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= 0002.0075.p (357 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312426|ref|YP_003776518.1| nitrogen regulation (sensor his... 717 0.0 gi|300309416|ref|YP_003773508.1| two component sensor histidine ... 84 2e-17 gi|300311805|ref|YP_003775897.1| two component hybrid sensor his... 67 2e-12 gi|300309882|ref|YP_003773974.1| multi-sensor hybrid histidine k... 67 3e-12 gi|300310177|ref|YP_003774269.1| C4-dicarboxylate transport sens... 65 7e-12 >gi|300312426|ref|YP_003776518.1| nitrogen regulation (sensor histidine kinase) transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 366 Score = 717 bits (1850), Expect = 0.0, Method: Compositional matrix adjust. Identities = 357/357 (100%), Positives = 357/357 (100%) Query: 1 MKTPFPSLEGLDLLASAVIILDAEGGIVYANAAAENLLESSFKVLSQQKLSELFLNGKEL 60 MKTPFPSLEGLDLLASAVIILDAEGGIVYANAAAENLLESSFKVLSQQKLSELFLNGKEL Sbjct: 10 MKTPFPSLEGLDLLASAVIILDAEGGIVYANAAAENLLESSFKVLSQQKLSELFLNGKEL 69 Query: 61 SALFYQAIEHQFADKRLDLVLERANREPLQVHTIVTPLDNPDMPVLLELRENVQQLKLDR 120 SALFYQAIEHQFADKRLDLVLERANREPLQVHTIVTPLDNPDMPVLLELRENVQQLKLDR Sbjct: 70 SALFYQAIEHQFADKRLDLVLERANREPLQVHTIVTPLDNPDMPVLLELRENVQQLKLDR 129 Query: 121 EERIFDQSQANKELIRNLAHEIKNPLGGIRGAAQLLELELPERHLKELREYTQVIIKEAD 180 EERIFDQSQANKELIRNLAHEIKNPLGGIRGAAQLLELELPERHLKELREYTQVIIKEAD Sbjct: 130 EERIFDQSQANKELIRNLAHEIKNPLGGIRGAAQLLELELPERHLKELREYTQVIIKEAD 189 Query: 181 RLQTLVDRLLAPHRHPHIVGDVNIHEVCERVRSLVMAEFPQGLTIKRDYDLSIPEFRGDK 240 RLQTLVDRLLAPHRHPHIVGDVNIHEVCERVRSLVMAEFPQGLTIKRDYDLSIPEFRGDK Sbjct: 190 RLQTLVDRLLAPHRHPHIVGDVNIHEVCERVRSLVMAEFPQGLTIKRDYDLSIPEFRGDK 249 Query: 241 EQLIQAVLNIVHNAAQALADRIRAGDGELILRTRVSRQVTLSKVRYRLALDLHIIDNGPG 300 EQLIQAVLNIVHNAAQALADRIRAGDGELILRTRVSRQVTLSKVRYRLALDLHIIDNGPG Sbjct: 250 EQLIQAVLNIVHNAAQALADRIRAGDGELILRTRVSRQVTLSKVRYRLALDLHIIDNGPG 309 Query: 301 IPPDIQDRIFYPLVSGREGGSGLGLTLAQTFVHQHMGVIECDSRPGCTDFRILIPLP 357 IPPDIQDRIFYPLVSGREGGSGLGLTLAQTFVHQHMGVIECDSRPGCTDFRILIPLP Sbjct: 310 IPPDIQDRIFYPLVSGREGGSGLGLTLAQTFVHQHMGVIECDSRPGCTDFRILIPLP 366 >gi|300309416|ref|YP_003773508.1| two component sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 760 Score = 83.6 bits (205), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 73/240 (30%), Positives = 121/240 (50%), Gaps = 18/240 (7%) Query: 127 QSQANKELIRNLAHEIKNPLGGIRGAAQLLELELPERHLKE----LREYTQVIIKEADRL 182 +S A E+ R LAHEIKNPL