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= 0001.4412.p (519 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 ... 743 0.0 gi|300310177|ref|YP_003774269.1| C4-dicarboxylate transport sens... 159 4e-40 gi|300310677|ref|YP_003774769.1| two component transmembrane sen... 127 2e-30 gi|300313027|ref|YP_003777119.1| two component transmembrane sen... 104 2e-23 gi|300311805|ref|YP_003775897.1| two component hybrid sensor his... 102 8e-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 = 743 bits (1917), Expect = 0.0, Method: Compositional matrix adjust. Identities = 385/519 (74%), Positives = 429/519 (82%), Gaps = 1/519 (0%) Query: 1 LPSAPPVPDDNDALLHTLRALCALLDPTQLKPAITRAMCRLAGARRCLLVQQAAGLPLIE 60 LP+ P PDD+ LL LR L ALLDP +LKPAI RA C + GAR CLLV+ LIE Sbjct: 7 LPAGPADPDDSTRLLQALRELSALLDPLRLKPAIARAACAVTGARHCLLVRTTPEGLLIE 66 Query: 61 AEARQDGLHVCHPQAHRIATSRELQAAQLVLPLHHDGQTRGELYLHYDAQPTPALARCAH 120 AEA + + +R ELQ L LPL H Q G LYL ++A A Sbjct: 67 AEALCQDQSILDARRNRAVAEDELQGL-LALPLMHGQQALGTLYLQWEAALPERTRALAA 125 Query: 121 HIADHAAVALANADRHARALREKEQLLCAERELRTSQELLKQGERFNHAGSMRYLVREDL 180 AD+AAVALANA HA L+E EQL CAE+ELRTSQELLKQGERFNH GSMRYLVREDL Sbjct: 126 QFADYAAVALANALAHAHLLQENEQLTCAEKELRTSQELLKQGERFNHTGSMRYLVREDL 185 Query: 181 MFCSDELCRIYGLAAGRNCITYEEFASIMHPDDRQEVLDTVNAAVAMGGTIRVEHRICRQ 240 M+CSDELCRIYGLA GRNCITYEEFA+IMHPDDRQEV++TVNAAVAMGGTIRVEHRICRQ Sbjct: 186 MYCSDELCRIYGLAPGRNCITYEEFAAIMHPDDRQEVVETVNAAVAMGGTIRVEHRICRQ 245 Query: 241 DTGEIRYLSGIGKPVWVDGTFTEYMGTATDITVRRQAEYAIRAAQVDVERVARANTVGQL 300 DTGE+RYLSGIGKP+W DGTFTEY+GTATDITVRRQ EYAIRAAQ+D+ERV+RANTVGQL Sbjct: 246 DTGEVRYLSGIGKPIWRDGTFTEYVGTATDITVRRQNEYAIRAAQIDMERVSRANTVGQL 305 Query: 301 TASIAHEINQPLMSIVSNAGASLRWLNRPVPDLEHARAGLRDIISEGQRAGGIISGLQDL 360 TASIAHEINQPLMSIV+NAGASLRWL+RPVPDLEHAR GLRDII+EGQRAGGIISGL+DL Sbjct: 306 TASIAHEINQPLMSIVANAGASLRWLDRPVPDLEHARTGLRDIIAEGQRAGGIISGLRDL 365 Query: 361 TRNRAPEFERVNLHALIRHILTLSRSQLEQREVSLTLSLMPADVFVLGDPVQLQQVMLNL 420 TRN AP ERVNLHA+IRHILTLSRS+LE+REVSL LSL PAD FVLGD VQLQQVMLNL Sbjct: 366 TRNAAPVCERVNLHAVIRHILTLSRSELERREVSLLLSLTPADAFVLGDQVQLQQVMLNL 425 Query: 421 VINAIDAMTSVVPNTRLLGISASCCNEQRVEVRVQDSGVGIAAEAMSRVFDAFYTTKENG 480 V+NAI+AM+S+ + R+L I+AS C+EQR+EV+VQDSG GIA EAM RVFDAFYTTK++G Sbjct: 426 