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= 0001.3645.p (453 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313027|ref|YP_003777119.1| two component transmembrane sen... 776 0.0 gi|300311805|ref|YP_003775897.1| two component hybrid sensor his... 147 2e-36 gi|300311617|ref|YP_003775709.1| PAS/PAC sensor hybrid histidine... 142 6e-35 gi|300313806|ref|YP_003777898.1| PAS/PAC HisKA ATPase_c domains ... 117 2e-27 gi|300309882|ref|YP_003773974.1| multi-sensor hybrid histidine k... 108 1e-24 >gi|300313027|ref|YP_003777119.1| two component transmembrane sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 454 Score = 776 bits (2005), Expect = 0.0, Method: Compositional matrix adjust. Identities = 378/454 (83%), Positives = 405/454 (89%), Gaps = 1/454 (0%) Query: 1 MGHYDALMASE-CARCCTVDGAPDIQALVKSNARYRHIIGNTPAIIYSSVPSGDFRLTFV 59 MGH D S+ C + APD AL+K+NARYRHIIGNTPAIIYSSVPSGDFRLTFV Sbjct: 1 MGHCDVFEVSQVCPLPAAKEEAPDFCALIKANARYRHIIGNTPAIIYSSVPSGDFRLTFV 60 Query: 60 SENASRVLGYEPQEMLDDPNFWFNHIHPDDTANIFSSLAMLFVEDQKIYEYRFRTRDGSY 119 SENASRVLGYEP EMLDDPNFWFNHIHPDDTA IFSSLAMLFVEDQKIYEYRFRT +GSY Sbjct: 61 SENASRVLGYEPCEMLDDPNFWFNHIHPDDTAQIFSSLAMLFVEDQKIYEYRFRTSNGSY 120 Query: 120 LWMHDTLRLIRDASGTPLEVIGLMTDITGRKQLEDALQCQAEEQRALIEQLKMAQAQLLQ 179 LWMHDTLRLIRD GTP EVIGLMTDITGRK++ED LQ QAEEQR LIEQLKMAQAQL+Q Sbjct: 121 LWMHDTLRLIRDPDGTPQEVIGLMTDITGRKEMEDTLQRQAEEQRKLIEQLKMAQAQLMQ 180 Query: 180 SEKLASIGQLAAGVAHEINNPIGFVNANLNTLGNYVATLLEGIKLYQCVAGGKLPSSVAQ 239 SEKLASIGQLAAGVAHEINNPIGFV+ANLNTLGNYVATLLEGI+L+QC+ GG LP+++AQ Sbjct: 181 SEKLASIGQLAAGVAHEINNPIGFVSANLNTLGNYVATLLEGIQLHQCLQGGALPAAMAQ 240 Query: 240 SELQSFEDRADLQFLSEDVTELLSESNEGLQRVKNIVQSLKDFSRTGESNWQMADLHRGL 299 +L+SFE RADL FLSEDVTELL+ESNEGLQRV+NIVQSLKDFSR GESNWQM DLHRGL Sbjct: 241 EQLRSFEARADLAFLSEDVTELLAESNEGLQRVRNIVQSLKDFSRIGESNWQMTDLHRGL 300 Query: 300 DSTLNIANNELKYKVNIVKQYGELPMVKCLASELNQVFMNLLVNAAQAISERGSVTIRTE 359 DSTLNIANNELKYKV+IVKQYGELP+VKCLASELNQVFMNLLVNAAQAISERG+VTI T Sbjct: 301 DSTLNIANNELKYKVSIVKQYGELPLVKCLASELNQVFMNLLVNAAQAISERGTVTICTA 360 Query: 360 RHGDRVAVSISDTGHGIAPEHINRIFEPFFTTKPVGSGTGLGLSLSYGIIKKHGGDIHVC 419 R GD+V+VSISDTGHGIAPE++NRIFEPFFTTKPVGSGTGLGLSLSYGI+KKHGGDI V Sbjct: 361 RAGDKVSVSISDTGHGIAPENLNRIFEPFFTTKPVGSGTGLGLSLSYGIVKKHGGDIRVS 420 Query: 420 SEPGQGTTFRIELPIDPASVQTPVGVMGEPGEAS 453 S PG GTTF IELPIDPASV GEAS Sbjct: 421 SAPGCGTTFTIELPIDPASVLAQSSATETSGEAS 454 >gi|300311805|ref|YP_003775897.1| two