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= 0001.1148.p (510 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310677|ref|YP_003774769.1| two component transmembrane sen... 918 0.0 gi|300310177|ref|YP_003774269.1| C4-dicarboxylate transport sens... 135 1e-32 gi|300313806|ref|YP_003777898.1| PAS/PAC HisKA ATPase_c domains ... 127 2e-30 gi|300313027|ref|YP_003777119.1| two component transmembrane sen... 82 1e-16 gi|300312655|ref|YP_003776747.1| C4-dicarboxylate transport sens... 79 1e-15 >gi|300310677|ref|YP_003774769.1| two component transmembrane sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 508 Score = 918 bits (2372), Expect = 0.0, Method: Compositional matrix adjust. Identities = 450/509 (88%), Positives = 469/509 (92%), Gaps = 8/509 (1%) Query: 2 PEDDAIRFGLDDFRRMMDALPMCIILHDAQTKSILWANPSACQVLGFTLEELLPLKAPDM 61 PEDD IRFGLDDFRRMMDALPMCIILHDAQTKSILWANPSACQVLGFTLEELLPLKAPDM Sbjct: 8 PEDDPIRFGLDDFRRMMDALPMCIILHDAQTKSILWANPSACQVLGFTLEELLPLKAPDM 67 Query: 62 SRQSHEYRREIGRKWLHDAVLHGSNMVEWCYRAKNGDEIMSEAVATLVPLSERDVIMVQF 121 SRQSHEYRREIGRKWLHDA LHGSNMVEWCYRAKNG+EI+SEA+ATLVPL+ERDVIMVQF Sbjct: 68 SRQSHEYRREIGRKWLHDATLHGSNMVEWCYRAKNGEEILSEAIATLVPLTERDVIMVQF 127 Query: 122 RDIAREEQIRREMKKLESRLKEFMQDSDEGVAVLRADGGIEYLSDAGRKLLGVRPGQNSP 181 R+IAREEQIRREMKKLESRLKEFMQDSDEGVAVLR DGGIEYLSDAGRKLLGVRPGQN P Sbjct: 128 RNIAREEQIRREMKKLESRLKEFMQDSDEGVAVLRPDGGIEYLSDAGRKLLGVRPGQNPP 187 Query: 182 KNFVEQCLPEARDELLELLTLALPDAISFPLRYQILRKDGLVRWHHAVCRYIEIENDLKG 241 KNFVEQCLP++++EL ELLTLALPDAISFPLRY+I RKDGLVRWHHAVCRYIEIENDLKG Sbjct: 188 KNFVEQCLPDSQEELQELLTLALPDAISFPLRYRIARKDGLVRWHHAVCRYIEIENDLKG 247 Query: 242 HLLHFHDITDQVEAEEARRRDQASLEYLARHNAMGEMATAIAHELSQPLAAIRNFLEGSV 301 HLLHFHDITDQVEAEEARRRDQA+LEYLARHNAMGEMATAIAHELSQPLAAIRNFLEGSV Sbjct: 248 HLLHFHDITDQVEAEEARRRDQAALEYLARHNAMGEMATAIAHELSQPLAAIRNFLEGSV 307 Query: 302 LRLQQSEALREQAGQIVWGLESAGRQVDHAAAIIKSVREYVVRLEQSEGLIDLNAVLQDV 361 LRL SEALREQAGQI+WGLESAGRQVDHAAAIIKSVREYVV+LEQSEGLIDLN VL +V Sbjct: 308 LRLNHSEALREQAGQIIWGLESAGRQVDHAAAIIKSVREYVVKLEQSEGLIDLNEVLAEV 367 Query: 362 RWFIEMKAAEGKVHLHFLPCAEPLVVSCEKVLIGQVILNLAFNAIEEMMDFPEGARHVRI 421 RWFIEM+AAEG+V L E LVVSCEKVLIGQVILNLAFNAIEEM FPE R V I Sbjct: 368 