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= 0034.0053.p (760 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309416|ref|YP_003773508.1| two component sensor histidine ... 1527 0.0 gi|300312426|ref|YP_003776518.1| nitrogen regulation (sensor his... 84 6e-17 gi|300313806|ref|YP_003777898.1| PAS/PAC HisKA ATPase_c domains ... 80 4e-16 gi|300311805|ref|YP_003775897.1| two component hybrid sensor his... 80 6e-16 gi|300311617|ref|YP_003775709.1| PAS/PAC sensor hybrid histidine... 75 2e-14 >gi|300309416|ref|YP_003773508.1| two component sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 760 Score = 1527 bits (3953), Expect = 0.0, Method: Compositional matrix adjust. Identities = 760/760 (100%), Positives = 760/760 (100%) Query: 1 MSRTLRYLLVVGGGVISILLFLLASASENSALFEQHYPWLLFLNGLAAISLLGLVLLLLG 60 MSRTLRYLLVVGGGVISILLFLLASASENSALFEQHYPWLLFLNGLAAISLLGLVLLLLG Sbjct: 1 MSRTLRYLLVVGGGVISILLFLLASASENSALFEQHYPWLLFLNGLAAISLLGLVLLLLG 60 Query: 61 RLYKRYRRGKFGSRLLARLVLMFALVGILPGAVIYLMSVQFVSRSIESWFDVRMEAALES 120 RLYKRYRRGKFGSRLLARLVLMFALVGILPGAVIYLMSVQFVSRSIESWFDVRMEAALES Sbjct: 61 RLYKRYRRGKFGSRLLARLVLMFALVGILPGAVIYLMSVQFVSRSIESWFDVRMEAALES 120 Query: 121 GLNLGRNALDSSLSDLVSRARGMAQELSDMSDSEQVTYLSRQRDQNMEITIVNGSGQVMS 180 GLNLGRNALDSSLSDLVSRARGMAQELSDMSDSEQVTYLSRQRDQNMEITIVNGSGQVMS Sbjct: 121 GLNLGRNALDSSLSDLVSRARGMAQELSDMSDSEQVTYLSRQRDQNMEITIVNGSGQVMS 180 Query: 181 TVGGSIGSLTPILPSTQAMRQARVSRAFSAVESDDSRPASGQSDSDGNLRLHVVVLVPAP 240 TVGGSIGSLTPILPSTQAMRQARVSRAFSAVESDDSRPASGQSDSDGNLRLHVVVLVPAP Sbjct: 181 TVGGSIGSLTPILPSTQAMRQARVSRAFSAVESDDSRPASGQSDSDGNLRLHVVVLVPAP 240 Query: 241 SRALALQGETRYLQILQPVPDYLASNAETLRLAYNEYQQRSVSRSGLRKIYLVTLTLTLL 300 SRALALQGETRYLQILQPVPDYLASNAETLRLAYNEYQQRSVSRSGLRKIYLVTLTLTLL Sbjct: 241 SRALALQGETRYLQILQPVPDYLASNAETLRLAYNEYQQRSVSRSGLRKIYLVTLTLTLL 300 Query: 301 LAIFAAIASAFLIASDLAKPLLLLAEGTKAVAEGNLSPRPIVSTSDELGTLTQSFNIMTR 360 LAIFAAIASAFLIASDLAKPLLLLAEGTKAVAEGNLSPRPIVSTSDELGTLTQSFNIMTR Sbjct: 301 LAIFAAIASAFLIASDLAKPLLLLAEGTKAVAEGNLSPRPIVSTSDELGTLTQSFNIMTR 360 Query: 361 QLLEARTSVEKNRAELENAKAYLESVLANMSAGVMVLDGQFNILSANDSVRRILGHDFSA 420 QLLEARTSVEKNRAELENAKAYLESVLANMSAGVMVLDGQFNILSANDSVRRILGHDFSA Sbjct: 