component hybrid sensor histidine kinase/response regulator protein [Herbaspirillum seropedicae SmR1] Length = 1278 Score = 147 bits (371), Expect = 2e-36, Method: Compositional matrix adjust. Identities = 126/431 (29%), Positives = 202/431 (46%), Gaps = 62/431 (14%) Query: 24 IQALVKSNARYRHIIGNTPAIIYSSVPSGDFRLTFVSENASRVLGYEPQEMLDDPNFWFN 83 +QAL S R R I N ++ +S + R V++ R+LG +EML + Sbjct: 563 LQALSWSENRLRAIF-NQASVCFSEL-DLQGRYLRVNQALCRMLGRSEEEMLG--MTLAD 618 Query: 84 HIHPDDTANIFSSLAMLFVEDQKIY--EYRFRTRDGSYLWMHDTLRLIRDASGTPLEVIG 141 HPDD + SL +ED + + E R+ DGS W+ + I D G P +I Sbjct: 619 VTHPDDVP-MNMSLFNRCIEDGRSFTLEKRYLRPDGSTFWVSSDISRIVDGEGRPQAMIA 677 Query: 142 LMTDITGRKQLEDALQCQAE--EQRALIEQLKM--AQAQLLQSEKLASIGQLAAGVAHEI 197 + TDIT R++ E+AL+ + EQR + E L+ A+A L Q +K+ ++GQL GVAH+ Sbjct: 678 VSTDITERRRAEEALRELNDTLEQRVVEEILERSRAEAALRQMQKMEAVGQLTGGVAHDF 737 Query: 198 NNPIGFVNANLNTLGNYVATLLEGIKLYQCVAGGKLPSSVAQSELQSFEDRADLQFLSED 257 NN + + NL L + + + G + S+L +F R LQ S + Sbjct: 738 NNVLQIIGGNLQLLQSDPRLDERSRQRVRIAIGAVDRGAKLSSQLLAFARRQPLQPRSIN 797 Query: 258 VTELLSESNEGLQRVKNIVQSLKDFSRTGESNWQMADLHRGLDSTLNIANNELKYKVNIV 317 ++ +VQ++ D R + +D + +A++ ++ Sbjct: 798 --------------LERVVQNMDDLLRRA--------VGENIDISTRVAHDLWNTMLD-- 833 Query: 318 KQYGELPMVKCLASELNQVFMNLLVNAAQAISERGSVTIRTER---------------HG 362 +++ + +N +NA A+ G +T++ + G Sbjct: 834 ------------PNQVENLIINTAINARDAMPSGGRLTVQIDNVRLEDPVFLSQADLAPG 881 Query: 363 DRVAVSISDTGHGIAPEHINRIFEPFFTTKPVGSGTGLGLSLSYGIIKKHGGDIHVCSEP 422 + V + ISD G G++PE +R FEPFFTTK G GTGLGLS++YG +K+ G I + SE Sbjct: 882 EYVELQISDNGAGMSPEVRDRAFEPFFTTKLEGEGTGLGLSMAYGFVKQSKGHISIHSEQ 941 Query: 423 GQGTTFRIELP 433 G+GTT RI P Sbjct: 942 GKGTTIRIYFP 952 >gi|300311617|ref|YP_003775709.1| PAS/PAC sensor hybrid histidine kinase response regulator protein [Herbaspirillum seropedicae SmR1] Length = 688 Score = 142 bits (358), Expect = 6e-35, Method: Compositional matrix adjust. Identities = 109/382 (28%), Positives = 170/382 (44%), Gaps = 74/382 (19%) Query: 85 IHPDD----TANIFSSLAMLFVEDQKIYEYRFRTRDGSYLWMHDTLRLIRDASGTPLEVI 140 +HPDD +A I +LA ++YR R RDG Y W+ R+ G P + Sbjct: 197 VHPDDRELLSARIREALAR---GGAYAHQYRTRRRDGRYYWLEANGRVEMTPDGIPSKFP 253 Query: 141 GLMTDITGRKQLE--------------DALQCQAEEQRALIEQLKMAQAQLLQSEKLASI 186 G++ DI GR+ +E + L+ + EE+ A L A+ L Q++K+ ++ Sbjct: 254 GVLIDIEGRRAVEAERDRALAALRTLNETLEQRVEERTA---ALLNAEEALRQAQKMEAV 310 Query: 187 GQLAAGVAHEINNPIGFVNANLNTLGNYVATLLEGIKLYQCVAGGKLPSSVAQSELQSFE 