RWFIEMRAAEGRVQLEVQASEEALVVSCEKVLIGQVILNLAFNAIEEMSHFPENQRRVCI 427 Query: 422 TTRRAGDHALLSVADEGRGIDAGHRERLFDGFFSSKVSGNGIGLALCKNIIARHRGDIWA 481 + R ALL+VADEGRGIDAGHRERLFDGFFSSKVSGNGIGLALCKNIIARHRGDIWA Sbjct: 428 SLARKDQQALLTVADEGRGIDAGHRERLFDGFFSSKVSGNGIGLALCKNIIARHRGDIWA 487 Query: 482 QPGEVSHETAAQARGTRFCFTLPLAERHN 510 QP AQ RGTRFCFTLPL +RHN Sbjct: 488 QP--------AQVRGTRFCFTLPLVQRHN 508 >gi|300310177|ref|YP_003774269.1| C4-dicarboxylate transport sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 674 Score = 135 bits (339), Expect = 1e-32, Method: Compositional matrix adjust. Identities = 118/397 (29%), Positives = 193/397 (48%), Gaps = 30/397 (7%) Query: 121 FRDIAREEQIRREMKKLESRLKEFMQDS-DEGVAVLRADGGIEYLSDAGRKLLGVRP--- 176 +RDI R + + + E+ + M++S G+ +G I Y++ A K++G Sbjct: 289 WRDINRRTKAEKALLN-EAVFRAAMENSLVTGMRARDLEGRITYVNPAFCKMVGFAAEEL 347 Query: 177 -GQNSPKNFVEQCLPEARDELLELLTLALPDAISFPLRYQILRKDGLVRWHHAVCRYIEI 235 G+ P + PEA DE E + L + R+DG R+ + + Sbjct: 348 VGKIPPMPY---WAPEAMDEYQERFSNVLAGRATPQFETIFQRRDG-ERFPVLIFESPLV 403 Query: 236 ENDLK--GHLLHFHDITDQVEAEEARRRDQASLEYLARHNAMGEMATAIAHELSQPLAAI 293 + D K G + DI+++ AE+ R + L+ AR +MGE+A+ +AHEL+QPLAAI Sbjct: 404 DQDGKQTGWMGSILDISERKRAEDLNRTQEEKLQASARLASMGEIASTLAHELNQPLAAI 463 Query: 294 RNFLEGSVLRLQQSEALREQAGQIVWGLESAGRQVDHAAAIIKSVREYVVRLEQSEGLID 353 ++ G++ +QQ +A + LE Q A +I+SV ++V + E + + Sbjct: 464 SSYTTGALNLMQQGQA---DPKALQPALEKIHAQAQRAGHVIRSVHQFVKKREPARQRVQ 520 Query: 354 LNAVLQDVRWFIEMKAAEGKVHLHF-LPCAEPLVVSCEKVLIGQVILNLAFNAIEEMMDF 412 + ++ +V IE++A + V L +P + P V+ +++L+ QVILNL N I+ M Sbjct: 521 MRQLIDNVAPLIELQAQQFFVVLQLQVPRSLPPVLG-DQILLEQVILNLTRNGIQAMAAV 579 Query: 413 PEGARHVRI---TTRR--AGDHALLSVADEGRGIDAGHRERLFDGFFSSKVSGNGIGLAL 467 P R +R+ TR + +SV D+G GI RLF FFS+K G G+GL + Sbjct: 580 PSARRILRVAAEVTRNEDGAESVTVSVTDQGHGIPDDVAARLFSPFFSTKAEGMGMGLNI 639 Query: 468 CKNIIARHRGDIWAQPGEVSHETAAQARGTRFCFTLP 504 C+ I H G + T A GT F F+LP Sbjct: 640 CRTTIEFHGGTL--------TYTDNPAGGTIFRFSLP 668 >gi|300313806|ref|YP_003777898.1| PAS/PAC HisKA ATPase_c domains containing sensor signal transduction histidine kinase [Herbaspirillum seropedicae SmR1] Length = 524 Score = 127 bits (320), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 105/348 (30%), Positives = 