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= 0017.0052.p (600 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312655|ref|YP_003776747.1| C4-dicarboxylate transport sens... 1217 0.0 gi|300310177|ref|YP_003774269.1| C4-dicarboxylate transport sens... 119 7e-28 gi|300313806|ref|YP_003777898.1| PAS/PAC HisKA ATPase_c domains ... 104 3e-23 gi|300313027|ref|YP_003777119.1| two component transmembrane sen... 96 9e-21 gi|300311768|ref|YP_003775860.1| PAS/PAC sensor hybrid histidine... 87 3e-18 >gi|300312655|ref|YP_003776747.1| C4-dicarboxylate transport sensor kinase transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 600 Score = 1217 bits (3148), Expect = 0.0, Method: Compositional matrix adjust. Identities = 597/600 (99%), Positives = 600/600 (100%) Query: 1 MRARRNLLILTLFLVATLLVCGITYRLALRKAEVDQKTQGAAQLQIAALDLESILQKYEA 60 MRARRNLLILTLFLVATLLVCGITYRLALRKAEVDQKTQGAAQLQIAALDLESILQKYEA Sbjct: 1 MRARRNLLILTLFLVATLLVCGITYRLALRKAEVDQKTQGAAQLQIAALDLESILQKYEA 60 Query: 61 LPFALGFQADVRQVLQHPDDVLAVDRLNRAFKTIQQQSQAVSIFMLDRRGLTLASSNWDD 120 LPFALGFQADVRQVLQHPDDVLAVDRLNRAFKTIQQQSQAVSIFMLDRRGLTLASSNWDD Sbjct: 61 LPFALGFQADVRQVLQHPDDVLAVDRLNRAFKTIQQQSQAVSIFMLDRRGLTLASSNWDD 120 Query: 121 EFSFVGRDFGFRPYFSEAVQGRAGRFYGIGNISSEPGYFIAQPIYRRQDQAEGDLPIGVM 180 EFSFVGRDFGFRPYFSEAVQGRAGRFYGIGNISSEPGYFIAQPIYRRQDQAEGDLPIGVM Sbjct: 121 EFSFVGRDFGFRPYFSEAVQGRAGRFYGIGNISSEPGYFIAQPIYRRQDQAEGDLPIGVM 180 Query: 181 VVKVDLAEFEHTWRSSADPITLTDAGGVVFLSNRPEWKYHSLQALSPPMQQALAGTHQYA 240 VVKVDLAEFEHTWRSSADPITLTDAGGVVFLSNRPEWKYHSLQALSPPMQQALAGTHQYA Sbjct: 181 VVKVDLAEFEHTWRSSADPITLTDAGGVVFLSNRPEWKYHSLQALSPPMQQALAGTHQYA 240 Query: 241 DLPITPVSALPPALQSGFGSHVSRPVGRLGWQLMLFPSQARMQRTAMLWTMACALLMVAL 300 DLPITPVSALPPALQSGFGSHVSRPVGRLGWQLMLFPSQARMQRTAMLWTMACALLM+AL Sbjct: 241 DLPITPVSALPPALQSGFGSHVSRPVGRLGWQLMLFPSQARMQRTAMLWTMACALLMLAL 300 Query: 301 AISLLAWYQHRRRLEERMASRDALRRAAAELEQRIAERTGQLTAANQALEARYEKLQQTE 360 AISLLAWYQHRRRLEERMASRDALRRAAAELEQRIAERTGQLTAANQALEARYEKLQQTE Sbjct: 301 AISLLAWYQHRRRLEERMASRDALRRAAAELEQRIAERTGQLTAANQALEARYEKLQQTE 360 Query: 361 SLLRTTQNELVQAGKLAMLGQMAAGVTHELNQPLTAIRAFADNAVKFLARGQSAQAVENL 420 SLLRTTQNELVQAGKLAMLGQMAAGVTHELNQPLTAIRAFADNAVKFLARGQSAQAVENL Sbjct: 361 SLLRTTQNELVQAGKLAMLGQMAAGVTHELNQPLTAIRAFADNAVKFLARGQSAQAVENL 420 Query: 421 EYISSASATMGKIIAQLKGFARKSGEAVACVDLSQAIEASSLLLASECQKLGATISIDIR 480 EYISSASATMGKIIAQLKGFARKSGEAVACVDLSQAIEASSLLLASECQKLGATISIDIR Sbjct: 421 EYISSASATMGKIIAQLKGFARKSGEAVACVDLSQAIEASSLLLASECQKLGATISIDIR 480 Query: 481 AAACVTGDVVRTEQVLINLLRNALDAVEEAEHKRIAVVLEVAGGHALVRIRDSGGGIADE 540 AAACVTGDVVRTEQVL+NLLRNALDAVEEAEHKRIAVVLEVAGG+ALVRIRDSGGGIADE Sbjct: 481 AAACVTGDVVRTEQVLVNLLRNALDAVEEAEHKRIAVVLEVAGGYALVRIRDSGGGIADE 