VVNAIEAMSSMPEHARVLSITASSCDEQRIEVKVQDSGEGIAPEAMRRVFDAFYTTKDSG 485 Query: 481 MGMGLAICRSIIEAHRGRLRVMAAEPQGTLFFFDLPRIP 519 MGMGLAICRSIIE HRGRLRV AA+P G LF FDLPR+P Sbjct: 486 MGMGLAICRSIIENHRGRLRVAAAQPHGALFSFDLPRVP 524 >gi|300310177|ref|YP_003774269.1| C4-dicarboxylate transport sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 674 Score = 159 bits (403), Expect = 4e-40, Method: Compositional matrix adjust. Identities = 115/350 (32%), Positives = 173/350 (49%), Gaps = 23/350 (6%) Query: 180 LMFCSDELCRIYGLAAGRNCITYEEFASIMHP---------DDRQEVLDTVNAAVAMGGT 230 + + + C++ G AA EE + P D+ QE V A A T Sbjct: 329 ITYVNPAFCKMVGFAA-------EELVGKIPPMPYWAPEAMDEYQERFSNVLAGRA---T 378 Query: 231 IRVEHRICRQDTGEIRYLSGIGKPVWVDGTFTEYMGTATDITVRRQAEYAIRAAQVDVER 290 + E R+D L V DG T +MG+ DI+ R++AE R + ++ Sbjct: 379 PQFETIFQRRDGERFPVLIFESPLVDQDGKQTGWMGSILDISERKRAEDLNRTQEEKLQA 438 Query: 291 VARANTVGQLTASIAHEINQPLMSIVSNAGASLRWLNRPVPDLEHARAGLRDIISEGQRA 350 AR ++G++ +++AHE+NQPL +I S +L + + D + + L I ++ QRA Sbjct: 439 SARLASMGEIASTLAHELNQPLAAISSYTTGALNLMQQGQADPKALQPALEKIHAQAQRA 498 Query: 351 GGIISGLQDLTRNRAPEFERVNLHALIRHILTLSRSQLEQREVSLTLSLMPADVFVLGDP 410 G +I + + R P +RV + LI ++ L Q +Q V L L + + VLGD Sbjct: 499 GHVIRSVHQFVKKREPARQRVQMRQLIDNVAPLIELQAQQFFVVLQLQVPRSLPPVLGDQ 558 Query: 411 VQLQQVMLNLVINAIDAMTSVVPNTRLLGISASCC-NE---QRVEVRVQDSGVGIAAEAM 466 + L+QV+LNL N I AM +V R+L ++A NE + V V V D G GI + Sbjct: 559 ILLEQVILNLTRNGIQAMAAVPSARRILRVAAEVTRNEDGAESVTVSVTDQGHGIPDDVA 618 Query: 467 SRVFDAFYTTKENGMGMGLAICRSIIEAHRGRLRVMAAEPQGTLFFFDLP 516 +R+F F++TK GMGMGL ICR+ IE H G L GT+F F LP Sbjct: 619 ARLFSPFFSTKAEGMGMGLNICRTTIEFHGGTLTYTDNPAGGTIFRFSLP 668 >gi|300310677|ref|YP_003774769.1| two component transmembrane sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 508 Score = 127 bits (320), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 95/340 (27%), Positives = 174/340 (51%), Gaps = 7/340 (2%) Query: 182 FCSDELCRIYGLAAGRNCITYEEFASIMHPDDRQEVLDTVNAAVAMGGTIRVEHRICRQD 241 + SD ++ G+ G+N + F PD ++E+ + + A+ + + +RI R+D Sbjct: 169 YLSDAGRKLLGVRPGQN--PPKNFVEQCLPDSQEELQELLTLALPDAISFPLRYRIARKD 226 Query: 242 TGEIRYLSGIGKPVWVDGTFTEYMGTATDITVRRQAEYAIRAAQVDVERVARANTVGQLT 301 G +R+ + + + ++ ++ DIT + +AE A R Q +E +AR N +G++ Sbjct: 227 -GLVRWHHAVCRYIEIENDLKGHLLHFHDITDQVEAEEARRRDQAALEYLARHNAMGEMA 285 Query: 302 ASIAHEINQPLMSIVSNAGASLRWLNRPVPDLEHARAGLRDIISEGQR---AGGIISGLQ 358 +IAHE++QPL +I + S+ LN E A + + S G++ A II ++ Sbjct: 286 TAIAHELSQPLAAIRNFLEGSVLRLNHSEALREQAGQIIWGLESAGRQVDHAAAIIKSVR 345 Query: 359 DLTRNRAPEFERVNLHALIRHILTLSRSQLEQREVSLTLSLMPADVFVLGDPVQLQQVML 418 + ++L+ ++ + + + V L + + V + V + QV+L Sbjct: 346 EYVVKLEQSEGLIDLNEVLAEVRWFIEMRAAEGRVQLEVQASEEALVVSCEKVLIGQVIL 405 Query: 419 NLVINAIDAMTSVVPNTRLLGISASCCNEQRVEVRVQDSGVGIAAEAMSRVFDAFYTTKE 478 NL NAI+ M+ N R + IS + ++Q + + V D G GI A R+FD F+++K Sbjct: 406 NLAFNAIEEMSHFPENQRRVCISLARKDQQAL-LTVADEGRGIDAGHRERLFDGFFSSKV 464 Query: 479 NGMGMGLAICRSIIEAHRGRLRVMAAEPQGTLFFFDLPRI 518 +G G+GLA+C++II HRG + A+ +GT F F LP + Sbjct: 465 SGNGIGLALCKNIIARHRGDIWAQPAQVRGTRFCFTLPLV 504 >gi|300313027|ref|YP_003777119.1| two component transmembrane sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 454 Score = 104 bits (259), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 103/403 (25%), Positives = 177/403 (43%), Gaps = 85/403 (21%) Query: 180 LMFCSDELCRIYGLAAGRNCITYEEFASIMHPDDRQEVLDTVNAAVAMGGTIRVEHRICR 239 L F S+ R+ G + + +HPDD ++ +++AM + VE Sbjct: 57 LTFVSENASRVLGYEPCEMLDDPNFWFNHIHPDDTAQIF----SSLAM---LFVED---- 105 Query: 240 QDTGEIRYLSGIGKPVWV----------DGTFTEYMGTATDITVRRQAEYAI-------- 281 Q E R+ + G +W+ DGT E +G TDIT R++ E + Sbjct: 106 QKIYEYRFRTSNGSYLWMHDTLRLIRDPDGTPQEVIGLMTDITGRKEMEDTLQRQAEEQR 165 Query: 282 ------RAAQVDVERVARANTVGQLTASIAHEINQPLMSIVSNAGASLRWLNRPVPDLE- 334 + AQ + + + ++GQL A +AHEIN P+ + +N ++ + ++ Sbjct: 166 KLIEQLKMAQAQLMQSEKLASIGQLAAGVAHEINNPIGFVSANLNTLGNYVATLLEGIQL 225 Query: 335 ---------------------HARAGL----RDII------SEG-QRAGGIISGLQDLTR 362 ARA L D+ +EG QR I+ L+D +R Sbjct: 226 HQCLQGGALPAAMAQEQLRSFEARADLAFLSEDVTELLAESNEGLQRVRNIVQSLKDFSR 285 Query: 363 NRAPEFERVNLHALIRHILTLSRSQLEQREVSLTLSL--MPADVFVLGDPVQLQQVMLNL 420 ++ +LH + L ++ ++L+ + VS+ +P V +L QV +NL Sbjct: 286 IGESNWQMTDLHRGLDSTLNIANNELKYK-VSIVKQYGELP---LVKCLASELNQVFMNL 341 Query: 421 VINAIDAMTSVVPNTRLLGISASCCNE--QRVEVRVQDSGVGIAAEAMSRVFDAFYTTKE 478 ++NA A++ G C +V V + D+G GIA E ++R+F+ F+TTK Sbjct: 342 LVNAAQAISE-------RGTVTICTARAGDKVSVSISDTGHGIAPENLNRIFEPFFTTKP 394 Query: 479 --NGMGMGLAICRSIIEAHRGRLRVMAAEPQGTLFFFDLPRIP 519 +G