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= 0022.0219.p (524 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313806|ref|YP_003777898.1| PAS/PAC HisKA ATPase_c domains ... 1053 0.0 gi|300310177|ref|YP_003774269.1| C4-dicarboxylate transport sens... 153 3e-38 gi|300310677|ref|YP_003774769.1| two component transmembrane sen... 137 2e-33 gi|300313027|ref|YP_003777119.1| two component transmembrane sen... 124 2e-29 gi|300312655|ref|YP_003776747.1| C4-dicarboxylate transport sens... 105 1e-23 >gi|300313806|ref|YP_003777898.1| PAS/PAC HisKA ATPase_c domains containing sensor signal transduction histidine kinase [Herbaspirillum seropedicae SmR1] Length = 524 Score = 1053 bits (2722), Expect = 0.0, Method: Compositional matrix adjust. Identities = 519/524 (99%), Positives = 521/524 (99%) Query: 1 LSAHAHLPAGPADPDDSTRLLQALRELSALLDPLRLKPAIARAACAVTGARHCLLVRTTP 60 +SAHAHLPAGPADPDDSTRLLQALRELSALLDPLRLKPAIARAACAVTGARHCLLVRTTP Sbjct: 1 MSAHAHLPAGPADPDDSTRLLQALRELSALLDPLRLKPAIARAACAVTGARHCLLVRTTP 60 Query: 61 EGLLIEAEALRQDQSILDARRNRAVAEDELQGLLALPLMHGQQALGTLYLQWEAALPERT 120 EGLLIEAEAL QDQSILDARRNRAVAEDELQGLLALPLMHGQQALGTLYLQWEAALPERT Sbjct: 61 EGLLIEAEALCQDQSILDARRNRAVAEDELQGLLALPLMHGQQALGTLYLQWEAALPERT 120 Query: 121 RALAAQFADYAAVALANALAHAHLLQENEQLTCAEKELRTSQELLKQGERFNHTGSMRYL 180 RALAAQFADYAAVALANALAHAHLLQENEQLTCAEKELRTSQELLKQGERFNHTGSMRYL Sbjct: 121 RALAAQFADYAAVALANALAHAHLLQENEQLTCAEKELRTSQELLKQGERFNHTGSMRYL 180 Query: 181 VREDLMYCSDELCRIYGLAPGRNCITYEEFAAIMHPDDRQEVVETVNAAVAMGGTIRVEH 240 VREDLMYCSDELCRIYGLAPGRNCITYEEFAAIMHPDDRQEVVETVNAAVAMGGTIRVEH Sbjct: 181 VREDLMYCSDELCRIYGLAPGRNCITYEEFAAIMHPDDRQEVVETVNAAVAMGGTIRVEH 240 Query: 241 RICRQDTGEVRYLSGIGKPIWRDGTFTEYVGTATDITVRRQNEYAIRAAQIDMERVSRAN 300 RICRQDTGEVRYLSGIGKPIWRDGTFTEYVGTATDITVRRQNEYAIRAAQIDMERVSRAN Sbjct: 241 RICRQDTGEVRYLSGIGKPIWRDGTFTEYVGTATDITVRRQNEYAIRAAQIDMERVSRAN 300 Query: 301 TVGQLTASIAHEINQPLMSIVANAGASLRWLDRAVPDLEHARTGLRDIIAEGQRAGGIIS 360 TVGQLTASIAHEINQPLMSIVANAGASLRWLDR VPDLEHARTGLRDIIAEGQRAGGIIS Sbjct: 301 TVGQLTASIAHEINQPLMSIVANAGASLRWLDRPVPDLEHARTGLRDIIAEGQRAGGIIS 360 Query: 361 GLRDLTRNAAPVCERVNLHAVIRHILTLSRSELERREVSLLLSLTPADAFVLGDQVQLQQ 420 GLRDLTRNAAPVCERVNLHAVIRHILTLSRSELERREVSLLLSLTPADAFVLGDQVQLQQ Sbjct: 361 GLRDLTRNAAPVCERVNLHAVIRHILTLSRSELERREVSLLLSLTPADAFVLGDQVQLQQ 420 Query: 421 VMLNLVVNAIEAMSGMPEHARVLSITASSCDEQRIEVRVQDSGEGIAPEAMRRVFDAFYT 480 VMLNLVVNAIEAMS MPEHARVLSITASSCDEQRIEV+VQDSGEGIAPEAMRRVFDAFYT Sbjct: 421 VMLNLVVNAIEAMSSMPEHARVLSITASSCDEQRIEVKVQDSGEGIAPEAMRRVFDAFYT 480 Query: 481 TKDSGMGMGLAICRSIIENHRGRLRVAAAQPHGALFSFDLPRVP 524 TKDSGMGMGLAICRSIIENHRGRLRVAAAQPHGALFSFDLPRVP Sbjct: 481 TKDSGMGMGLAICRSIIENHRGRLRVAAAQPHGALFSFDLPRVP 524 >gi|300310177|ref|YP_003774269.1| C4-dicarboxylate transport sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 674 Score = 153 bits (387), Expect = 3e-38, Method: Compositional matrix adjust. Identities = 99/341 (29%), Positives = 166/341 (48%), Gaps = 5/341 (1%) Query: 185 LMYCSDELCRIYGLAPGRNCITYEEFAAIMHPDDRQEVVETVNAAVAMGGTIRVEHRICR 244 + Y + C++ G A + P+ E E + +A T + E R Sbjct: 329 ITYVNPAFCKMVGFA-AEELVGKIPPMPYWAPEAMDEYQERFSNVLAGRATPQFETIFQR 387 Query: 245 QDTGEVRYLSGIGKPIWRDGTFTEYVGTATDITVRRQNEYAIRAAQIDMERVSRANTVGQ 304 +D L + +DG T ++G+ DI+ R++ E R + ++ +R ++G+ Sbjct: 388 RDGERFPVLIFESPLVDQDGKQTGWMGSILDISERKRAEDLNRTQEEKLQASARLASMGE 447 Query: 305 LTASIAHEINQPLMSIVANAGASLRWLDRAVPDLEHARTGLRDIIAEGQRAGGIISGLRD 364 + +++AHE+NQPL +I + +L + + D + + L I A+ QRAG +I + Sbjct: 448 IASTLAHELNQPLAAISSYTTGALNLMQQGQADPKALQPALEKIHAQAQRAGHVIRSVHQ 507 Query: 365 LTRNAAPVCERVNLHAVIRHILTLSRSELERREVSLLLSLTPADAFVLGDQVQLQQVMLN 424 + P +RV + +I ++ L + ++ V L L + + VLGDQ+ L+QV+LN Sbjct: 508 FVKKREPARQRVQMRQLIDNVAPLIELQAQQFFVVLQLQVPRSLPPVLGDQILLEQVILN 567 Query: 425 LVVNAIEAMSGMPEHARVLSITASSCDE----QRIEVRVQDSGEGIAPEAMRRVFDAFYT 480 L N I+AM+ +P R+L + A + + V V D G GI + R+F F++ Sbjct: 568 LTRNGIQAMAAVPSARRILRVAAEVTRNEDGAESVTVSVTDQGHGIPDDVAARLFSPFFS 627 Query: 481 TKDSGMGMGLAICRSIIENHRGRLRVAAAQPHGALFSFDLP 521 TK GMGMGL ICR+ IE H G L G +F F LP Sbjct: 628 TKAEGMGMGLNICRTTIEFHGGTLTYTDNPAGGTIFRFSLP 668 >gi|300310677|ref|YP_003774769.1| two component transmembrane sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 508 Score = 137 bits (345), Expect = 2e-33, Method: Compositional matrix adjust. Identities = 112/354 (31%), Positives = 179/354 (50%), Gaps = 35/354 (9%) Query: 187 YCSDELCRIYGLAPGRNCITYEEFAAIMHPDDRQEVVETVNAAVAMGGTIRVEHRICRQD 