540 Query: 541 VAPHLFEPFFTTKSSSKGLGLGLAISSSIVQAMNGQLSAHNHEEGGAEFVVRLPLLKMET 600 VAPHLFEPFFTTKSSSKGLGLGLAISSSIVQAMNGQLSAHNHEEGGAEFVVRLPLLKMET Sbjct: 541 VAPHLFEPFFTTKSSSKGLGLGLAISSSIVQAMNGQLSAHNHEEGGAEFVVRLPLLKMET 600 >gi|300310177|ref|YP_003774269.1| C4-dicarboxylate transport sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 674 Score = 119 bits (298), Expect = 7e-28, Method: Compositional matrix adjust. Identities = 86/284 (30%), Positives = 149/284 (52%), Gaps = 13/284 (4%) Query: 321 RDALRRAAAELEQRIAERTGQLTAANQALEARYEKLQQTESLLRTTQNELVQAGKLAMLG 380 RD R E + ++ G+ T ++ E+ ++ E L RT + +L + +LA +G Sbjct: 388 RDGERFPVLIFESPLVDQDGKQTGWMGSILDISER-KRAEDLNRTQEEKLQASARLASMG 446 Query: 381 QMAAGVTHELNQPLTAIRAFADNAVKFLARGQS-AQAVEN-LEYISSASATMGKIIAQLK 438 ++A+ + HELNQPL AI ++ A+ + +GQ+ +A++ LE I + + G +I + Sbjct: 447 EIASTLAHELNQPLAAISSYTTGALNLMQQGQADPKALQPALEKIHAQAQRAGHVIRSVH 506 Query: 439 GFARKSGEAVACVDLSQAIEASSLLLASECQKLGATISIDI-RAAACVTGDVVRTEQVLI 497 F +K A V + Q I+ + L+ + Q+ + + + R+ V GD + EQV++ Sbjct: 507 QFVKKREPARQRVQMRQLIDNVAPLIELQAQQFFVVLQLQVPRSLPPVLGDQILLEQVIL 566 Query: 498 NLLRNALDAVEEAEHKR--IAVVLEVA----GGHAL-VRIRDSGGGIADEVAPHLFEPFF 550 NL RN + A+ R + V EV G ++ V + D G GI D+VA LF PFF Sbjct: 567 NLTRNGIQAMAAVPSARRILRVAAEVTRNEDGAESVTVSVTDQGHGIPDDVAARLFSPFF 626 Query: 551 TTKSSSKGLGLGLAISSSIVQAMNGQLSAHNHEEGGAEFVVRLP 594 +TK ++G+G+GL I + ++ G L+ ++ GG F LP Sbjct: 627 STK--AEGMGMGLNICRTTIEFHGGTLTYTDNPAGGTIFRFSLP 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 = 104 bits (259), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 78/249 (31%), Positives = 129/249 (51%), Gaps = 18/249 (7%) Query: 357 QQTESLLRTTQNELVQAGKLAMLGQMAAGVTHELNQPLTAIRAFADNAVKFLARGQSAQA 416 +Q E +R Q ++ + + +GQ+ A + HE+NQPL +I A A ++++L R Sbjct: 280 RQNEYAIRAAQIDMERVSRANTVGQLTASIAHEINQPLMSIVANAGASLRWLDR-----P 334 Query: 417 VENLEY-------ISSASATMGKIIAQLKGFARKSGEAVACVDLSQAIEASSLLLASECQ 469 V +LE+ I + G II+ L+ R + V+L I L SE + Sbjct: 335 VPDLEHARTGLRDIIAEGQRAGGIISGLRDLTRNAAPVCERVNLHAVIRHILTLSRSELE 394 Query: 470 KLGATISIDIRAA-ACVTGDVVRTEQVLINLLRNALDAVEE-AEHKRIAVVLEVAGGHAL 527 + ++ + + A A V GD V+ +QV++NL+ NA++A+ EH R+ + + Sbjct: 395 RREVSLLLSLTPADAFVLGDQVQLQQVMLNLVVNAIEAMSSMPEHARVLSITASSCDEQR 454 Query: 528 --VRIRDSGGGIADEVAPHLFEPFFTTKSSSKGLGLGLAISSSIVQAMNGQLSAHNHEEG 585 V+++DSG GIA E +F+ F+TTK S G+G+GLAI SI++ G+L + Sbjct: 455 IEVKVQDSGEGIAPEAMRRVFDAFYTTKDS--GMGMGLAICRSIIENHRGRLRVAAAQPH 512 Query: 586 GAEFVVRLP 594 GA F LP Sbjct: 513 GALFSFDLP 521 >gi|300313027|ref|YP_003777119.1| two component transmembrane sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 454 Score = 95.9 bits (237), Expect = 