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= 0022.0284.p (269 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 ... 516 e-147 gi|300312426|ref|YP_003776518.1| nitrogen regulation (sensor his... 82 5e-17 gi|300311805|ref|YP_003775897.1| two component hybrid sensor his... 80 1e-16 gi|300313806|ref|YP_003777898.1| PAS/PAC HisKA ATPase_c domains ... 78 7e-16 gi|300311617|ref|YP_003775709.1| PAS/PAC sensor hybrid histidine... 77 1e-15 >gi|300309416|ref|YP_003773508.1| two component sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 760 Score = 516 bits (1328), Expect = e-147, Method: Compositional matrix adjust. Identities = 250/269 (92%), Positives = 261/269 (97%) Query: 1 LLARGSHLPVENGVGYVVVFDDISNVISAQRSIAWGEVARRLAHEIKNPLTPIQLSAERL 60 LLARGSHLPVENGVGYVVVFDDISNVISAQRSIAWGEVARRLAHEIKNPLTPIQLSAERL Sbjct: 492 LLARGSHLPVENGVGYVVVFDDISNVISAQRSIAWGEVARRLAHEIKNPLTPIQLSAERL 551 Query: 61 QHRLADKLMPADAAILDKGTTTIVNQVTAMKRMVDDFRDYAKTPPAKPVALDLNALIEEI 120 QHRL+DKLMPADAAILDKGTTTIVNQVTAMKRMVDDFRDYA+TPPAKPVALDLNALIEEI Sbjct: 552 QHRLSDKLMPADAAILDKGTTTIVNQVTAMKRMVDDFRDYARTPPAKPVALDLNALIEEI 611 Query: 121 LNLYLAGDGRDVIHARLAPEMSKVMGDATQMRQVIHNLLQNAQDAVTDDGQSAPRIDVLT 180 LNLYLAGDGRD IHARLAP M+KVMGDATQ+RQVIHNLLQNAQDAV D+G+ APRIDVLT Sbjct: 612 LNLYLAGDGRDAIHARLAPSMAKVMGDATQLRQVIHNLLQNAQDAVADEGEVAPRIDVLT 671 Query: 181 EQIDIAGTDGQRRPAVRLSIMDNGPGFSPTILARAFEPYVTSKARGTGLGLAMVKKIVEE 240 EQIDIAG DGQR+PAVRLSIMDNGPGFS ILARAFEPYVTSK++GTGLGLAMVKKIVEE Sbjct: 672 EQIDIAGADGQRQPAVRLSIMDNGPGFSAKILARAFEPYVTSKSKGTGLGLAMVKKIVEE 731 Query: 241 HGGRIDIQNRTDGRGAKIVILLVKLAPID 269 HGGRIDIQNRTDGRGAKIVILLVKLA ++ Sbjct: 732 HGGRIDIQNRTDGRGAKIVILLVKLASVE 760 >gi|300312426|ref|YP_003776518.1| nitrogen regulation (sensor histidine kinase) transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 366 Score = 81.6 bits (200), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 71/240 (29%), Positives = 120/240 (50%), Gaps = 18/240 (7%) Query: 31 RSIAWGEVARRLAHEIKNPLTPIQLSAERLQHRLADKLMPADAAILDKGTTTIVNQVTAM 90 +S A E+ R LAHEIKNPL I+ +A+ L+ L ++ + L + T I+ + + Sbjct: 136 QSQANKELIRNLAHEIKNPLGGIRGAAQLLELELPERHLKE----LREYTQVIIKEADRL 191 Query: 91 KRMVDDFRDYAKTPPAKPVALDLN--ALIEEILNLYLAGDGRDVIHAR-LAPEMSKVMGD 147 + +VD + P + D+N + E + +L +A + + R + + GD Sbjct: 192 QTLVDRLLAPHRHPH---IVGDVNIHEVCERVRSLVMAEFPQGLTIKRDYDLSIPEFRGD 248 Query: 148 ATQMRQVIHNLLQNAQDAVTD-----DGQSAPRIDVLTEQIDIAGTDGQRRPAVRLSIMD 202 Q+ Q + N++ NA A+ D DG+ R V + Q+ ++ + R A+ L I+D Sbjct: 249 KEQLIQAVLNIVHNAAQALADRIRAGDGELILRTRV-SRQVTLSKV--RYRLALDLHIID 305 Query: 203 NGPGFSPTILARAFEPYVTSKARGTGLGLAMVKKIVEEHGGRIDIQNRTDGRGAKIVILL 262 NGPG P I R F P V+ + G+GLGL + + V +H G I+ +R +I+I L Sbjct: 306 NGPGIPPDIQDRIFYPLVSGREGGSGLGLTLAQTFVHQHMGVIECDSRPGCTDFRILIPL 365 >gi|300311805|ref|YP_003775897.1| two component hybrid sensor histidine kinase/response regulator protein [Herbaspirillum seropedicae SmR1] Length = 1278 Score = 80.5 bits (197), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 76/249 (30%), Positives = 120/249 (48%), Gaps = 34/249 (13%) Query: 30 QRSIAWGEVARRLAHEIKNPLTPI----QL--SAERLQHRLADKLMPADAAILDKGTTTI 83 Q+ A G++ +AH+ N L I QL S RL R ++ A A+ D+G + Sbjct: 721 QKMEAVGQLTGGVAHDFNNVLQIIGGNLQLLQSDPRLDERSRQRVRIAIGAV-DRGAK-L 778 Query: 84 VNQVTAMKRMVDDFRDYAKTPPAKPVALDLNALIEEILNLYLAGDGRDV-IHARLAPEMS 142 +Q+ A +A+ P +P +++L +++ + +L G ++ I R+A ++ Sbjct: 779 SSQLLA----------FARRQPLQPRSINLERVVQNMDDLLRRAVGENIDISTRVAHDLW 828 Query: 143 KVMGDATQMRQVIHNLLQNAQDAVTDDGQSAPRID-------VLTEQIDIAGTDGQRRPA 195 M D Q+ +I N NA+DA+ G+ +ID V Q D+A + Sbjct: 829 NTMLDPNQVENLIINTAINARDAMPSGGRLTVQIDNVRLEDPVFLSQADLAPGE-----Y 883 Query: 196 VRLSIMDNGPGFSPTILARAFEPYVTSK--ARGTGLGLAMVKKIVEEHGGRIDIQNRTDG 253 V L I DNG G SP + RAFEP+ T+K GTGLGL+M V++ G I I + G Sbjct: 884 VELQISDNGAGMSPEVRDRAFEPFFTTKLEGEGTGLGLSMAYGFVKQSKGHISIHSE-QG 942 Query: 254 RGAKIVILL 262 +G I I Sbjct: 943 KGTTIRIYF 951 >gi|300313806|ref|YP_003777898.1| PAS/PAC HisKA ATPase_c domains containing sensor signal transduction histidine kinase [Herbaspirillum seropedicae SmR1] Length = 524 Score = 78.2 bits (191), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 66/216 (30%), Positives = 112/216 (51%), Gaps = 16/216 (7%) Query: 36 GEVARRLAHEIKNPLTPIQLSAERLQHRLADKLMPADAAILDKGTTTIVNQVTAMKRMVD 95 G++ +AHEI PL I +A R D+ +P D G I+ + ++ Sbjct: 303 GQLTASIAHEINQPLMSIVANAG-ASLRWLDRPVP-DLEHARTGLRDIIAEGQRAGGIIS 360 Query: 96 DFRDYAKTPPAKPVA--LDLNALIEEILNLYLAG-DGRDV-IHARLAPEMSKVMGDATQM 151 RD + A PV ++L+A+I IL L + + R+V + L P + V+GD Q+ Sbjct: 361 GLRDLTRN--AAPVCERVNLHAVIRHILTLSRSELERREVSLLLSLTPADAFVLGDQVQL 418 Query: 152 RQVIHNLLQNAQDAVTDDGQSAPRIDVLTEQIDIAGTDGQRRPAVRLSIMDNGPGFSPTI 211 +QV+ NL+ NA +A++ + A VL+ I + D QR + + + D+G G +P Sbjct: 419 QQVMLNLVVNAIEAMSSMPEHA---RVLS--ITASSCDEQR---IEVKVQDSGEGIAPEA 470 Query: 212 LARAFEPYVTSKARGTGLGLAMVKKIVEEHGGRIDI 247 + R F+ + T+K G G+GLA+ + I+E H GR+ + Sbjct: 471 MRRVFDAFYTTKDSGMGMGLAICRSIIENHRGRLRV 506 >gi|300311617|ref|YP_003775709.1| PAS/PAC sensor hybrid histidine kinase response regulator protein [Herbaspirillum seropedicae SmR1] Length = 688 Score = 77.4 bits (189), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 76/244 (31%), Positives = 113/244 (46%), Gaps = 21/244 (8%) Query: 29 AQRSIAWGEVARRLAHEIKNPLTPIQLSAERLQHRLADKLMPADAAILDKGTTTIVNQVT 88 AQ+ A G++ LAH+ N L I S E ++ RLA + D G + V + Sbjct: 304 AQKMEAVGQLTGGLAHDFNNILAGISGSLELMKVRLAQGRI-GDIERHLNGAQSAVKRAA 362 Query: 89 AMKRMVDDFRDYAKTPPAKPVALDLNALIEEILNLYLAGDGRDV-----IHARLAPEMSK 143 A+ + + F P KP DLN ++ + L GR V + A + Sbjct: 363 ALTQRLLAFSRRQTLDP-KPA--DLNRIVAGMHELI----GRSVGPAIAVETIAAGGLWH 415 Query: 144 VMGDATQMRQVIHNLLQNAQDAVTDDGQSAPRIDVLTEQIDIAGTDGQRRP---AVRLSI 200 D QM + NL NA+DA+ G+ I+ +D G + P V LS+ Sbjct: 416 TFVDIGQMENALLNLCINARDAMPHGGRLT--IETANRWLDDIGALQRGVPPGQYVSLSV 473 Query: 201 MDNGPGFSPTILARAFEPYVTSK--ARGTGLGLAMVKKIVEEHGGRIDIQNRTDGRGAKI 258 D G G SP ++ARAF+P+ T+K +GTGLGL+MV + GG + I + G+GA + Sbjct: 474 SDTGAGMSPEVVARAFDPFFTTKPTGQGTGLGLSMVYGFAGQSGGTVRIYSEL-GQGAMV 532 Query: 259 VILL 262 I L Sbjct: 533 CIYL 536 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 0.319 0.136 0.384 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: 877,576 Number of extensions: 38143 Number of successful extensions: 235 Number of sequences better than 1.0e-08: 27 Number of HSP's gapped: 209 Number of HSP's successfully gapped: 27 Length of query: 269 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 185 Effective length of database: 1,222,130 Effective search space: 226094050 Effective search space used: 226094050 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 (21.8 bits) S2: 130 (54.7 bits)