G+GL++ I++ H G +RV +A GT F +LP P Sbjct: 395 VGSGTGLGLSLSYGIVKKHGGDIRVSSAPGCGTTFTIELPIDP 437 >gi|300311805|ref|YP_003775897.1| two component hybrid sensor histidine kinase/response regulator protein [Herbaspirillum seropedicae SmR1] Length = 1278 Score = 102 bits (254), Expect = 8e-23, Method: Compositional matrix adjust. Identities = 94/363 (25%), Positives = 162/363 (44%), Gaps = 41/363 (11%) Query: 187 LCRIYGLAAGRNCITYEEFASIMHPDDRQEVLDTVNAAVAMGGTIRVEHRICRQDTGEIR 246 LCR+ G + + A + HPDD + N + G + +E R R D Sbjct: 600 LCRMLGRS--EEEMLGMTLADVTHPDDVPMNMSLFNRCIEDGRSFTLEKRYLRPDGSTFW 657 Query: 247 YLSGIGKPVWVDGTFTEYMGTATDITVRRQAEYAIRA------------------AQVDV 288 S I + V +G + +TDIT RR+AE A+R A+ + Sbjct: 658 VSSDISRIVDGEGRPQAMIAVSTDITERRRAEEALRELNDTLEQRVVEEILERSRAEAAL 717 Query: 289 ERVARANTVGQLTASIAHEINQPLMSIVSNAGASLRWLNRPVPDLEHARAGLRDIISEGQ 348 ++ + VGQLT +AH+ N L I G +L+ L E +R +R I Sbjct: 718 RQMQKMEAVGQLTGGVAHDFNNVLQII----GGNLQLLQSDPRLDERSRQRVRIAIGAVD 773 Query: 349 RAGGIISGLQDLTRNRAPEFERVNLHALIRHILTLSRSQL-EQREVSLTLSLMPADVF-V 406 R + S L R + + +NL +++++ L R + E ++S ++ D++ Sbjct: 774 RGAKLSSQLLAFARRQPLQPRSINLERVVQNMDDLLRRAVGENIDISTRVA---HDLWNT 830 Query: 407 LGDPVQLQQVMLNLVINAIDAM------TSVVPNTRL----LGISASCCNEQRVEVRVQD 456 + DP Q++ +++N INA DAM T + N RL A + VE+++ D Sbjct: 831 MLDPNQVENLIINTAINARDAMPSGGRLTVQIDNVRLEDPVFLSQADLAPGEYVELQISD 890 Query: 457 SGVGIAAEAMSRVFDAFYTTK--ENGMGMGLAICRSIIEAHRGRLRVMAAEPQGTLFFFD 514 +G G++ E R F+ F+TTK G G+GL++ ++ +G + + + + +GT Sbjct: 891 NGAGMSPEVRDRAFEPFFTTKLEGEGTGLGLSMAYGFVKQSKGHISIHSEQGKGTTIRIY 950 Query: 515 LPR 517 PR Sbjct: 951 FPR 953 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 0.323 0.135 0.398 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: 1,495,283 Number of extensions: 60150 Number of successful extensions: 350 Number of sequences better than 1.0e-08: 31 Number of HSP's gapped: 323 Number of HSP's successfully gapped: 31 Length of query: 519 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 430 Effective length of database: 1,198,455 Effective search space: 515335650 Effective search space used: 515335650 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.5 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (22.0 bits) S2: 133 (55.8 bits)