361 QLLEARTSVEKNRAELENAKAYLESVLANMSAGVMVLDGQFNILSANDSVRRILGHDFSA 420 Query: 421 DIGTPLQTIEAQAPFAQAVIRAFSEQLAQHSSDSTPDGLHWQRQFELSRQPGAMLDSDDE 480 DIGTPLQTIEAQAPFAQAVIRAFSEQLAQHSSDSTPDGLHWQRQFELSRQPGAMLDSDDE Sbjct: 421 DIGTPLQTIEAQAPFAQAVIRAFSEQLAQHSSDSTPDGLHWQRQFELSRQPGAMLDSDDE 480 Query: 481 QGGKPDHDKLTLLARGSHLPVENGVGYVVVFDDISNVISAQRSIAWGEVARRLAHEIKNP 540 QGGKPDHDKLTLLARGSHLPVENGVGYVVVFDDISNVISAQRSIAWGEVARRLAHEIKNP Sbjct: 481 QGGKPDHDKLTLLARGSHLPVENGVGYVVVFDDISNVISAQRSIAWGEVARRLAHEIKNP 540 Query: 541 LTPIQLSAERLQHRLSDKLMPADAAILDKGTTTIVNQVTAMKRMVDDFRDYARTPPAKPV 600 LTPIQLSAERLQHRLSDKLMPADAAILDKGTTTIVNQVTAMKRMVDDFRDYARTPPAKPV Sbjct: 541 LTPIQLSAERLQHRLSDKLMPADAAILDKGTTTIVNQVTAMKRMVDDFRDYARTPPAKPV 600 Query: 601 ALDLNALIEEILNLYLAGDGRDAIHARLAPSMAKVMGDATQLRQVIHNLLQNAQDAVADE 660 ALDLNALIEEILNLYLAGDGRDAIHARLAPSMAKVMGDATQLRQVIHNLLQNAQDAVADE Sbjct: 601 ALDLNALIEEILNLYLAGDGRDAIHARLAPSMAKVMGDATQLRQVIHNLLQNAQDAVADE 660 Query: 661 GEVAPRIDVLTEQIDIAGADGQRQPAVRLSIMDNGPGFSAKILARAFEPYVTSKSKGTGL 720 GEVAPRIDVLTEQIDIAGADGQRQPAVRLSIMDNGPGFSAKILARAFEPYVTSKSKGTGL Sbjct: 661 GEVAPRIDVLTEQIDIAGADGQRQPAVRLSIMDNGPGFSAKILARAFEPYVTSKSKGTGL 720 Query: 721 GLAMVKKIVEEHGGRIDIQNRTDGRGAKIVILLVKLASVE 760 GLAMVKKIVEEHGGRIDIQNRTDGRGAKIVILLVKLASVE Sbjct: 721 GLAMVKKIVEEHGGRIDIQNRTDGRGAKIVILLVKLASVE 760 >gi|300312426|ref|YP_003776518.1| nitrogen regulation (sensor histidine kinase) transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 366 Score = 83.6 bits (205), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 73/240 (30%), Positives = 121/240 (50%), Gaps = 18/240 (7%) Query: 522 RSIAWGEVARRLAHEIKNPLTPIQLSAERLQHRLSDKLMPADAAILDKGTTTIVNQVTAM 581 +S A E+ R LAHEIKNPL I+ +A+ L+ L ++ + L + T I+ + + Sbjct: 136 QSQANKELIRNLAHEIKNPLGGIRGAAQLLELELPERHLKE----LREYTQVIIKEADRL 191 Query: 582 KRMVDDFRDYARTPPAKPVALDLN--ALIEEILNLYLAGDGRD-AIHARLAPSMAKVMGD 638 + +VD R P + D+N + E + +L +A + I S+ + GD Sbjct: 192 QTLVDRLLAPHRHPH---IVGDVNIHEVCERVRSLVMAEFPQGLTIKRDYDLSIPEFRGD 248 Query: 639 ATQLRQVIHNLLQNAQDAVAD-----EGEVAPRIDVLTEQIDIAGADGQRQPAVRLSIMD 693 QL Q + N++ NA A+AD +GE+ R V + Q+ ++ + + A+ L I+D Sbjct: 249 KEQLIQAVLNIVHNAAQALADRIRAGDGELILRTRV-SRQVTLSKV--RYRLALDLHIID 305 