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= 0001.0083.p (759 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 ... 1368 0.0 gi|300311805|ref|YP_003775897.1| two component hybrid sensor his... 80 6e-16 gi|300312426|ref|YP_003776518.1| nitrogen regulation (sensor his... 79 1e-15 gi|300313806|ref|YP_003777898.1| PAS/PAC HisKA ATPase_c domains ... 76 1e-14 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 = 1368 bits (3542), Expect = 0.0, Method: Compositional matrix adjust. Identities = 709/760 (93%), Positives = 738/760 (97%), Gaps = 1/760 (0%) Query: 1 MSRTLRYLLVVGGGVISILLFLLASASENSALFEQHYPWLLFLNGLAAISLLGLVLLLLG 60 MSRTLRYLLVVGGGVISILLFLLASASENSALFEQHYPWLLFLNGLAAISLLGLVLLLLG Sbjct: 1 MSRTLRYLLVVGGGVISILLFLLASASENSALFEQHYPWLLFLNGLAAISLLGLVLLLLG 60 Query: 61 RLYKRYRRGKFGSKLLARLVLMFALVGIVPGAVIYLMSVQFVSRSIESWFDVRMEAALES 120 RLYKRYRRGKFGS+LLARLVLMFALVGI+PGAVIYLMSVQFVSRSIESWFDVRMEAALES Sbjct: 61 RLYKRYRRGKFGSRLLARLVLMFALVGILPGAVIYLMSVQFVSRSIESWFDVRMEAALES 120 Query: 121 GLNLGRNALDSSLSDLVSRARGMAQELSDMSDSEQVTYLSRQRDQNMEITIVNANGQVMG 180 GLNLGRNALDSSLSDLVSRARGMAQELSDMSDSEQVTYLSRQRDQNMEITIVN +GQVM Sbjct: 121 GLNLGRNALDSSLSDLVSRARGMAQELSDMSDSEQVTYLSRQRDQNMEITIVNGSGQVMS 180 Query: 181 TVGGSIGSLTPTLPSPQATRQARVSRAFSAVESDDTRPPNGESDSDGNLRLHVVVLIPAP 240 TVGGSIGSLTP LPS QA RQARVSRAFSAVESDD+RP +G+SDSDGNLRLHVVVL+PAP Sbjct: 181 TVGGSIGSLTPILPSTQAMRQARVSRAFSAVESDDSRPASGQSDSDGNLRLHVVVLVPAP 240 Query: 241 SRGMSLQNETRYLQILQPVPDYLASNAETLRLAYNEYQQRSVSRSGLRKIYLVTLTLTLL 300 SR ++LQ ETRYLQILQPVPDYLASNAETLRLAYNEYQQRSVSRSGLRKIYLVTLTLTLL Sbjct: 241 SRALALQGETRYLQILQPVPDYLASNAETLRLAYNEYQQRSVSRSGLRKIYLVTLTLTLL 300 Query: 301 LAIFAAIASAFLIASDLAKPLLLLAEGTKAVAEGNLSPRPIVSTSDELGTLTQSFNTMTR 360 LAIFAAIASAFLIASDLAKPLLLLAEGTKAVAEGNLSPRPIVSTSDELGTLTQSFN MTR Sbjct: 301 LAIFAAIASAFLIASDLAKPLLLLAEGTKAVAEGNLSPRPIVSTSDELGTLTQSFNIMTR 360 Query: 361 QLLEARTSVEKNRAELENAKAYLESVLANMSAGVMVLDGHFNIVSANDSVRRILGYDFSA 420 QLLEARTSVEKNRAELENAKAYLESVLANMSAGVMVLDG FNI+SANDSVRRILG+DFSA Sbjct: 361 QLLEARTSVEKNRAELENAKAYLESVLANMSAGVMVLDGQFNILSANDSVRRILGHDFSA 420 Query: 421 NIGTPLQTIDSQAPFAQAIIRAFSEQLAQHSSDGA-DGLHWQRQFELSRQPGAVLEANDE 479 +IGTPLQTI++QAPFAQA+IRAFSEQLAQHSSD DGLHWQRQFELSRQPGA+L+++DE Sbjct: 421 DIGTPLQTIEAQAPFAQAVIRAFSEQLAQHSSDSTPDGLHWQRQFELSRQPGAMLDSDDE 480 Query: 480 QGGKPDHDKLTLLARGSHLPVENGVGYVVVFDDISNVISAQRSIAWGEVARRLAHEIKNP 539 QGGKPDHDKLTLLARGSHLPVENGVGYVVVFDDISNVISAQRSIAWGEVARRLAHEIKNP Sbjct: 481 QGGKPDHDKLTLLARGSHLPVENGVGYVVVFDDISNVISAQRSIAWGEVARRLAHEIKNP 540 Query: 540 LTPIQLSAERLQHRLADKLMPADAAILDKGTTTIVNQVTAMKRMVDDFRDYAKTPPAKPV 