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= 0001.3324.p (602 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... 999 0.0 gi|300310177|ref|YP_003774269.1| C4-dicarboxylate transport sens... 121 2e-28 gi|300313806|ref|YP_003777898.1| PAS/PAC HisKA ATPase_c domains ... 118 1e-27 gi|300313027|ref|YP_003777119.1| two component transmembrane sen... 103 3e-23 gi|300311514|ref|YP_003775606.1| two component sensor histidine ... 95 1e-20 >gi|300312655|ref|YP_003776747.1| C4-dicarboxylate transport sensor kinase transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 600 Score = 999 bits (2583), Expect = 0.0, Method: Compositional matrix adjust. Identities = 507/602 (84%), Positives = 545/602 (90%), Gaps = 2/602 (0%) Query: 1 MRARRNLLILTVLLATTLLVCGLTYRVALGRAEVDQQAQGAAQLQIAALDLESILQKYEA 60 MRARRNLLILT+ L TLLVCG+TYR+AL +AEVDQ+ QGAAQLQIAALDLESILQKYEA Sbjct: 1 MRARRNLLILTLFLVATLLVCGITYRLALRKAEVDQKTQGAAQLQIAALDLESILQKYEA 60 Query: 61 LPFALGFQSDVRQVLQHPEDALAVDRLNRAFKTIQQQSRAVNIFMLNRHGLTLASSNWDD 120 LPFALGFQ+DVRQVLQHP+D LAVDRLNRAFKTIQQQS+AV+IFML+R GLTLASSNWDD Sbjct: 61 LPFALGFQADVRQVLQHPDDVLAVDRLNRAFKTIQQQSQAVSIFMLDRRGLTLASSNWDD 120 Query: 121 EFSFVGRDFGFRPYFREAVQGRAGRFYGIGNISSEPGYFIAQPIYRRQDQAEGDLPIGVM 180 EFSFVGRDFGFRPYF EAVQGRAGRFYGIGNISSEPGYFIAQPIYRRQDQAEGDLPIGVM Sbjct: 121 EFSFVGRDFGFRPYFSEAVQGRAGRFYGIGNISSEPGYFIAQPIYRRQDQAEGDLPIGVM 180 Query: 181 VVKVDLAEFEHTWRSSSDPITLTDAGGVVFLSNRPEWKYHSLQALSAPVQRELAGTHQYA 240 VVKVDLAEFEHTWRSS+DPITLTDAGGVVFLSNRPEWKYHSLQALS P+Q+ LAGTHQYA Sbjct: 181 VVKVDLAEFEHTWRSSADPITLTDAGGVVFLSNRPEWKYHSLQALSPPMQQALAGTHQYA 240 Query: 241 DLPITPVSALPAALQRGFGTHVSRPVGRLGWQLMLFPSQAQMQRTALLWALAAALFMLAL 300 DLPITPVSALP ALQ GFG+HVSRPVGRLGWQLMLFPSQA+MQRTA+LW +A AL MLAL Sbjct: 241 DLPITPVSALPPALQSGFGSHVSRPVGRLGWQLMLFPSQARMQRTAMLWTMACALLMLAL 300 Query: 301 AISLLAWYQHRRRLQERLASRDALRRAAQELDQKIAQRTEELTAANQAIAAKYAKLQQTE 360 AISLLAWYQHRRRL+ER+ASRDALRRAA EL+Q+IA+RT +LTAANQA+ A+Y KLQQTE Sbjct: 301 AISLLAWYQHRRRLEERMASRDALRRAAAELEQRIAERTGQLTAANQALEARYEKLQQTE 360 Query: 361 SLLRTTQNELVQAGKLAMLGQMAAGVTHELNQPLAAIRAFADNSLKFLARGQTVQVAENL 420 SLLRTTQNELVQAGKLAMLGQMAAGVTHELNQPL AIRAFADN++KFLARGQ+ Q ENL Sbjct: 361 SLLRTTQNELVQAGKLAMLGQMAAGVTHELNQPLTAIRAFADNAVKFLARGQSAQAVENL 420 Query: 421 EHISHASARMGKIIGQLKGFARKSGEAVAAVDLRQSIEASVLLLSSDFQKQDVQVRIEGE 480 E+IS ASA MGKII QLKGFARKSGEAVA VDL Q+IEAS LLL+S+ QK + I+ Sbjct: 421 EYISSASATMGKIIAQLKGFARKSGEAVACVDLSQAIEASSLLLASECQKLGATISIDIR 480 Query: 481 PAVLVMGDAVRTEQVLINLLRNALDAVEEAPRKCICVLLQADPLRQQALVSIRDSGPGIA 540 A V GD VRTEQVL+NLLRNALDAVEEA K I V+L+ ALV IRDSG GIA Sbjct: 481 AAACVTGDVVRTEQVLVNLLRNALDAVEEAEHKRIAVVLEVAG--GYALVRIRDSGGGIA 538 Query: 541 DEVAPHLFEPFFTTKSSSKGLGLGLAISSSIVQAMNGQLSAHNHEQGGAEFVVRLPLLKT 