172/348 (49%), Gaps = 19/348 (5%) Query: 163 YLSDAGRKLLGVRPGQN--SPKNFVEQCLPEARDELLELLTLALPDAISFPLRYQILRKD 220 Y SD ++ G+ PG+N + + F P+ R E++E + A+ + + ++I R+D Sbjct: 187 YCSDELCRIYGLAPGRNCITYEEFAAIMHPDDRQEVVETVNAAVAMGGTIRVEHRICRQD 246 Query: 221 -GLVRWHHAVCRYIEIENDLKGHLLHFHDITDQVEAEEARRRDQASLEYLARHNAMGEMA 279 G VR+ + + I + ++ DIT + + E A R Q +E ++R N +G++ Sbjct: 247 TGEVRYLSGIGKPIWRDGTFTEYVGTATDITVRRQNEYAIRAAQIDMERVSRANTVGQLT 306 Query: 280 TAIAHELSQPLAAIRNFLEGSVLRLQQSEALREQAGQIVWGLESAGRQVDHAAAIIKSVR 339 +IAHE++QPL +I S+ L + E A GL + A II +R Sbjct: 307 ASIAHEINQPLMSIVANAGASLRWLDRPVPDLEHART---GLRDIIAEGQRAGGIISGLR 363 Query: 340 EYVVRLEQSEGLIDLNAVLQDVRWFI--EMKAAEGKVHLHFLPCAEPLVVSCEKVLIGQV 397 + ++L+AV++ + E++ E + L P A+ V+ ++V + QV Sbjct: 364 DLTRNAAPVCERVNLHAVIRHILTLSRSELERREVSLLLSLTP-ADAFVLG-DQVQLQQV 421 Query: 398 ILNLAFNAIEEMMDFPEGARHVRITTRRAGDHAL-LSVADEGRGIDAGHRERLFDGFFSS 456 +LNL NAIE M PE AR + IT + + + V D G GI R+FD F+++ Sbjct: 422 MLNLVVNAIEAMSSMPEHARVLSITASSCDEQRIEVKVQDSGEGIAPEAMRRVFDAFYTT 481 Query: 457 KVSGNGIGLALCKNIIARHRGDIWAQPGEVSHETAAQARGTRFCFTLP 504 K SG G+GLA+C++II HRG + AAQ G F F LP Sbjct: 482 KDSGMGMGLAICRSIIENHRGRLRV--------AAAQPHGALFSFDLP 521 >gi|300313027|ref|YP_003777119.1| two component transmembrane sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 454 Score = 82.0 bits (201), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 95/401 (23%), Positives = 167/401 (41%), Gaps = 62/401 (15%) Query: 153 AVLRADGGIEYLSDAGRKLLGVRPGQ--NSPKNFVEQCLPEARDELLE-LLTLALPDAIS 209 +V D + ++S+ ++LG P + + P + P+ ++ L L + D Sbjct: 49 SVPSGDFRLTFVSENASRVLGYEPCEMLDDPNFWFNHIHPDDTAQIFSSLAMLFVEDQKI 108 Query: 210 FPLRYQILRKDGLVRWHHAVCRYIEIENDLKGHLLHF-HDITDQVEAEEARRRD------ 262 + R++ +G W H R I + ++ DIT + E E+ +R Sbjct: 109 YEYRFRT--SNGSYLWMHDTLRLIRDPDGTPQEVIGLMTDITGRKEMEDTLQRQAEEQRK 166 Query: 263 --------QASLEYLARHNAMGEMATAIAHELSQPLAAIR---NFLEGSVLRLQQSEALR 311 QA L + ++G++A +AHE++ P+ + N L V L + L Sbjct: 167 LIEQLKMAQAQLMQSEKLASIGQLAAGVAHEINNPIGFVSANLNTLGNYVATLLEGIQLH 226 Query: 312 E--QAGQIVWGLESAGRQVDHAAAIIKSVREYVVRL--EQSEGLIDLNAVLQDVRWF--- 364 + Q G + + + A A + + E V L E +EGL + ++Q ++ F Sbjct: 227 QCLQGGALPAAMAQEQLRSFEARADLAFLSEDVTELLAESNEGLQRVRNIVQSLKDFSRI 286 Query: 