599 LTPIQLSAERLQHRL+DKLMPADAAILDKGTTTIVNQVTAMKRMVDDFRDYA+TPPAKPV Sbjct: 541 LTPIQLSAERLQHRLSDKLMPADAAILDKGTTTIVNQVTAMKRMVDDFRDYARTPPAKPV 600 Query: 600 ALDLNALIEEILNLYLAGDGRDVIHARLAPEMSKVMGDATQMRQVIHNLLQNAQDAVTDD 659 ALDLNALIEEILNLYLAGDGRD IHARLAP M+KVMGDATQ+RQVIHNLLQNAQDAV D+ Sbjct: 601 ALDLNALIEEILNLYLAGDGRDAIHARLAPSMAKVMGDATQLRQVIHNLLQNAQDAVADE 660 Query: 660 GHQAPRIDVLTEQIDIAGTNGQRQPAVRLSIMDNGPGFSPTILARAFEPYVTSKARGTGL 719 G APRIDVLTEQIDIAG +GQRQPAVRLSIMDNGPGFS ILARAFEPYVTSK++GTGL Sbjct: 661 GEVAPRIDVLTEQIDIAGADGQRQPAVRLSIMDNGPGFSAKILARAFEPYVTSKSKGTGL 720 Query: 720 GLAMVKKIVEEHGGRIDIQNRTDGRGAKIVILLVKLAPID 759 GLAMVKKIVEEHGGRIDIQNRTDGRGAKIVILLVKLA ++ Sbjct: 721 GLAMVKKIVEEHGGRIDIQNRTDGRGAKIVILLVKLASVE 760 >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 = 76/252 (30%), Positives = 119/252 (47%), Gaps = 34/252 (13%) Query: 520 QRSIAWGEVARRLAHEIKNPLTPI----QL--SAERLQHRLADKLMPADAAILDKGTTTI 573 Q+ A G++ +AH+ N L I QL S RL R ++ A A+ D+G + Sbjct: 721 QKMEAVGQLTGGVAHDFNNVLQIIGGNLQLLQSDPRLDERSRQRVRIAIGAV-DRGAK-L 778 Query: 574 VNQVTAMKRMVDDFRDYAKTPPAKPVALDLNALIEEILNLYLAGDGRDV-IHARLAPEMS 632 +Q+ A +A+ P +P +++L +++ + +L G ++ I R+A ++ Sbjct: 779 SSQLLA----------FARRQPLQPRSINLERVVQNMDDLLRRAVGENIDISTRVAHDLW 828 Query: 633 KVMGDATQMRQVIHNLLQNAQDAVTDDGHQAPRID-------VLTEQIDIAGTNGQRQPA 685 M D Q+ +I N NA+DA+ G +ID V Q D+A Sbjct: 829 NTMLDPNQVENLIINTAINARDAMPSGGRLTVQIDNVRLEDPVFLSQADLAPGE-----Y 883 Query: 686 VRLSIMDNGPGFSPTILARAFEPYVTSK--ARGTGLGLAMVKKIVEEHGGRIDIQNRTDG 743 V L I DNG G SP + RAFEP+ T+K GTGLGL+M V++ G I I + G Sbjct: 884 VELQISDNGAGMSPEVRDRAFEPFFTTKLEGEGTGLGLSMAYGFVKQSKGHISIHSE-QG 942 Query: 744 RGAKIVILLVKL 755 +G I I + Sbjct: 943 KGTTIRIYFPRC 954 >gi|300312426|ref|YP_003776518.1| nitrogen regulation (sensor histidine kinase) transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 366 Score = 79.3 bits (194), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 70/240 (29%), Positives = 119/240 (49%), Gaps = 18/240 (7%) Query: 521 RSIAWGEVARRLAHEIKNPLTPIQLSAERLQHRLADKLMPADAAILDKGTTTIVNQVTAM 580 +S A E+ R LAHEIKNPL I+ +A+ L+ L ++ + L + T I+ + + Sbjct: 136 QSQANKELIRNLAHEIKNPLGGIRGAAQLLELELPERHLKE----LREYTQVIIKEADRL 191 Query: 581 KRMVDDFRDYAKTPPAKPVALDLN--ALIEEILNLYLAGDGRDVIHAR-LAPEMSKVMGD 637 + +VD + P + D+N + E + +L +A + + R + + GD Sbjct: 192 QTLVDRLLAPHRHPH---IVGDVNIHEVCERVRSLVMAEFPQGLTIKRDYDLSIPEFRGD 248 Query: 638 ATQMRQVIHNLLQNAQDAVTD-----DGHQAPRIDVLTEQIDIAGTNGQRQPAVRLSIMD 692 Q+ Q + N++ NA A+ D DG R V + Q+ ++ + + A+ L I+D Sbjct: 249 KEQLIQAVLNIVHNAAQALADRIRAGDGELILRTRV-SRQVTLSKV--RYRLALDLHIID 