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= 0001.3096.p (366 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... 708 0.0 gi|300309416|ref|YP_003773508.1| two component sensor histidine ... 81 1e-16 gi|300311768|ref|YP_003775860.1| PAS/PAC sensor hybrid histidine... 69 8e-13 gi|300311805|ref|YP_003775897.1| two component hybrid sensor his... 68 1e-12 gi|300309882|ref|YP_003773974.1| multi-sensor hybrid histidine k... 67 2e-12 >gi|300312426|ref|YP_003776518.1| nitrogen regulation (sensor histidine kinase) transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 366 Score = 708 bits (1828), Expect = 0.0, Method: Compositional matrix adjust. Identities = 352/366 (96%), Positives = 358/366 (97%) Query: 1 MNPGLTHSTMKTALPSLDGLDLLASAVIILDAKGGIVYANAAAENLLESSFKVLSQQKLS 60 MNPG + MKT PSL+GLDLLASAVIILDA+GGIVYANAAAENLLESSFKVLSQQKLS Sbjct: 1 MNPGSPTTAMKTPFPSLEGLDLLASAVIILDAEGGIVYANAAAENLLESSFKVLSQQKLS 60 Query: 61 ELFLNGKELTALFYQAIEHQFADKRLDLVLERANREPLQVHTIVTPLDSLDMPVLLELRE 120 ELFLNGKEL+ALFYQAIEHQFADKRLDLVLERANREPLQVHTIVTPLD+ DMPVLLELRE Sbjct: 61 ELFLNGKELSALFYQAIEHQFADKRLDLVLERANREPLQVHTIVTPLDNPDMPVLLELRE 120 Query: 121 NVQQLKLDREERMFDQSQANKELIRNLAHEIKNPLGGIRGAAQLLELELPERHLKELREY 180 NVQQLKLDREER+FDQSQANKELIRNLAHEIKNPLGGIRGAAQLLELELPERHLKELREY Sbjct: 121 NVQQLKLDREERIFDQSQANKELIRNLAHEIKNPLGGIRGAAQLLELELPERHLKELREY 180 Query: 181 TQVIIKEADRLQTLVDRLLAPHRHPHIVGDVNIHEVCERVRSLVMAEFPQGLTIKRDYDL 240 TQVIIKEADRLQTLVDRLLAPHRHPHIVGDVNIHEVCERVRSLVMAEFPQGLTIKRDYDL Sbjct: 181 TQVIIKEADRLQTLVDRLLAPHRHPHIVGDVNIHEVCERVRSLVMAEFPQGLTIKRDYDL 240 Query: 241 SIPEFRGDKEQLIQAVLNIVHNAAQALADRIRAGDAELILRTRVSRQVTLSKVRYRLALD 300 SIPEFRGDKEQLIQAVLNIVHNAAQALADRIRAGD ELILRTRVSRQVTLSKVRYRLALD Sbjct: 241 SIPEFRGDKEQLIQAVLNIVHNAAQALADRIRAGDGELILRTRVSRQVTLSKVRYRLALD 300 Query: 301 LHIIDNGPGIPPDIQDRIFYPLVSGREGGSGLGLTLAQTFVHQHMGVIECDSRPGCTDFR 360 LHIIDNGPGIPPDIQDRIFYPLVSGREGGSGLGLTLAQTFVHQHMGVIECDSRPGCTDFR Sbjct: 301 LHIIDNGPGIPPDIQDRIFYPLVSGREGGSGLGLTLAQTFVHQHMGVIECDSRPGCTDFR 360 Query: 361 ILIPLP 366 ILIPLP Sbjct: 361 ILIPLP 366 >gi|300309416|ref|YP_003773508.1| two component sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 760 Score = 81.3 bits (199), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 72/240 (30%), Positives = 120/240 (50%), Gaps = 18/240 (7%) Query: 136 