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= 0001.2156.p (453 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311774|ref|YP_003775866.1| two component sensor histidine ... 841 0.0 gi|300311910|ref|YP_003776002.1| transmembrane sensor histidine ... 118 1e-27 gi|300313027|ref|YP_003777119.1| two component transmembrane sen... 63 4e-11 gi|300311751|ref|YP_003775843.1| signal transduction histidine k... 59 1e-09 gi|300312655|ref|YP_003776747.1| C4-dicarboxylate transport sens... 58 2e-09 >gi|300311774|ref|YP_003775866.1| two component sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 460 Score = 841 bits (2173), Expect = 0.0, Method: Compositional matrix adjust. Identities = 415/443 (93%), Positives = 430/443 (97%) Query: 1 VSTTDTFAKRKTLRERWQRLRQGEQNPAGHQNMLLLIQLRWLAVLGQVSTIAFVVLVFEL 60 ++ D AKR+TLRERWQRLRQGEQNPAGHQNMLLLIQLRWLAVLGQVSTIAFVVLVF+L Sbjct: 1 MTAADAVAKRRTLRERWQRLRQGEQNPAGHQNMLLLIQLRWLAVLGQVSTIAFVVLVFDL 60 Query: 61 PLPLPHMLEVLSCLIAFNIASHLRWHERRIATNAELFLALLVDVAVLTFQLYLSGGITNP 120 LPLPHMLEVLSCL+AFNIASHLRWHERRIATNAELFLALLVDVAVLTFQLYLSGGITNP Sbjct: 61 HLPLPHMLEVLSCLVAFNIASHLRWHERRIATNAELFLALLVDVAVLTFQLYLSGGITNP 120 Query: 121 FAFLYLMQIILSAVLLKPWSSWAIVGVTMLCLAGLALFSEPLPLPPDHNAGLLSLYVEGT 180 FAFLYLMQIILSAVLLKPWSSWAIVGVTMLCLAGLALFSEPL LPPDHNAGLLSLYVEGT Sbjct: 121 FAFLYLMQIILSAVLLKPWSSWAIVGVTMLCLAGLALFSEPLALPPDHNAGLLSLYVEGT 180 Query: 181 LICFLLNAGLMVFFITRISSNLRAGDALLADLRQRAAEEDHIVRMGLLASGAAHELGTPL 240 LICFLLNAGLMVFFITRISSNLRAGDALLADLRQRAAEEDHIVRMGLLASGAAHELGTPL Sbjct: 181 LICFLLNAGLMVFFITRISSNLRAGDALLADLRQRAAEEDHIVRMGLLASGAAHELGTPL 240 Query: 241 ATVSVILGDWKRMPEISQRPDMLDDISEMEAQLQRCKSIVSGVLLSAGQARGESSIKTTL 300 ATVSVILGDWKRMPEISQR DMLDDI+EMEAQLQRCKSIVSGVLLSAGQARGESSIKTTL Sbjct: 241 ATVSVILGDWKRMPEISQRQDMLDDIAEMEAQLQRCKSIVSGVLLSAGQARGESSIKTTL 300 Query: 301 NTFLDSVAEDWRKTRPVEVFEYRNLIEQDVPVAFDSAIKQMLGNVLDNAFEVSPQWLALQ 360 NTFLDSVAEDWRK+RPV VF+Y+NLI QD+PVAFDSAIKQMLGNVLDNAFEVSP WL+L+ Sbjct: 301 NTFLDSVAEDWRKSRPVAVFDYQNLIGQDLPVAFDSAIKQMLGNVLDNAFEVSPHWLSLE 360 Query: 361 VRREGDLLLMEVSDQGPGFPDWMINQIGKPYQSTKGKPGRGLGLFFVVNVARKLGGRVWA 420 VRREG LLLMEVSDQGPGFP+WMINQIGKPYQSTKGKPGRGLGLFFVVNVARKLGGRVWA Sbjct: 361 VRREGGLLLMEVSDQGPGFPEWMINQIGKPYQSTKGKPGRGLGLFFVVNVARKLGGRVWA 420 Query: 421 SNIDGGGARVTLELPLSAISLES 443 SN+ G GARVTLELPLSAISLE+ Sbjct: 421 SNLPGAGARVTLELPLSAISLEA 443 >gi|300311910|ref|YP_003776002.1| transmembrane sensor histidine kinase transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 443 Score = 118 bits (295), Expect = 1e-27, Method: Compositional matrix adjust. Identities = 136/447 (30%), Positives = 220/447 (49%), Gaps = 39/447 (8%) Query: 27 PAGHQNMLLLIQLRWLAVLGQVSTIAFVVLVFELPLPLPHMLEVLSCLIAFNIASHLRWH 86 P H + L LRW V G++ +A + LP+P +L ++ N A+ LR Sbjct: 15 PTQHVLLSRLFWLRWAMVAGELLVLAGAHGWLHIALPVPQLLALIGLQALLNGATWLRLR 74 Query: 87 ERRIATNAELFLALLVDVAVLTFQLYLSGGITNPFAFLYLMQIILSAVLLKPWSSWAIVG 146 R A ELFL LL+D+AVLT LY SGG TNPF YL + A L + + Sbjct: 75 WTRPAEQRELFLQLLLDLAVLTALLYFSGGSTNPFVSFYLPALAAGAASLAWPYALLLAL 134 Query: 147 VTMLCLAGLALFSEPLPLPPDHNAG-LLSLYVEGTLICFLLNAGLMVFFITRISSNLRAG 205 + +GL EPL + H+ G ++ ++ G I F ++A L+ +F++RI++ +R+ Sbjct: 135 CALGAYSGLVYVYEPLHI---HDQGQAMAYHLAGMWINFSISALLITWFVSRIAAAVRSR 191 Query: 206 DALLADLRQRAAEEDHIVRMGLLASGAAHELGTPLATVSVILGDWKRMPEISQRPDML-- 263 + LA R+R + I+ +G A+GAAH L TPL+TV+VI G+ +R +++ +P + Sbjct: 192 ETELARARERQLQSQRILALGTQAAGAAHALNTPLSTVAVIAGELRR--DMATQPALAAY 249 Query: 264 -DDISEMEAQLQRCKSIVSGVLLSA-GQARGESSIKTTLNTFLDSVAEDWRKTRPVEVFE 321 +++ +E Q+ CK+ + + A Q R E S T +L ++ E WR P + Sbjct: 250 DEELRVVEEQIAVCKAALESMRQDADAQTRNEDSAPIT--PWLTTLLEGWRLRHPAVLLS 307 Query: 322 YRNLIEQDVPVAFD-SAIKQMLGNVLDNAFEV-----SPQWLALQVRREGD--------L 367 + Q VA + Q+L +LDNA S +++++R + Sbjct: 308 AE--VHQPGWVAARLEDLSQILLTLLDNAAHAVRERGSEGRVSIRMRAADEPAGRPAQKA 365 Query: 368 LLMEVSDQGPGFPDWMINQIGK-PYQSTKGKPGRGLGLFFVVNVARKLGGRVWASNIDGG 426 ++E++D G G ++ ++G+ P S+ G G GL L F A LGG++ + G Sbjct: 366 AIIEIADNGSGIAPELLQRLGRAPVASSSGGSGIGLMLAFA--SAAHLGGKLRLYSTPGQ 423 Query: 427 GARVTLELPLSAISLESGEHGDFPGPA 453 G L LPLSA+ PGPA Sbjct: 424 GTCAELRLPLSAM--------PSPGPA 442 >gi|300313027|ref|YP_003777119.1| two component transmembrane sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 454 Score = 63.2 bits (152), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 70/266 (26%), Positives = 120/266 (45%), Gaps = 47/266 (17%) Query: 218 EEDHIVRMGLLASGAAHELGTPLATVSV---ILGDW------------------------ 250 + + + +G LA+G AHE+ P+ VS LG++ Sbjct: 180 QSEKLASIGQLAAGVAHEINNPIGFVSANLNTLGNYVATLLEGIQLHQCLQGGALPAAMA 239 Query: 251 -KRMPEISQRPDML---DDISEMEAQ----LQRCKSIVSGVLLSAGQARGESSIK-TTLN 301 +++ R D+ +D++E+ A+ LQR ++IV L GES+ + T L+ Sbjct: 240 QEQLRSFEARADLAFLSEDVTELLAESNEGLQRVRNIVQS--LKDFSRIGESNWQMTDLH 297 Query: 302 TFLDS---VAEDWRKTRPVEVFEYRNLIEQDVPVAFDSAIKQMLGNVLDNAFEVSPQ--W 356 LDS +A + K + V +Y L + S + Q+ N+L NA + + Sbjct: 298 RGLDSTLNIANNELKYKVSIVKQYGEL---PLVKCLASELNQVFMNLLVNAAQAISERGT 354 Query: 357 LALQVRREGDLLLMEVSDQGPGFPDWMINQIGKPYQSTKG-KPGRGLGLFFVVNVARKLG 415 + + R GD + + +SD G G +N+I +P+ +TK G GLGL + +K G Sbjct: 355 VTICTARAGDKVSVSISDTGHGIAPENLNRIFEPFFTTKPVGSGTGLGLSLSYGIVKKHG 414 Query: 416 GRVWASNIDGGGARVTLELPLSAISL 441 G + S+ G G T+ELP+ S+ Sbjct: 415 