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= 0004.0043.p (167 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313679|ref|YP_003777771.1| transmembrane sensor histidine ... 150 6e-38 gi|300312689|ref|YP_003776781.1| transmembrane sensor kinase tra... 107 6e-25 gi|300312679|ref|YP_003776771.1| periplasmic sensor signal trans... 100 6e-23 gi|300309980|ref|YP_003774072.1| two component transmembrane sen... 100 6e-23 gi|300311751|ref|YP_003775843.1| signal transduction histidine k... 98 3e-22 >gi|300313679|ref|YP_003777771.1| transmembrane sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 444 Score = 150 bits (379), Expect = 6e-38, Method: Compositional matrix adjust. Identities = 90/172 (52%), Positives = 106/172 (61%), Gaps = 10/172 (5%) Query: 1 VHQLLTLARQEPGVQEMAPLELAPLLRSTVQDHAPLAEHKGIDLGMTTQVEGA----VNA 56 VHQLLTLARQEP ++L LL S V D + +AEH GIDLG++ Q + V Sbjct: 268 VHQLLTLARQEPDAMSFTQVDLRALLGSVVGDLSSVAEHGGIDLGLSDQGDDGRPLRVTG 327 Query: 57 NVDALRILFGNLLSNALQYSPADSTVDVAMR-SDGDALVVTVEDRGPGIPEQDLERVFDR 115 N DALRILF NL+ NAL+Y+PA VDV + S V V+D GPGI E +L RVFDR Sbjct: 328 NADALRILFNNLVDNALRYTPAGGVVDVGVDLSTAGYCTVVVQDSGPGIAESELPRVFDR 387 Query: 116 FHRAANVPPSQP-----GSGLGLAIVRQIADLHGARVRLENTGTGLRVEVRF 162 F+RA + GSGLGLAIVRQIADLH V L NTG GL+ V F Sbjct: 388 FYRAQHSQEGSGSRAAFGSGLGLAIVRQIADLHRVPVELRNTGHGLQARVVF 439 >gi|300312689|ref|YP_003776781.1| transmembrane sensor kinase transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 459 Score = 107 bits (266), Expect = 6e-25, Method: Compositional matrix adjust. Identities = 63/148 (42%), Positives = 87/148 (58%), Gaps = 5/148 (3%) Query: 18 APLELAPLLRSTVQDHAPLAEHKGIDLGMTTQVEGA-VNANVDALRILFGNLLSNALQYS 76 AP++L + +++ + LA KGIDLG+ T +E A VN N L + NL+ NAL+Y+ Sbjct: 309 APVDLLAVSAMVLEELSGLALKKGIDLGLETTLESAMVNGNEAQLMGMLMNLIDNALRYT 368 Query: 77 PADSTVDVAMRSDGDALVVTVEDRGPGIPEQDLERVFDRFHRAANVPPSQPGSGLGLAIV 136 P V V + +++TV D GPGIP + ERVF+RF+R N P QPGSGLGLAIV Sbjct: 369 PEGGKVTVGLEKKRSQMIITVSDNGPGIPAEVRERVFERFYR--NAAPDQPGSGLGLAIV 426 Query: 137 RQIADLHGARVRLE--NTGTGLRVEVRF 162 R+I +RL+ G+GL V Sbjct: 427 REIVQASQGSIRLDAPAQGSGLVATVSL 454 >gi|300312679|ref|YP_003776771.1| periplasmic sensor signal transduction histidine kinase [Herbaspirillum seropedicae SmR1] Length = 459 Score = 100 bits (249), Expect = 6e-23, Method: Compositional matrix adjust. Identities = 71/165 (43%), Positives = 90/165 (54%), Gaps = 9/165 (5%) Query: 3 QLLTLARQEPGVQEMAPLE---LAPLLRSTVQDHAPLAEHKGIDLGMTTQVEGAVNANVD 59 QLL LAR EPG+ E LE L L+ +VQ A+ K IDLG + + + Sbjct: 292 QLLALARSEPGLFESRKLEELSLDKLVEESVQHFIEEADKKRIDLGFDLR-PARLRGDRF 