKIHAQAQRAGHVIRSVHQF 508 +AH+ N L I+ Y ++ + + + + + I + +A + + + F Sbjct: 180 TGGIAHDFNNLLQVITGYLDMINLALRSDKPDLARVARSADSIRKASGKAAMLTQQLLAF 239 Query: 509 VKKREPARQRLQIRQLVDNVAPLIELQAQQFFVVLQWQVPKSLPAVLGDQVLLEQVLLNL 568 +K+ + + + L + L+ + + +Q ++ + L D +E LLN+ Sbjct: 240 ARKQRLEGRTINLNSLTEGFTDLVS-RTLGGDITVQTELARGLWNCRLDPTQMEVALLNV 298 Query: 569 TRNGIQAMAAVPSARRILRVSAELTRNDDGAES--------VTVSVIDQGHGITEDVAAR 620 N AM R +R + E + D A V+++V D G GI D+ R Sbjct: 299 LINARDAMNGRGRVR--IRTANEDLADPDRAVQLGLKEGLYVSIAVTDDGPGIAPDILPR 356 Query: 621 LFSPFFSTKAE--GMGMGLNICRTTIEFHGGTLTYTDNPAGGTIFRFSLPA 669 + PFF+TK E G G+GL++ ++ GG++ T GGT PA Sbjct: 357 VMDPFFTTKDEGKGTGLGLSMVYGFVKQSGGSVRITSGAEGGTTVTIYFPA 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 0.395 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: 1,966,364 Number of extensions: 80588 Number of successful extensions: 388 Number of sequences better than 1.0e-08: 28 Number of HSP's gapped: 367 Number of HSP's successfully gapped: 28 Length of query: 675 Length of database: 1,619,870 Length adjustment: 92 Effective length of query: 583 Effective length of database: 1,184,250 Effective search space: 690417750 Effective search space used: 690417750 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)