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= 0124.0008.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... 670 0.0 gi|300309416|ref|YP_003773508.1| two component sensor histidine ... 86 4e-18 gi|300311805|ref|YP_003775897.1| two component hybrid sensor his... 73 4e-14 gi|300313027|ref|YP_003777119.1| two component transmembrane sen... 72 8e-14 gi|300311768|ref|YP_003775860.1| PAS/PAC sensor hybrid histidine... 71 2e-13 >gi|300312426|ref|YP_003776518.1| nitrogen regulation (sensor histidine kinase) transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 366 Score = 670 bits (1728), Expect = 0.0, Method: Compositional matrix adjust. Identities = 331/357 (92%), Positives = 343/357 (96%) Query: 1 MKTTLPSLDGLDLLASAVIILDANGGIVYANAAAENLLESSFKVLSQQKLSELFLNGKEL 60 MKT PSL+GLDLLASAVIILDA GGIVYANAAAENLLESSFKVLSQQKLSELFLNGKEL Sbjct: 10 MKTPFPSLEGLDLLASAVIILDAEGGIVYANAAAENLLESSFKVLSQQKLSELFLNGKEL 69 Query: 61 ATLFYQAVEHQFADKRLDLVLERVGREPLQVHTIVTALDNADTPVLLELRENVQQLKLDR 120 + LFYQA+EHQFADKRLDLVLER REPLQVHTIVT LDN D PVLLELRENVQQLKLDR Sbjct: 70 SALFYQAIEHQFADKRLDLVLERANREPLQVHTIVTPLDNPDMPVLLELRENVQQLKLDR 129 Query: 121 EERLLDQSQANKELIRNLAHEIKNPLGGIRGAAQLLELELPERHLKELREYTQVIIKEAD 180 EER+ DQSQANKELIRNLAHEIKNPLGGIRGAAQLLELELPERHLKELREYTQVIIKEAD Sbjct: 130 EERIFDQSQANKELIRNLAHEIKNPLGGIRGAAQLLELELPERHLKELREYTQVIIKEAD 189 Query: 181 RLQTLVDRLLAPHRRPHIVGDVNIHEVCERVRSLILAEFPHGLTIKRDYDLSIPEFRGDK 240 RLQTLVDRLLAPHR PHIVGDVNIHEVCERVRSL++AEFP GLTIKRDYDLSIPEFRGDK Sbjct: 190 RLQTLVDRLLAPHRHPHIVGDVNIHEVCERVRSLVMAEFPQGLTIKRDYDLSIPEFRGDK 249 Query: 241 EQLIQALLNIVHNAAQALAERIRAGDGELILQTRVTRQVTLAKVRYRLALDLHIIDNGPG 300 EQLIQA+LNIVHNAAQALA+RIRAGDGELIL+TRV+RQVTL+KVRYRLALDLHIIDNGPG Sbjct: 250 EQLIQAVLNIVHNAAQALADRIRAGDGELILRTRVSRQVTLSKVRYRLALDLHIIDNGPG 309 Query: 301 ISPDIQDRIFYPLVSGREGGSGLGLTLAQTFVQQHMGVIECESRPGCTDFRILIPLP 357 I PDIQDRIFYPLVSGREGGSGLGLTLAQTFV QHMGVIEC+SRPGCTDFRILIPLP Sbjct: 310 IPPDIQDRIFYPLVSGREGGSGLGLTLAQTFVHQHMGVIECDSRPGCTDFRILIPLP 366 >gi|300309416|ref|YP_003773508.1| two component sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 760 Score = 85.9 bits (211), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 72/236 (30%), Positives = 122/236 (51%), Gaps = 14/236 (5%) Query: 127 QSQANKELIRNLAHEIKNPLGGIRGAAQLLELELPERHLKE----LREYTQVIIKEADRL 