Query: 694 NGPGFSAKILARAFEPYVTSKSKGTGLGLAMVKKIVEEHGGRIDIQNRTDGRGAKIVILL 753 NGPG I R F P V+ + G+GLGL + + V +H G I+ +R +I+I L Sbjct: 306 NGPGIPPDIQDRIFYPLVSGREGGSGLGLTLAQTFVHQHMGVIECDSRPGCTDFRILIPL 365 >gi|300313806|ref|YP_003777898.1| PAS/PAC HisKA ATPase_c domains containing sensor signal transduction histidine kinase [Herbaspirillum seropedicae SmR1] Length = 524 Score = 80.5 bits (197), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 69/221 (31%), Positives = 112/221 (50%), Gaps = 16/221 (7%) Query: 522 RSIAWGEVARRLAHEIKNPLTPIQLSAERLQHRLSDKLMPADAAILDKGTTTIVNQVTAM 581 R+ G++ +AHEI PL I +A R D+ +P D G I+ + Sbjct: 298 RANTVGQLTASIAHEINQPLMSIVANAG-ASLRWLDRPVP-DLEHARTGLRDIIAEGQRA 355 Query: 582 KRMVDDFRDYARTPPAKPVA--LDLNALIEEILNLYLAGDGRDAIHA--RLAPSMAKVMG 637 ++ RD R A PV ++L+A+I IL L + R + L P+ A V+G Sbjct: 356 GGIISGLRDLTRN--AAPVCERVNLHAVIRHILTLSRSELERREVSLLLSLTPADAFVLG 413 Query: 638 DATQLRQVIHNLLQNAQDAVADEGEVAPRIDVLTEQIDIAGADGQRQPAVRLSIMDNGPG 697 D QL+QV+ NL+ NA +A++ E A VL+ I + D QR + + + D+G G Sbjct: 414 DQVQLQQVMLNLVVNAIEAMSSMPEHA---RVLS--ITASSCDEQR---IEVKVQDSGEG 465 Query: 698 FSAKILARAFEPYVTSKSKGTGLGLAMVKKIVEEHGGRIDI 738 + + + R F+ + T+K G G+GLA+ + I+E H GR+ + Sbjct: 466 IAPEAMRRVFDAFYTTKDSGMGMGLAICRSIIENHRGRLRV 506 >gi|300311805|ref|YP_003775897.1| two component hybrid sensor histidine kinase/response regulator protein [Herbaspirillum seropedicae SmR1] Length = 1278 Score = 80.1 bits (196), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 76/251 (30%), Positives = 122/251 (48%), Gaps = 24/251 (9%) Query: 521 QRSIAWGEVARRLAHEIKNPLTPI----QL--SAERLQHRLSDKLMPADAAILDKGTTTI 574 Q+ A G++ +AH+ N L I QL S RL R ++ A A+ D+G + Sbjct: 721 QKMEAVGQLTGGVAHDFNNVLQIIGGNLQLLQSDPRLDERSRQRVRIAIGAV-DRGAK-L 778 Query: 575 VNQVTAMKRMVDDFRDYARTPPAKPVALDLNALIEEILNLYLAGDGRDA-IHARLAPSMA 633 +Q+ A +AR P +P +++L +++ + +L G + I R+A + Sbjct: 779 SSQLLA----------FARRQPLQPRSINLERVVQNMDDLLRRAVGENIDISTRVAHDLW 828 Query: 634 KVMGDATQLRQVIHNLLQNAQDAVADEGEVAPRID--VLTEQIDIAGADGQRQPAVRLSI 691 M D Q+ +I N NA+DA+ G + +ID L + + ++ AD V L I Sbjct: 829 NTMLDPNQVENLIINTAINARDAMPSGGRLTVQIDNVRLEDPVFLSQADLAPGEYVELQI 888 Query: 692 