GDIRVSSAPGCGTTFTIELPIDPASV 440 >gi|300311751|ref|YP_003775843.1| signal transduction histidine kinase [Herbaspirillum seropedicae SmR1] Length = 446 Score = 58.5 bits (140), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 54/190 (28%), Positives = 94/190 (49%), Gaps = 9/190 (4%) Query: 232 AAHELGTPLATVSVILGDWKRMPEISQRPDMLDDISEMEAQLQRCKSIVSGVL-LSAGQA 290 AAHEL TPL +S+ R P +S+ + ++ +E LQR + +V+ +L L+ Q Sbjct: 235 AAHELRTPLTALSLQAERLGRAP-MSE--TARERLTRLETGLQRARQLVTQLLALARAQT 291 Query: 291 RGESSIK-TTLNTFLDSVAEDWRKTRPVEVFEYRNLIEQDVPVAFD-SAIKQMLGNVLDN 348 ++++ +L+ L V E+ + + E+D V + Q+L N++DN Sbjct: 292 PAGAALQPCSLHQVLREVIEELLPLAQCKQIDLGLDGERDACVLTQPQELAQLLRNLIDN 351 Query: 349 AFEVSPQWLALQVR--REGDLLLMEVSDQGPGFPDWMINQIGKP-YQSTKGKPGRGLGLF 405 A +P A+ +R R + +E+ D GPG ++ +P Y+ G GLGL Sbjct: 352 AIAYTPAGGAVSLRMERHAQWVALEICDTGPGIAASERERVFQPFYRIDPSGQGSGLGLA 411 Query: 406 FVVNVARKLG 415 V ++AR+LG Sbjct: 412 IVQSIARRLG 421 >gi|300312655|ref|YP_003776747.1| C4-dicarboxylate transport sensor kinase transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 600 Score = 58.2 bits (139), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 54/242 (22%), Positives = 105/242 (43%), Gaps = 7/242 (2%) Query: 201 NLRAGDALLADLRQRAAEEDHIVRMGLLASGAAHELGTPLATVSVILGDWKRM---PEIS 257 L+ ++LL + + + +G +A+G HEL PL + + + + + Sbjct: 355 KLQQTESLLRTTQNELVQAGKLAMLGQMAAGVTHELNQPLTAIRAFADNAVKFLARGQSA 414 Query: 258 QRPDMLDDISEMEAQLQRCKSIVSGVLLSAGQARGESSIKTTLNTFLDSVAEDWRKTRPV 317 Q + L+ IS A + + + + G +G+A + + +A + +K Sbjct: 415 QAVENLEYISSASATMGKIIAQLKGFARKSGEAVACVDLSQAIEASSLLLASECQKLGAT 474 Query: 318 EVFEYRN--LIEQDVPVAFDSAIKQMLGNVLDNAFEVSPQWLALQVRREGDLLLMEVSDQ 375 + R + DV V + + +L N LD E + +A+ + G L+ + D Sbjct: 475 ISIDIRAAACVTGDV-VRTEQVLVNLLRNALDAVEEAEHKRIAVVLEVAGGYALVRIRDS 533 Query: 376 GPGFPDWMINQIGKPYQSTKGK-PGRGLGLFFVVNVARKLGGRVWASNIDGGGARVTLEL 434 G G D + + +P+ +TK G GLGL ++ + + G++ A N + GGA + L Sbjct: 534 GGGIADEVAPHLFEPFFTTKSSSKGLGLGLAISSSIVQAMNGQLSAHNHEEGGAEFVVRL 593 Query: 435 PL 436 PL Sbjct: 594 PL 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 0.323 0.138 0.416 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: 1,339,410 Number of extensions: 52483 Number of successful extensions: 247 Number of sequences better than 1.0e-08: 10 Number of HSP's gapped: 248 Number of HSP's successfully gapped: 10 Length of query: 453 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 365 Effective length of database: 1,203,190 Effective search space: 439164350 Effective search space used: 439164350 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: 132 (55.5 bits)