I+ +A+ L+ L ++ + L + T I+ + + Sbjct: 522 RSIAWGEVARRLAHEIKNPLTPIQLSAERLQHRLSDKLMPADAAILDKGTTTIVNQVTAM 581 Query: 183 QTLVDRLLAPHRHPH---IVGDVNIHEVCERVRSLVMAEFPQGLTIKRDYDLSIPEFRGD 239 + +VD R P + D+N + E + +L +A + I S+ + GD Sbjct: 582 KRMVDDFRDYARTPPAKPVALDLN--ALIEEILNLYLAGDGRD-AIHARLAPSMAKVMGD 638 Query: 240 KEQLIQAVLNIVHNAAQALADRIRAGDGELILRTRV-SRQVTLSKV--RYRLALDLHIID 296 QL Q + N++ NA A+AD +GE+ R V + Q+ ++ + + A+ L I+D Sbjct: 639 ATQLRQVIHNLLQNAQDAVAD-----EGEVAPRIDVLTEQIDIAGADGQRQPAVRLSIMD 693 Query: 297 NGPGIPPDIQDRIFYPLVSGREGGSGLGLTLAQTFVHQHMGVIECDSRPGCTDFRILIPL 356 NGPG I R F P V+ + G+GLGL + + V +H G I+ +R +I+I L Sbjct: 694 NGPGFSAKILARAFEPYVTSKSKGTGLGLAMVKKIVEEHGGRIDIQNRTDGRGAKIVILL 753 >gi|300311805|ref|YP_003775897.1| two component hybrid sensor histidine kinase/response regulator protein [Herbaspirillum seropedicae SmR1] Length = 1278 Score = 67.0 bits (162), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 71/244 (29%), Positives = 109/244 (44%), Gaps = 20/244 (8%) Query: 123 RIFDQSQANKELIRNLAHEIKNPLGGIRGAAQLLELE--LPERHLKELREYTQVIIKEAD 180 R + +A +L +AH+ N L I G QLL+ + L ER R+ ++ I D Sbjct: 718 RQMQKMEAVGQLTGGVAHDFNNVLQIIGGNLQLLQSDPRLDERS----RQRVRIAIGAVD 773 Query: 181 RLQTLVDRLLA-PHRHPHIVGDVNIHEVCERVRSLVMAEFPQGLTIKRDYDLSIPEFRGD 239 R L +LLA R P +N+ V + + L+ + + I + D Sbjct: 774 RGAKLSSQLLAFARRQPLQPRSINLERVVQNMDDLLRRAVGENIDISTRVAHDLWNTMLD 833 Query: 240 KEQLIQAVLNIVHNAAQALADRIRAGDGELILR---TRVSRQVTLSKVRYRLA--LDLHI 294 Q+ ++N NA A+ G L ++ R+ V LS+ ++L I Sbjct: 834 PNQVENLIINTAINARDAMPS-----GGRLTVQIDNVRLEDPVFLSQADLAPGEYVELQI 888 Query: 295 IDNGPGIPPDIQDRIFYPLVSGR-EG-GSGLGLTLAQTFVHQHMGVIECDSRPG-CTDFR 351 DNG G+ P+++DR F P + + EG G+GLGL++A FV Q G I S G T R Sbjct: 889 SDNGAGMSPEVRDRAFEPFFTTKLEGEGTGLGLSMAYGFVKQSKGHISIHSEQGKGTTIR 948 Query: 352 ILIP 355 I P Sbjct: 949 IYFP 952 >gi|300309882|ref|YP_003773974.1| multi-sensor hybrid histidine kinase [Herbaspirillum seropedicae SmR1] Length = 845 Score = 66.6 bits (161), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 71/250 (28%), Positives = 108/250 (43%), Gaps = 43/250 (17%) Query: 129 QANKELIRNLAHEIKNPLGGIRGAAQLLELELPERHLKELREYTQVIIKEADRLQTLVDR 188 +A +L LAH+ N LGGI G+ L+ + L + +EL Y ++ + R +L R Sbjct: 466 EAIGQLTGGLAHDFNNLLGGISGSLDLMRVRLVQGRGEELLRYVELAARSTQRAASLTQR 525 Query: 189 LLAPHRHPHIVGDVNIHEVCERVRSLV--MAEFPQGLTIKRDYDLSI-----------PE 235 LLA R + RV +L+ M E I+R +I P