305 Query: 693 NGPGFSPTILARAFEPYVTSKARGTGLGLAMVKKIVEEHGGRIDIQNRTDGRGAKIVILL 752 NGPG P 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 = 76.3 bits (186), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 62/221 (28%), Positives = 109/221 (49%), Gaps = 16/221 (7%) Query: 521 RSIAWGEVARRLAHEIKNPLTPIQLSAERLQHRLADKLMPADAAILDKGTTTIVNQVTAM 580 R+ G++ +AHEI PL I +A R D+ +P D G I+ + Sbjct: 298 RANTVGQLTASIAHEINQPLMSIVANAG-ASLRWLDRPVP-DLEHARTGLRDIIAEGQRA 355 Query: 581 KRMVDDFRDYAKTPPAKPVA--LDLNALIEEILNLYLAG-DGRDV-IHARLAPEMSKVMG 636 ++ RD + A PV ++L+A+I IL L + + R+V + L P + V+G Sbjct: 356 GGIISGLRDLTRN--AAPVCERVNLHAVIRHILTLSRSELERREVSLLLSLTPADAFVLG 413 Query: 637 DATQMRQVIHNLLQNAQDAVTDDGHQAPRIDVLTEQIDIAGTNGQRQPAVRLSIMDNGPG 696 D Q++QV+ NL+ NA +A++ A + + D + + + + D+G G Sbjct: 414 DQVQLQQVMLNLVVNAIEAMSSMPEHARVLSITASSCD--------EQRIEVKVQDSGEG 465 Query: 697 FSPTILARAFEPYVTSKARGTGLGLAMVKKIVEEHGGRIDI 737 +P + R F+ + T+K G G+GLA+ + I+E H GR+ + Sbjct: 466 IAPEAMRRVFDAFYTTKDSGMGMGLAICRSIIENHRGRLRV 506 >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 = 76/246 (30%), Positives = 113/246 (45%), Gaps = 21/246 (8%) Query: 519 AQRSIAWGEVARRLAHEIKNPLTPIQLSAERLQHRLADKLMPADAAILDKGTTTIVNQVT 578 AQ+ A G++ LAH+ N L I S E ++ RLA + D G + V + Sbjct: 304 AQKMEAVGQLTGGLAHDFNNILAGISGSLELMKVRLAQGRI-GDIERHLNGAQSAVKRAA 362 Query: 579 AMKRMVDDFRDYAKTPPAKPVALDLNALIEEILNLYLAGDGRDV-----IHARLAPEMSK 633 A+ + + F P KP DLN ++ + L GR V + A + Sbjct: 363 ALTQRLLAFSRRQTLDP-KPA--DLNRIVAGMHELI----GRSVGPAIAVETIAAGGLWH 415 Query: 634 VMGDATQMRQVIHNLLQNAQDAVTDDGHQAPRIDVLTEQIDIAGTNGQRQPA---VRLSI 690 D QM + NL NA+DA+ G I+ +D G + P V LS+ Sbjct: 416 TFVDIGQMENALLNLCINARDAMPHGGRLT--IETANRWLDDIGALQRGVPPGQYVSLSV 473 Query: 691 MDNGPGFSPTILARAFEPYVTSK--ARGTGLGLAMVKKIVEEHGGRIDIQNRTDGRGAKI 748 D G G SP ++ARAF+P+ T+K +GTGLGL+MV + GG + I + G+GA + Sbjct: 474 SDTGAGMSPEVVARAFDPFFTTKPTGQGTGLGLSMVYGFAGQSGGTVRIYSEL-GQGAMV 532 Query: 749 VILLVK 754 I L + Sbjct: 533 CIYLPR 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 0.372 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: 2,144,917 Number of extensions: 87884 Number of successful extensions: 473 Number of sequences better than 1.0e-08: 26 Number of HSP's gapped: 456 Number of HSP's successfully gapped: 26 Length of query: 759 Length of database: 1,619,870 Length adjustment: 93 Effective length of query: 666 Effective length of database: 1,179,515 Effective search space: 785556990 Effective search space used: 785556990 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: 134 (56.2 bits)