9e-21, Method: Compositional matrix adjust. Identities = 81/268 (30%), Positives = 120/268 (44%), Gaps = 38/268 (14%) Query: 363 LRTTQNELVQAGKLAMLGQMAAGVTHELNQPLTAIRAFAD---NAVKFLARG-------- 411 L+ Q +L+Q+ KLA +GQ+AAGV HE+N P+ + A + N V L G Sbjct: 171 LKMAQAQLMQSEKLASIGQLAAGVAHEINNPIGFVSANLNTLGNYVATLLEGIQLHQCLQ 230 Query: 412 -------------QSAQAVENLEYISS------ASATMG-----KIIAQLKGFARKSGEA 447 +S +A +L ++S A + G I+ LK F+R Sbjct: 231 GGALPAAMAQEQLRSFEARADLAFLSEDVTELLAESNEGLQRVRNIVQSLKDFSRIGESN 290 Query: 448 VACVDLSQAIEASSLLLASECQKLGATISIDIRAAACVTGDVVRTEQVLINLLRNALDAV 507 DL + ++ S+L +A+ K +I V QV +NLL NA A+ Sbjct: 291 WQMTDLHRGLD-STLNIANNELKYKVSIVKQYGELPLVKCLASELNQVFMNLLVNAAQAI 349 Query: 508 EEAEHKRIAVVLEVAGGHALVRIRDSGGGIADEVAPHLFEPFFTTKSSSKGLGLGLAISS 567 +E + + AG V I D+G GIA E +FEPFFTTK G GLGL++S Sbjct: 350 --SERGTVTICTARAGDKVSVSISDTGHGIAPENLNRIFEPFFTTKPVGSGTGLGLSLSY 407 Query: 568 SIVQAMNGQLSAHNHEEGGAEFVVRLPL 595 IV+ G + + G F + LP+ Sbjct: 408 GIVKKHGGDIRVSSAPGCGTTFTIELPI 435 >gi|300311768|ref|YP_003775860.1| PAS/PAC sensor hybrid histidine kinase [Herbaspirillum seropedicae SmR1] Length = 552 Score = 87.4 bits (215), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 71/249 (28%), Positives = 110/249 (44%), Gaps = 21/249 (8%) Query: 364 RTTQNELVQAGKLAMLGQMAAGVTHELNQPLTAIRAFAD--NAVKFLARGQSAQAVENLE 421 R + L QA K+ LGQ+ G+ H+ N L I + D N + A+ + + Sbjct: 161 RDAEQALGQARKMEALGQLTGGIAHDFNNLLQVITGYLDMINLALRSDKPDLARVARSAD 220 Query: 422 YISSASATMGKIIAQLKGFARKSGEAVACVDLSQAIEASSLLLASECQKLGATISIDIRA 481 I AS + QL FARK ++L+ E + L++ + LG I++ Sbjct: 221 SIRKASGKAAMLTQQLLAFARKQRLEGRTINLNSLTEGFTDLVS---RTLGGDITVQTEL 277 Query: 482 AACVTG---DVVRTEQVLINLLRNALDAVEEAEHKRI------------AVVLEVAGG-H 525 A + D + E L+N+L NA DA+ RI AV L + G + Sbjct: 278 ARGLWNCRLDPTQMEVALLNVLINARDAMNGRGRVRIRTANEDLADPDRAVQLGLKEGLY 337 Query: 526 ALVRIRDSGGGIADEVAPHLFEPFFTTKSSSKGLGLGLAISSSIVQAMNGQLSAHNHEEG 585 + + D G GIA ++ P + +PFFTTK KG GLGL++ V+ G + + EG Sbjct: 338 VSIAVTDDGPGIAPDILPRVMDPFFTTKDEGKGTGLGLSMVYGFVKQSGGSVRITSGAEG 397 Query: 586 GAEFVVRLP 594 G + P Sbjct: 398 GTTVTIYFP 406 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 0.133 0.377 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: 1,636,036 Number of extensions: 65626 Number of successful extensions: 397 Number of sequences better than 1.0e-08: 38 Number of HSP's gapped: 359 Number of HSP's successfully gapped: 38 Length of query: 600 Length of database: 1,619,870 Length adjustment: 91 Effective length of query: 509 Effective length of database: 1,188,985 Effective search space: 605193365 Effective search space used: 605193365 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)