Sbjct: 526 LLAFARRQTLAPKPT------RVNALISGMEEL-----IRRTIGPAIVLEVVGAGGLWPT 574 Query: 236 FRGDKEQLIQAVLNIVHNAAQALADRIRAGDGELILRT-------RVSRQVTLSKVRYRL 288 F D QL A+LN+ NA A+ G G L + T R + + L +Y Sbjct: 575 FV-DGPQLESALLNLCINARDAM-----PGGGRLTIETANKWLDDRWAHERDLPPGQY-- 626 Query: 289 ALDLHIIDNGPGIPPDIQDRIFYPLVSGRE--GGSGLGLTLAQTFVHQHMGVIECDSRPG 346 + + + D+G G+PPD+ R F P + + G+GLGL++ F Q G + S G Sbjct: 627 -VCISVTDSGVGMPPDVLARAFDPFFTTKPIGAGTGLGLSMVYGFARQSGGQVRLYSEVG 685 Query: 347 -CTDFRILIP 355 T I +P Sbjct: 686 QGTTVSIYLP 695 >gi|300310177|ref|YP_003774269.1| C4-dicarboxylate transport sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 674 Score = 65.5 bits (158), Expect = 7e-12, Method: Compositional matrix adjust. Identities = 77/301 (25%), Positives = 132/301 (43%), Gaps = 27/301 (8%) Query: 73 ADKRLDLVLERANREPLQVHTIVTPLDNPD------MPVLLELRENVQQLKLDREERIFD 126 A + + + +R + E V +PL + D M +L++ E + L+R + Sbjct: 377 ATPQFETIFQRRDGERFPVLIFESPLVDQDGKQTGWMGSILDISERKRAEDLNRTQEEKL 436 Query: 127 QSQAN----KELIRNLAHEIKNPLGGIR----GAAQLLELELPERHLKELREYTQVIIKE 178 Q+ A E+ LAHE+ PL I GA L++ + K L+ + I + Sbjct: 437 QASARLASMGEIASTLAHELNQPLAAISSYTTGALNLMQQG--QADPKALQPALEKIHAQ 494 Query: 179 ADRLQTLVDRL--LAPHRHPHIVGDVNIHEVCERVRSLVMAEFPQGLTI-KRDYDLSIPE 235 A R ++ + R P V + ++ + V L+ + Q + + S+P Sbjct: 495 AQRAGHVIRSVHQFVKKREP-ARQRVQMRQLIDNVAPLIELQAQQFFVVLQLQVPRSLPP 553 Query: 236 FRGDKEQLIQAVLNIVHNAAQALADRIRAGDGELILRTRVSRQVTLSKVRYRLALDLHII 295 GD+ L Q +LN+ N QA+A ILR V+ +VT ++ ++ + + Sbjct: 554 VLGDQILLEQVILNLTRNGIQAMAA---VPSARRILR--VAAEVTRNEDGAE-SVTVSVT 607 Query: 296 DNGPGIPPDIQDRIFYPLVSGREGGSGLGLTLAQTFVHQHMGVIECDSRP-GCTDFRILI 354 D G GIP D+ R+F P S + G G+GL + +T + H G + P G T FR + Sbjct: 608 DQGHGIPDDVAARLFSPFFSTKAEGMGMGLNICRTTIEFHGGTLTYTDNPAGGTIFRFSL 667 Query: 355 P 355 P Sbjct: 668 P 668 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 0.321 0.140 0.397 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: 1,011,368 Number of extensions: 38819 Number of successful extensions: 226 Number of sequences better than 1.0e-08: 21 Number of HSP's gapped: 222 Number of HSP's successfully gapped: 21 Length of query: 357 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 271 Effective length of database: 1,212,660 Effective search space: 328630860 Effective search space used: 328630860 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: 131 (55.1 bits)