600 DEVAPHLFEPFFTTKSSSKGLGLGLAISSSIVQAMNGQLSAHNHE+GGAEFVVRLPLLK Sbjct: 539 DEVAPHLFEPFFTTKSSSKGLGLGLAISSSIVQAMNGQLSAHNHEEGGAEFVVRLPLLKM 598 Query: 601 EN 602 E Sbjct: 599 ET 600 >gi|300310177|ref|YP_003774269.1| C4-dicarboxylate transport sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 674 Score = 121 bits (304), Expect = 2e-28, Method: Compositional matrix adjust. Identities = 83/249 (33%), Positives = 134/249 (53%), Gaps = 12/249 (4%) Query: 357 QQTESLLRTTQNELVQAGKLAMLGQMAAGVTHELNQPLAAIRAFADNSLKFLARGQTVQV 416 ++ E L RT + +L + +LA +G++A+ + HELNQPLAAI ++ +L + +GQ Sbjct: 423 KRAEDLNRTQEEKLQASARLASMGEIASTLAHELNQPLAAISSYTTGALNLMQQGQADPK 482 Query: 417 A--ENLEHISHASARMGKIIGQLKGFARKSGEAVAAVDLRQSIEASVLLLSSDFQKQDVQ 474 A LE I + R G +I + F +K A V +RQ I+ L+ Q+ V Sbjct: 483 ALQPALEKIHAQAQRAGHVIRSVHQFVKKREPARQRVQMRQLIDNVAPLIELQAQQFFVV 542 Query: 475 VRIEGEPAVL--VMGDAVRTEQVLINLLRNALDAVEEAPRKCICVLLQADPLRQQ----- 527 ++++ P L V+GD + EQV++NL RN + A+ P + + A+ R + Sbjct: 543 LQLQ-VPRSLPPVLGDQILLEQVILNLTRNGIQAMAAVPSARRILRVAAEVTRNEDGAES 601 Query: 528 ALVSIRDSGPGIADEVAPHLFEPFFTTKSSSKGLGLGLAISSSIVQAMNGQLSAHNHEQG 587 VS+ D G GI D+VA LF PFF+TK ++G+G+GL I + ++ G L+ ++ G Sbjct: 602 VTVSVTDQGHGIPDDVAARLFSPFFSTK--AEGMGMGLNICRTTIEFHGGTLTYTDNPAG 659 Query: 588 GAEFVVRLP 596 G F LP Sbjct: 660 GTIFRFSLP 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 = 118 bits (296), Expect = 1e-27, Method: Compositional matrix adjust. Identities = 81/249 (32%), Positives = 130/249 (52%), Gaps = 16/249 (6%) Query: 357 QQTESLLRTTQNELVQAGKLAMLGQMAAGVTHELNQPLAAIRAFADNSLKFLARGQTVQV 416 +Q E +R Q ++ + + +GQ+ A + HE+NQPL +I A A SL++L R Sbjct: 280 RQNEYAIRAAQIDMERVSRANTVGQLTASIAHEINQPLMSIVANAGASLRWLDRP----- 334 Query: 417 AENLEH-------ISHASARMGKIIGQLKGFARKSGEAVAAVDLRQSIEASVLLLSSDFQ 469 +LEH I R G II L+ R + V+L I + L S+ + Sbjct: 335 VPDLEHARTGLRDIIAEGQRAGGIISGLRDLTRNAAPVCERVNLHAVIRHILTLSRSELE 394 Query: 470 KQDVQVRIEGEPA-VLVMGDAVRTEQVLINLLRNALDAVEEAPRKCICVLLQADPLRQQA 528 +++V + + PA V+GD V+ +QV++NL+ NA++A+ P + + A +Q Sbjct: 395 RREVSLLLSLTPADAFVLGDQVQLQQVMLNLVVNAIEAMSSMPEHARVLSITASSCDEQR 454 Query: 529 L-VSIRDSGPGIADEVAPHLFEPFFTTKSSSKGLGLGLAISSSIVQAMNGQLSAHNHEQG 587 + V ++DSG GIA E +F+ F+TTK S G+G+GLAI SI++ G+L + Sbjct: 455 IEVKVQDSGEGIAPEAMRRVFDAFYTTKDS--GMGMGLAICRSIIENHRGRLRVAAAQPH 512 Query: 588 GAEFVVRLP 596 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 = 103 bits (258), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 83/275 (30%), Positives = 126/275 (45%), Gaps = 50/275 (18%) Query: 363 LRTTQNELVQAGKLAMLGQMAAGVTHELNQPLAAI------------------------- 397 L+ Q +L+Q+ KLA +GQ+AAGV HE+N P+ + Sbjct: 171 LKMAQAQLMQSEKLASIGQLAAGVAHEINNPIGFVSANLNTLGNYVATLLEGIQLHQCLQ 