246 Y SD ++ G+ PG+N + F PD ++E+ E + A+ + + +RI R+D Sbjct: 169 YLSDAGRKLLGVRPGQN--PPKNFVEQCLPDSQEELQELLTLALPDAISFPLRYRIARKD 226 Query: 247 TGEVRYLSGIGKPIWRDGTFTEYVGTATDITVRRQNEYAIRAAQIDMERVSRANTVGQLT 306 G VR+ + + I + ++ DIT + + E A R Q +E ++R N +G++ Sbjct: 227 -GLVRWHHAVCRYIEIENDLKGHLLHFHDITDQVEAEEARRRDQAALEYLARHNAMGEMA 285 Query: 307 ASIAHEINQPLMSIVANAGASLRWLDRAVPDLEHARTGLRDIIAEGQRAGGIISGLRDLT 366 +IAHE++QPL +I +L+ +V L H+ LR ++AG II GL Sbjct: 286 TAIAHELSQPLAAI-------RNFLEGSVLRLNHS-EALR------EQAGQIIWGLESAG 331 Query: 367 R---NAAPVCERVNLHAV----------IRHILTLSRSELERR----EVSLLLSLTPADA 409 R +AA + + V + V + +L R +E R V L + + Sbjct: 332 RQVDHAAAIIKSVREYVVKLEQSEGLIDLNEVLAEVRWFIEMRAAEGRVQLEVQASEEAL 391 Query: 410 FVLGDQVQLQQVMLNLVVNAIEAMSGMPEHARVLSITASSCDEQRIEVRVQDSGEGIAPE 469 V ++V + QV+LNL NAIE MS PE+ R + I+ + D+Q + + V D G GI Sbjct: 392 VVSCEKVLIGQVILNLAFNAIEEMSHFPENQRRVCISLARKDQQAL-LTVADEGRGIDAG 450 Query: 470 AMRRVFDAFYTTKDSGMGMGLAICRSIIENHRGRLRVAAAQPHGALFSFDLPRV 523 R+FD F+++K SG G+GLA+C++II HRG + AQ G F F LP V Sbjct: 451 HRERLFDGFFSSKVSGNGIGLALCKNIIARHRGDIWAQPAQVRGTRFCFTLPLV 504 >gi|300313027|ref|YP_003777119.1| two component transmembrane sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 454 Score = 124 bits (311), Expect = 2e-29, Method: Compositional matrix adjust. Identities = 110/400 (27%), Positives = 179/400 (44%), Gaps = 79/400 (19%) Query: 185 LMYCSDELCRIYGLAPGRNCITYEEFAAIMHPDDRQEVVETVNAAVAMGGTIRVEHRICR 244 L + S+ R+ G P + +HPDD ++ +++AM + VE Sbjct: 57 LTFVSENASRVLGYEPCEMLDDPNFWFNHIHPDDTAQIF----SSLAM---LFVED---- 105 Query: 245 QDTGEVRYLSGIGKPIWR----------DGTFTEYVGTATDITVRRQNEYAI-------- 286 Q E R+ + G +W DGT E +G TDIT R++ E + Sbjct: 106 QKIYEYRFRTSNGSYLWMHDTLRLIRDPDGTPQEVIGLMTDITGRKEMEDTLQRQAEEQR 165 Query: 287 ------RAAQIDMERVSRANTVGQLTASIAHEINQPLMSIVAN----------------- 323 + AQ + + + ++GQL A +AHEIN P+ + AN Sbjct: 166 KLIEQLKMAQAQLMQSEKLASIGQLAAGVAHEINNPIGFVSANLNTLGNYVATLLEGIQL 225 Query: 324 -------------AGASLRWLDRAVPDLEHARTGLRDIIAEG----QRAGGIISGLRDLT 366 A LR + A DL + +++AE QR I+ L+D + Sbjct: 226 HQCLQGGALPAAMAQEQLRSFE-ARADLAFLSEDVTELLAESNEGLQRVRNIVQSLKDFS 284 Query: 367 RNAAPVCERVNLHAVIRHILTLSRSELERREVSLLLSLTPADAFVLGDQVQLQQVMLNLV 426 R + +LH + L ++ +EL+ + VS++ V +L QV +NL+ Sbjct: 285 RIGESNWQMTDLHRGLDSTLNIANNELKYK-VSIVKQYGEL-PLVKCLASELNQVFMNLL 342 Query: 427 VNAIEAMSGMPEHARVLSITASSCDEQRIEVRVQDSGEGIAPEAMRRVFDAFYTTK--DS 484 VNA +A+S E V TA + D ++ V + D+G GIAPE + R+F+ F+TTK S Sbjct: 343 VNAAQAIS---ERGTVTICTARAGD--KVSVSISDTGHGIAPENLNRIFEPFFTTKPVGS 397 Query: 485 GMGMGLAICRSIIENHRGRLRVAAAQPHGALFSFDLPRVP 524 G G+GL++ I++ H G +RV++A G F+ +LP P Sbjct: 398 GTGLGLSLSYGIVKKHGGDIRVSSAPGCGTTFTIELPIDP 437 >gi|300312655|ref|YP_003776747.1| C4-dicarboxylate transport sensor kinase transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 600 Score = 105 bits (261), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 80/249 (32%), Positives = 130/249 (52%), Gaps = 18/249 (7%) Query: 280 RQNEYAIRAAQIDMERVSRANTVGQLTASIAHEINQPLMSIVANAGASLRWLDR-----A 334 +Q E +R Q ++ + + +GQ+ A + HE+NQPL +I A A ++++L R A Sbjct: 357 QQTESLLRTTQNELVQAGKLAMLGQMAAGVTHELNQPLTAIRAFADNAVKFLARGQSAQA 416 Query: 335 VPDLEHARTGLRDIIAEGQRAGGIISGLRDLTRNAAPVCERVNLHAVIRHILTLSRSELE 394 V +LE+ I + G II+ L+ R + V+L I L SE + Sbjct: 417 VENLEY-------ISSASATMGKIIAQLKGFARKSGEAVACVDLSQAIEASSLLLASECQ 469 Query: 395 RREVSLLLSLTPADAFVLGDQVQLQQVMLNLVVNAIEAMSGMPEHARVLSITASSCDEQR 454 + ++ + + A A V GD V+ +QV++NL+ NA++A+ EH R+ + + Sbjct: 470 KLGATISIDIRAA-ACVTGDVVRTEQVLVNLLRNALDAVE-EAEHKRIAVVLEVAGGYAL 527 Query: 455 IEVRVQDSGEGIAPEAMRRVFDAFYTTKDS--GMGMGLAICRSIIENHRGRLRVAAAQPH 512 VR++DSG GIA E +F+ F+TTK S G+G+GLAI SI++ G+L + Sbjct: 528 --VRIRDSGGGIADEVAPHLFEPFFTTKSSSKGLGLGLAISSSIVQAMNGQLSAHNHEEG 585 Query: 513 GALFSFDLP 521 GA F LP Sbjct: 586 GAEFVVRLP 594 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 0.321 0.134 0.386 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: 1,478,585 Number of extensions: 57345 Number of successful extensions: 345 Number of sequences better than 1.0e-08: 29 Number of HSP's gapped: 331 Number of HSP's successfully gapped: 29 Length of query: 524 Length of database: 1,619,870 Length adjustment: 90 Effective length of query: 434 Effective length of database: 1,193,720 Effective search space: 518074480 Effective search space used: 518074480 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 (21.9 bits) S2: 133 (55.8 bits)