182 +S A E+ R LAHEIKNPL I+ +A+ L+ L ++ + L + T I+ + + Sbjct: 522 RSIAWGEVARRLAHEIKNPLTPIQLSAERLQHRLSDKLMPADAAILDKGTTTIVNQVTAM 581 Query: 183 QTLVDRLLAPHRRPHIVG-DVNIHEVCERVRSLILAEFPHGLTIKRDYDLSIPEFRGDKE 241 + +VD R P ++++ + E + +L LA I S+ + GD Sbjct: 582 KRMVDDFRDYARTPPAKPVALDLNALIEEILNLYLAGDGRD-AIHARLAPSMAKVMGDAT 640 Query: 242 QLIQALLNIVHNAAQALAERIRAGDGELILQTRV-TRQVTLAKV--RYRLALDLHIIDNG 298 QL Q + N++ NA A+A+ +GE+ + V T Q+ +A + + A+ L I+DNG Sbjct: 641 QLRQVIHNLLQNAQDAVAD-----EGEVAPRIDVLTEQIDIAGADGQRQPAVRLSIMDNG 695 Query: 299 PGISPDIQDRIFYPLVSGREGGSGLGLTLAQTFVQQHMGVIECESRPGCTDFRILI 354 PG S I R F P V+ + G+GLGL + + V++H G I+ ++R +I+I Sbjct: 696 PGFSAKILARAFEPYVTSKSKGTGLGLAMVKKIVEEHGGRIDIQNRTDGRGAKIVI 751 >gi|300311805|ref|YP_003775897.1| two component hybrid sensor histidine kinase/response regulator protein [Herbaspirillum seropedicae SmR1] Length = 1278 Score = 72.8 bits (177), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 75/247 (30%), Positives = 111/247 (44%), Gaps = 26/247 (10%) Query: 123 RLLDQSQANKELIRNLAHEIKNPLGGIRGAAQLLELE--LPERHLKELREYTQVIIKEAD 180 R + + +A +L +AH+ N L I G QLL+ + L ER R+ ++ I D Sbjct: 718 RQMQKMEAVGQLTGGVAHDFNNVLQIIGGNLQLLQSDPRLDERS----RQRVRIAIGAVD 773 Query: 181 RLQTLVDRLLAPHRR-PHIVGDVNIHEVCERVRSLILAEFPHGLTIKRDYDLSIPEFRGD 239 R L +LLA RR P +N+ V + + L+ + I + D Sbjct: 774 RGAKLSSQLLAFARRQPLQPRSINLERVVQNMDDLLRRAVGENIDISTRVAHDLWNTMLD 833 Query: 240 KEQLIQALLNIVHNAAQALAERIRAGDGELILQTRVTR--------QVTLAKVRYRLALD 291 Q+ ++N NA A+ G L +Q R Q LA Y ++ Sbjct: 834 PNQVENLIINTAINARDAMPS-----GGRLTVQIDNVRLEDPVFLSQADLAPGEY---VE 885 Query: 292 LHIIDNGPGISPDIQDRIFYPLVSGR-EG-GSGLGLTLAQTFVQQHMGVIECESRPG-CT 348 L I DNG G+SP+++DR F P + + EG G+GLGL++A FV+Q G I S G T Sbjct: 886 LQISDNGAGMSPEVRDRAFEPFFTTKLEGEGTGLGLSMAYGFVKQSKGHISIHSEQGKGT 945 Query: 349 DFRILIP 355 RI P Sbjct: 946 TIRIYFP 952 >gi|300313027|ref|YP_003777119.1| two component transmembrane sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 454 Score = 71.6 bits (174), Expect = 8e-14, Method: Compositional matrix adjust. Identities = 72/289 (24%), Positives = 124/289 (42%), Gaps = 56/289 (19%) Query: 108 ELRENVQQLKLDREERLLDQSQAN-KELIRNLAHEIKNPLGGIRG--------AAQLLE- 157 E R+ ++QLK+ + + + + A+ +L +AHEI NP+G + A LLE Sbjct: 163 