QSQANKELIRNLAHEIKNPLGGIRGAAQLLELELPERHLKE----LREYTQVIIKEADRL 191 +S A E+ R LAHEIKNPL I+ +A+ L+ L ++ + L + T I+ + + Sbjct: 522 RSIAWGEVARRLAHEIKNPLTPIQLSAERLQHRLSDKLMPADAAILDKGTTTIVNQVTAM 581 Query: 192 QTLVDRLLAPHRHPH---IVGDVNIHEVCERVRSLVMAEFPQGLTIKRDYDLSIPEFRGD 248 + +VD R P + D+N + E + +L +A + I S+ + GD Sbjct: 582 KRMVDDFRDYARTPPAKPVALDLN--ALIEEILNLYLAGDGRD-AIHARLAPSMAKVMGD 638 Query: 249 KEQLIQAVLNIVHNAAQALADRIRAGDAELILRTRV-SRQVTLSKV--RYRLALDLHIID 305 QL Q + N++ NA A+AD + E+ R V + Q+ ++ + + A+ L I+D Sbjct: 639 ATQLRQVIHNLLQNAQDAVAD-----EGEVAPRIDVLTEQIDIAGADGQRQPAVRLSIMD 693 Query: 306 NGPGIPPDIQDRIFYPLVSGREGGSGLGLTLAQTFVHQHMGVIECDSRPGCTDFRILIPL 365 NGPG I R F P V+ + G+GLGL + + V +H G I+ +R +I+I L Sbjct: 694 NGPGFSAKILARAFEPYVTSKSKGTGLGLAMVKKIVEEHGGRIDIQNRTDGRGAKIVILL 753 >gi|300311768|ref|YP_003775860.1| PAS/PAC sensor hybrid histidine kinase [Herbaspirillum seropedicae SmR1] Length = 552 Score = 68.6 bits (166), Expect = 8e-13, Method: Compositional matrix adjust. Identities = 67/237 (28%), Positives = 108/237 (45%), Gaps = 14/237 (5%) Query: 138 QANKELIRNLAHEIKNPLGGIRGAAQLLELEL--PERHLKELREYTQVIIKEADRLQTLV 195 +A +L +AH+ N L I G ++ L L + L + I K + + L Sbjct: 174 EALGQLTGGIAHDFNNLLQVITGYLDMINLALRSDKPDLARVARSADSIRKASGKAAMLT 233 Query: 196 DRLLAPHRHPHIVG-DVNIHEVCERVRSLVMAEFPQGLTIKRDYDLSIPEFRGDKEQLIQ 254 +LLA R + G +N++ + E LV +T++ + + R D Q+ Sbjct: 234 QQLLAFARKQRLEGRTINLNSLTEGFTDLVSRTLGGDITVQTELARGLWNCRLDPTQMEV 293 Query: 255 AVLNIVHNAAQALADR----IRAGDAELILRTRVSRQVTLSKVRYRLALDLHIIDNGPGI 310 A+LN++ NA A+ R IR + +L R V L ++ L + + + D+GPGI Sbjct: 294 ALLNVLINARDAMNGRGRVRIRTANEDL---ADPDRAVQLG-LKEGLYVSIAVTDDGPGI 349 Query: 311 PPDIQDRIFYPLVSGR-EG-GSGLGLTLAQTFVHQHMGVIECDSRP-GCTDFRILIP 364 PDI R+ P + + EG G+GLGL++ FV Q G + S G T I P Sbjct: 350 APDILPRVMDPFFTTKDEGKGTGLGLSMVYGFVKQSGGSVRITSGAEGGTTVTIYFP 406 >gi|300311805|ref|YP_003775897.1| two component hybrid sensor histidine kinase/response regulator protein [Herbaspirillum seropedicae SmR1] Length = 1278 Score = 68.2 bits (165), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 71/248 (28%), Positives = 108/248 (43%), Gaps = 28/248 (11%) Query: 132 RMFDQSQANKELIRNLAHEIKNPLGGIRGAAQLLELE--LPERHLKELREYTQVIIKEAD 189 R + +A +L +AH+ N L I G QLL+ + L ER R+ ++ I D Sbjct: 718 RQMQKMEAVGQLTGGVAHDFNNVLQIIGGNLQLLQSDPRLDERS----RQRVRIAIGAVD 