MDNGPGFSAKILARAFEPYVTSK--SKGTGLGLAMVKKIVEEHGGRIDIQNRTDGRGAKI 749 DNG G S ++ RAFEP+ T+K +GTGLGL+M V++ G I I + G+G I Sbjct: 889 SDNGAGMSPEVRDRAFEPFFTTKLEGEGTGLGLSMAYGFVKQSKGHISIHSE-QGKGTTI 947 Query: 750 VILLVKLASVE 760 I + E Sbjct: 948 RIYFPRCLDEE 958 >gi|300311617|ref|YP_003775709.1| PAS/PAC sensor hybrid histidine kinase response regulator protein [Herbaspirillum seropedicae SmR1] Length = 688 Score = 75.1 bits (183), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 85/313 (27%), Positives = 141/313 (45%), Gaps = 30/313 (9%) Query: 455 TPDGLHWQRQFELSRQPGAMLDSDDEQGGKPDHDKLTLLARGSHLPVENGVG--YVVVFD 512 TPDG+ S+ PG ++D + + + + D+ R + +E V + + Sbjct: 244 TPDGIP-------SKFPGVLIDIEGRRAVEAERDRALAALRTLNETLEQRVEERTAALLN 296 Query: 513 DISNVISAQRSIAWGEVARRLAHEIKNPLTPIQLSAERLQHRLSDKLMPADAAILDKGTT 572 + AQ+ A G++ LAH+ N L I S E ++ RL+ + D G Sbjct: 297 AEEALRQAQKMEAVGQLTGGLAHDFNNILAGISGSLELMKVRLAQGRI-GDIERHLNGAQ 355 Query: 573 TIVNQVTAMKRMVDDFRDYARTPPAKPVALDLNALIEEILNLYLAGDGRD-----AIHAR 627 + V + A+ + + F +R P DLN ++ + L GR A+ Sbjct: 356 SAVKRAAALTQRLLAF---SRRQTLDPKPADLNRIVAGMHELI----GRSVGPAIAVETI 408 Query: 628 LAPSMAKVMGDATQLRQVIHNLLQNAQDAVADEGEVAPRIDVLTEQIDIAGADGQRQPA- 686 A + D Q+ + NL NA+DA+ G + I+ +D GA + P Sbjct: 409 AAGGLWHTFVDIGQMENALLNLCINARDAMPHGGRLT--IETANRWLDDIGALQRGVPPG 466 Query: 687 --VRLSIMDNGPGFSAKILARAFEPYVTSK--SKGTGLGLAMVKKIVEEHGGRIDIQNRT 742 V LS+ D G G S +++ARAF+P+ T+K +GTGLGL+MV + GG + I + Sbjct: 467 QYVSLSVSDTGAGMSPEVVARAFDPFFTTKPTGQGTGLGLSMVYGFAGQSGGTVRIYSEL 526 Query: 743 DGRGAKIVILLVK 755 G+GA + I L + Sbjct: 527 -GQGAMVCIYLPR 538 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 0.134 0.367 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: 2,115,523 Number of extensions: 87318 Number of successful extensions: 485 Number of sequences better than 1.0e-08: 30 Number of HSP's gapped: 460 Number of HSP's successfully gapped: 30 Length of query: 760 Length of database: 1,619,870 Length adjustment: 93 Effective length of query: 667 Effective length of database: 1,179,515 Effective search space: 786736505 Effective search space used: 786736505 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 (21.7 bits) S2: 134 (56.2 bits)