EQRKLIEQLKMAQAQLMQSEKLASIGQLAAGVAHEINNPIGFVSANLNTLGNYVATLLEG 222 Query: 158 -------------LELPERHLKELREYTQVIIKEADRLQTLVDRLLAPHRRPHIV----- 199 + + L+ + D + L + R +IV Sbjct: 223 IQLHQCLQGGALPAAMAQEQLRSFEARADLAFLSEDVTELLAESNEGLQRVRNIVQSLKD 282 Query: 200 ----GDVN-----IHEVCERVRSLILAEFPHGLTIKRDYDLSIPEFRGDKEQLIQALLNI 250 G+ N +H + ++ E + ++I + Y +P + +L Q +N+ Sbjct: 283 FSRIGESNWQMTDLHRGLDSTLNIANNELKYKVSIVKQYG-ELPLVKCLASELNQVFMNL 341 Query: 251 VHNAAQALAERIRAGDGELILQTRVTRQVTLAKVRYRLALDLHIIDNGPGISPDIQDRIF 310 + NAAQA++ER VT+ R + + I D G GI+P+ +RIF Sbjct: 342 LVNAAQAISER---------------GTVTICTARAGDKVSVSISDTGHGIAPENLNRIF 386 Query: 311 YPLVSGRE--GGSGLGLTLAQTFVQQHMGVIECESRPGC-TDFRILIPL 356 P + + G+GLGL+L+ V++H G I S PGC T F I +P+ Sbjct: 387 EPFFTTKPVGSGTGLGLSLSYGIVKKHGGDIRVSSAPGCGTTFTIELPI 435 >gi|300311768|ref|YP_003775860.1| PAS/PAC sensor hybrid histidine kinase [Herbaspirillum seropedicae SmR1] Length = 552 Score = 70.9 bits (172), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 73/258 (28%), Positives = 120/258 (46%), Gaps = 20/258 (7%) Query: 114 QQLKLDRE---ERLLDQS---QANKELIRNLAHEIKNPLGGIRGAAQLLELEL--PERHL 165 QL + R E+ L Q+ +A +L +AH+ N L I G ++ L L + L Sbjct: 153 SQLDISRRRDAEQALGQARKMEALGQLTGGIAHDFNNLLQVITGYLDMINLALRSDKPDL 212 Query: 166 KELREYTQVIIKEADRLQTLVDRLLAPHRRPHIVG-DVNIHEVCERVRSLILAEFPHGLT 224 + I K + + L +LLA R+ + G +N++ + E L+ +T Sbjct: 213 ARVARSADSIRKASGKAAMLTQQLLAFARKQRLEGRTINLNSLTEGFTDLVSRTLGGDIT 272 Query: 225 IKRDYDLSIPEFRGDKEQLIQALLNIVHNAAQALAER----IRAGDGELILQTRVTRQVT 280 ++ + + R D Q+ ALLN++ NA A+ R IR + +L R Q+ Sbjct: 273 VQTELARGLWNCRLDPTQMEVALLNVLINARDAMNGRGRVRIRTANEDLADPDRAV-QLG 331 Query: 281 LAKVRYRLALDLHIIDNGPGISPDIQDRIFYPLVSGR-EG-GSGLGLTLAQTFVQQHMGV 338 L + Y + + + D+GPGI+PDI R+ P + + EG G+GLGL++ FV+Q G Sbjct: 332 LKEGLY---VSIAVTDDGPGIAPDILPRVMDPFFTTKDEGKGTGLGLSMVYGFVKQSGGS 388 Query: 339 IECESRP-GCTDFRILIP 355 + S G T I P Sbjct: 389 VRITSGAEGGTTVTIYFP 406 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 0.390 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: 1,073,334 Number of extensions: 44781 Number of successful extensions: 249 Number of sequences better than 1.0e-08: 18 Number of HSP's gapped: 239 Number of HSP's successfully gapped: 18 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)