365 -----------------IEMKAAEGKVHLHFLP-CAEPLVVSCEKVLIGQVILNLAFNAI 406 + + E K + + E +V C + QV +NL NA Sbjct: 287 GESNWQMTDLHRGLDSTLNIANNELKYKVSIVKQYGELPLVKCLASELNQVFMNLLVNAA 346 Query: 407 EEMMDFPEGARHVRITTRRAGDHALLSVADEGRGIDAGHRERLFDGFFSSKV--SGNGIG 464 + + + V I T RAGD +S++D G GI + R+F+ FF++K SG G+G Sbjct: 347 QAISE----RGTVTICTARAGDKVSVSISDTGHGIAPENLNRIFEPFFTTKPVGSGTGLG 402 Query: 465 LALCKNIIARHRGDIWAQPGEVSHETAAQARGTRFCFTLPL 505 L+L I+ +H GDI ++A GT F LP+ Sbjct: 403 LSLSYGIVKKHGGDIRV--------SSAPGCGTTFTIELPI 435 >gi|300312655|ref|YP_003776747.1| C4-dicarboxylate transport sensor kinase transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 600 Score = 78.6 bits (192), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 74/260 (28%), Positives = 114/260 (43%), Gaps = 30/260 (11%) Query: 254 EAEEARRRDQASLEYLARHNAMGEMATAIAHELSQPLAAIRNFLEGSVLRLQQSEALREQ 313 + E R Q L + +G+MA + HEL+QPL AIR F + +V L R Q Sbjct: 358 QTESLLRTTQNELVQAGKLAMLGQMAAGVTHELNQPLTAIRAFADNAVKFLA-----RGQ 412 Query: 314 AGQIVWGLESAGRQVDHAAAIIKSVREYVVRLEQSEGLIDLNAVLQDVRWFIEMK----A 369 + Q V LE II ++ + + ++ +DL+ ++ + + Sbjct: 413 SAQAVENLEYISSASATMGKIIAQLKGFARKSGEAVACVDLSQAIEASSLLLASECQKLG 472 Query: 370 AEGKVHLHFLPCAEPLVVSCEKVLIGQVILNLAFNAIEEMMDFPEGARHVRITT--RRAG 427 A + + C VV E+VL+ +L A +A+EE A H RI AG Sbjct: 473 ATISIDIRAAACVTGDVVRTEQVLVN--LLRNALDAVEE-------AEHKRIAVVLEVAG 523 Query: 428 DHALLSVADEGRGIDAGHRERLFDGFFSSKVS--GNGIGLALCKNIIARHRGDIWAQPGE 485 +AL+ + D G GI LF+ FF++K S G G+GLA+ +I+ G + A Sbjct: 524 GYALVRIRDSGGGIADEVAPHLFEPFFTTKSSSKGLGLGLAISSSIVQAMNGQLSAH--- 580 Query: 486 VSHETAAQARGTRFCFTLPL 505 +HE G F LPL Sbjct: 581 -NHEEG----GAEFVVRLPL 595 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 0.322 0.137 0.407 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: 1,585,583 Number of extensions: 66195 Number of successful extensions: 317 Number of sequences better than 1.0e-08: 14 Number of HSP's gapped: 318 Number of HSP's successfully gapped: 14 Length of query: 510 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 421 Effective length of database: 1,198,455 Effective search space: 504549555 Effective search space used: 504549555 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)