230 Query: 398 -------------RAF-ADNSLKFLARGQTVQVAENLEHISHASARMGKIIGQLKGFARK 443 R+F A L FL+ T +AE+ E + R+ I+ LK F+R Sbjct: 231 GGALPAAMAQEQLRSFEARADLAFLSEDVTELLAESNEGLQ----RVRNIVQSLKDFSRI 286 Query: 444 SGEAVAAVDLRQSIEASVLLLSSDFQKQDVQVRIEGE-PAVLVMGDAVRTEQVLINLLRN 502 DL + +++++ + +++ + + V+ GE P V + A QV +NLL N Sbjct: 287 GESNWQMTDLHRGLDSTLNIANNELKYKVSIVKQYGELPLVKCL--ASELNQVFMNLLVN 344 Query: 503 ALDAVEEAPRKCICVLLQADPLRQQALVSIRDSGPGIADEVAPHLFEPFFTTKSSSKGLG 562 A A+ E IC D + VSI D+G GIA E +FEPFFTTK G G Sbjct: 345 AAQAISERGTVTICTARAGDKVS----VSISDTGHGIAPENLNRIFEPFFTTKPVGSGTG 400 Query: 563 LGLAISSSIVQAMNGQLSAHNHEQGGAEFVVRLPL 597 LGL++S IV+ G + + G F + LP+ Sbjct: 401 LGLSLSYGIVKKHGGDIRVSSAPGCGTTFTIELPI 435 >gi|300311514|ref|YP_003775606.1| two component sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 473 Score = 95.1 bits (235), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 100/358 (27%), Positives = 160/358 (44%), Gaps = 68/358 (18%) Query: 266 VGRLGWQLMLFPSQAQMQRTALLWALAAALFMLALAISLLAWYQHRRRLQERLAS-RDAL 324 +G G + M FP+ + ALL +L AL LLAWY + ++A Sbjct: 153 IGERGPKSMFFPTMPIV--VALLASLVFAL--------LLAWY-----FSHPIGHLKNAF 197 Query: 325 RRAAQ-----ELDQKIAQRTEELTAANQAIAAKYAKLQQTESLLRTTQNELVQAGKLAML 379 +AA EL+ ++ R +EL + AKL+ L +Q L+ Sbjct: 198 NQAANGNLDLELEPVMSARNDELADLGRDFDVMTAKLRT----LMESQRRLLH------- 246 Query: 380 GQMAAGVTHELNQPLAAIRAFADNSLKFLARGQTVQVAE-NLEHISHASARMGKIIGQLK 438 V+HEL P+A ++ LAR Q + LE I S RM K++G+L Sbjct: 247 -----DVSHELRSPIARLQVAIG-----LARVQDKDKLDLTLERIERESVRMDKLVGELL 296 Query: 439 GFARKSGEAVAAVDLRQSIEASV--LLLSSDFQKQ----------DVQVRIEGEPAVLVM 486 +R +++ +IEA + ++ + F+ + D +V+++G P +L Sbjct: 297 TLSRLEANVPGSMEEPIAIEAMLGDMINDASFEAEAIGKHVDDQLDCRVQVKGNPELLY- 355 Query: 487 GDAVRTEQVLINLLRNALDAVEEAPRKCICVLLQADPLRQQALVSIRDSGPGIADEVAPH 546 + + N+LRNA+ AP + + Q D + + +SI D GPG+ +E Sbjct: 356 -------RAIENVLRNAIKHT--APGTTVQIHTQLDEINKLLHLSILDRGPGVPEEEMNS 406 Query: 547 LFEPFFT---TKSSSKGLGLGLAISSSIVQAMNGQLSAHNHEQGGAEFVVRLPLLKTE 601 +FE FF TKS+S G GLGL+I+ IV+A G + A N GG + LP + E Sbjct: 407 IFELFFRSSRTKSNSSGHGLGLSIARRIVEAHQGFIQAANRSNGGLRVDITLPFMADE 464 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 0.378 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: 1,553,776 Number of extensions: 61612 Number of successful extensions: 382 Number of sequences better than 1.0e-08: 40 Number of HSP's gapped: 337 Number of HSP's successfully gapped: 40 Length of query: 602 Length of database: 1,619,870 Length adjustment: 91 Effective length of query: 511 Effective length of database: 1,188,985 Effective search space: 607571335 Effective search space used: 607571335 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)