350 Query: 60 ALRILFGNLLSNALQYSPADSTVDVAMRSDGDALVVTVEDRGPGIPEQDLERVFDRFHRA 119 L L NL+ NA++YSP TV V + DA V++VED GPGI + E +FDRF+RA Sbjct: 351 LLSDLIDNLIDNAVRYSPPHGTVTVRCLEEQDATVLSVEDSGPGIAPEHRELIFDRFYRA 410 Query: 120 ANVPPSQPGSGLGLAIVRQIADLHGA--RVRLENTGTGLRVEVRF 162 + GSGLGLAIVR+IA HG V + G G VRF Sbjct: 411 ND---KVAGSGLGLAIVREIAHDHGGVISVDCKEQGQGTIFTVRF 452 >gi|300309980|ref|YP_003774072.1| two component transmembrane sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 390 Score = 100 bits (249), Expect = 6e-23, Method: Compositional matrix adjust. Identities = 68/153 (44%), Positives = 85/153 (55%), Gaps = 8/153 (5%) Query: 1 VHQLLTLARQEPGVQE---MAPLELAPLLRSTVQDHAPLAEHKGIDLGMTTQVEGA-VNA 56 V+QLL+LAR E + M P+EL L RS VQD P++ + IDLG + Sbjct: 201 VNQLLSLARAENQQSQSGGMIPVELNELARSVVQDWVPMSFTQRIDLGFEQPDHPILITG 260 Query: 57 NVDALRILFGNLLSNALQYSPADST--VDVAMRSD--GDALVVTVEDRGPGIPEQDLERV 112 N LR L NLL NAL Y+P D V V R+D G ++ VED GPGIP + V Sbjct: 261 NPVMLRELLSNLLDNALHYTPHDGNGRVTVRARTDEGGGLAILEVEDNGPGIPVAERANV 320 Query: 113 FDRFHRAANVPPSQPGSGLGLAIVRQIADLHGA 145 F+RF+R P + G GLGLAIVR+IA H A Sbjct: 321 FERFYRILGTPSTGSGLGLGLAIVREIAQQHEA 353 >gi|300311751|ref|YP_003775843.1| signal transduction histidine kinase [Herbaspirillum seropedicae SmR1] Length = 446 Score = 98.2 bits (243), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 65/165 (39%), Positives = 88/165 (53%), Gaps = 8/165 (4%) Query: 1 VHQLLTLAR-QEPGVQEMAPLELAPLLRSTVQDHAPLAEHKGIDLGMTTQVEGAVNANVD 59 V QLL LAR Q P + P L +LR +++ PLA+ K IDLG+ + + V Sbjct: 280 VTQLLALARAQTPAGAALQPCSLHQVLREVIEELLPLAQCKQIDLGLDGERDACVLTQPQ 339 Query: 60 ALRILFGNLLSNALQYSPADSTVDVAMRSDGDALVVTVEDRGPGIPEQDLERVFDRFHRA 119 L L NL+ NA+ Y+PA V + M + + + D GPGI + ERVF F+R Sbjct: 340 ELAQLLRNLIDNAIAYTPAGGAVSLRMERHAQWVALEICDTGPGIAASERERVFQPFYR- 398 Query: 120 ANVPPSQPGSGLGLAIVRQIADLHGARVRLENTG----TGLRVEV 160 + PS GSGLGLAIV+ IA G +RLE +GLRV + Sbjct: 399 --IDPSGQGSGLGLAIVQSIARRLGVTLRLEAADPAQQSGLRVRL 441 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 0.318 0.135 0.380 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: 539,647 Number of extensions: 22927 Number of successful extensions: 191 Number of sequences better than 1.0e-08: 32 Number of HSP's gapped: 164 Number of HSP's successfully gapped: 32 Length of query: 167 Length of database: 1,619,870 Length adjustment: 79 Effective length of query: 88 Effective length of database: 1,245,805 Effective search space: 109630840 Effective search space used: 109630840 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 127 (53.5 bits)