773 Query: 190 RLQTLVDRLLA-PHRHPHIVGDVNIHEVCERVRSLVMAEFPQGLTIKRDYDLSIPEFRGD 248 R L +LLA R P +N+ V + + L+ + + I + D Sbjct: 774 RGAKLSSQLLAFARRQPLQPRSINLERVVQNMDDLLRRAVGENIDISTRVAHDLWNTMLD 833 Query: 249 KEQLIQAVLNIVHNAAQALA---------DRIRAGDAELILRTRVSRQVTLSKVRYRLAL 299 Q+ ++N NA A+ D +R D + Q L+ Y + Sbjct: 834 PNQVENLIINTAINARDAMPSGGRLTVQIDNVRLEDPVFL------SQADLAPGEY---V 884 Query: 300 DLHIIDNGPGIPPDIQDRIFYPLVSGR-EG-GSGLGLTLAQTFVHQHMGVIECDSRPG-C 356 +L I DNG G+ P+++DR F P + + EG G+GLGL++A FV Q G I S G Sbjct: 885 ELQISDNGAGMSPEVRDRAFEPFFTTKLEGEGTGLGLSMAYGFVKQSKGHISIHSEQGKG 944 Query: 357 TDFRILIP 364 T RI P Sbjct: 945 TTIRIYFP 952 >gi|300309882|ref|YP_003773974.1| multi-sensor hybrid histidine kinase [Herbaspirillum seropedicae SmR1] Length = 845 Score = 67.0 bits (162), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 70/245 (28%), Positives = 107/245 (43%), Gaps = 33/245 (13%) Query: 138 QANKELIRNLAHEIKNPLGGIRGAAQLLELELPERHLKELREYTQVIIKEADRLQTLVDR 197 +A +L LAH+ N LGGI G+ L+ + L + +EL Y ++ + R +L R Sbjct: 466 EAIGQLTGGLAHDFNNLLGGISGSLDLMRVRLVQGRGEELLRYVELAARSTQRAASLTQR 525 Query: 198 LLAPHRHPHIVGDVNIHEVCERVRSLV--MAEFPQGLTIKRDYDLSI-----------PE 244 LLA R + RV +L+ M E I+R +I P Sbjct: 526 LLAFARRQTLAPKPT------RVNALISGMEEL-----IRRTIGPAIVLEVVGAGGLWPT 574 Query: 245 FRGDKEQLIQAVLNIVHNAAQAL--ADRIRAGDAELILRTRVSRQVTLSKVRYRLALDLH 302 F D QL A+LN+ NA A+ R+ A L R + + L +Y + + Sbjct: 575 FV-DGPQLESALLNLCINARDAMPGGGRLTIETANKWLDDRWAHERDLPPGQY---VCIS 630 Query: 303 IIDNGPGIPPDIQDRIFYPLVSGRE--GGSGLGLTLAQTFVHQHMGVIECDSRPG-CTDF 359 + D+G G+PPD+ R F P + + G+GLGL++ F Q G + S G T Sbjct: 631 VTDSGVGMPPDVLARAFDPFFTTKPIGAGTGLGLSMVYGFARQSGGQVRLYSEVGQGTTV 690 Query: 360 RILIP 364 I +P Sbjct: 691 SIYLP 695 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 0.139 0.393 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: 1,028,072 Number of extensions: 39326 Number of successful extensions: 235 Number of sequences better than 1.0e-08: 17 Number of HSP's gapped: 232 Number of HSP's successfully gapped: 17 Length of query: 366 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 280 Effective length of database: 1,212,660 Effective search space: 339544800 Effective search space used: 339544800 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)