246 GQL G+AH+ NN + ++ +L L ++L Q G Sbjct: 311 GQLTGGLAHDFNNILAGISGSLE---------LMKVRLAQGRIG---------------- 345 Query: 247 DRADLQFLSEDVTELLSESNEGLQRVKNIVQSLKDFSRTGESNWQMADLHRGLDSTLNIA 306 D+ L+ + ++R + Q L FSR + + ADL+R + + Sbjct: 346 ----------DIERHLNGAQSAVKRAAALTQRLLAFSRRQTLDPKPADLNRIVAGMHELI 395 Query: 307 NNELKYKVNI-VKQYGELPMVKCLASELNQVFMNLLVNAAQAISERGSVTIRTERH---- 361 + + + G L ++ +NL +NA A+ G +TI T Sbjct: 396 GRSVGPAIAVETIAAGGLWHTFVDIGQMENALLNLCINARDAMPHGGRLTIETANRWLDD 455 Query: 362 ----------GDRVAVSISDTGHGIAPEHINRIFEPFFTTKPVGSGTGLGLSLSYGIIKK 411 G V++S+SDTG G++PE + R F+PFFTTKP G GTGLGLS+ YG + Sbjct: 456 IGALQRGVPPGQYVSLSVSDTGAGMSPEVVARAFDPFFTTKPTGQGTGLGLSMVYGFAGQ 515 Query: 412 HGGDIHVCSEPGQGTTFRIELP 433 GG + + SE GQG I LP Sbjct: 516 SGGTVRIYSELGQGAMVCIYLP 537 >gi|300313806|ref|YP_003777898.1| PAS/PAC HisKA ATPase_c domains containing sensor signal transduction histidine kinase [Herbaspirillum seropedicae SmR1] Length = 524 Score = 117 bits (293), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 117/440 (26%), Positives = 187/440 (42%), Gaps = 105/440 (23%) Query: 25 QALVKSNARYRHIIGNTPAIIYSSVPSGDFRLTFVSENASRVLGYEPQEMLDDPNFWFNH 84 Q L+K R+ H G+ ++ L + S+ R+ G P + Sbjct: 162 QELLKQGERFNHT-GSMRYLVRED-------LMYCSDELCRIYGLAPGRNCITYEEFAAI 213 Query: 85 IHPDDTANIF----SSLAM---LFVED----QKIYEYRFRTRDGSYLWMHDTLRLIRDAS 133 +HPDD + +++AM + VE Q E R+ + G +W RD Sbjct: 214 MHPDDRQEVVETVNAAVAMGGTIRVEHRICRQDTGEVRYLSGIGKPIW--------RD-- 263 Query: 134 GTPLEVIGLMTDITGRKQLEDALQCQAEEQRALIEQLKMAQAQLLQSEKLASIGQLAAGV 193 GT E +G TDIT R+Q E A+ + AQ + + + ++GQL A + Sbjct: 264 GTFTEYVGTATDITVRRQNEYAI--------------RAAQIDMERVSRANTVGQLTASI 309 Query: 194 AHEINNPIGFVNANLNTLGNYVATLLEGIKLYQCVAGGKLPSSVAQSELQSFEDRA--DL 251 AHEIN P+ + AN AG L + DR DL Sbjct: 310 AHEINQPLMSIVAN---------------------AGASL----------RWLDRPVPDL 338 Query: 252 QFLSEDVTELLSESNEGLQRVKNIVQSLKDFSRTGESNWQMADLHRGLDSTLNIANNELK 311 + + ++++E QR I+ L+D +R + +LH + L ++ +EL+ Sbjct: 339 EHARTGLRDIIAEG----QRAGGIISGLRDLTRNAAPVCERVNLHAVIRHILTLSRSELE 394 Query: 312 YKVNIVKQYGELPMVKCLAS----------ELNQVFMNLLVNAAQAIS---ERGSVTIRT 358 + E+ ++ L +L QV +NL+VNA +A+S E V T Sbjct: 395 RR--------EVSLLLSLTPADAFVLGDQVQLQQVMLNLVVNAIEAMSSMPEHARVLSIT 446 Query: 359 ERHGD--RVAVSISDTGHGIAPEHINRIFEPFFTTKPVGSGTGLGLSLSYGIIKKHGGDI 416 D R+ V + D+G GIAPE + R+F+ F+TTK SG G+GL++ II+ H G + Sbjct: 447 ASSCDEQRIEVKVQDSGEGIAPEAMRRVFDAFYTTK--DSGMGMGLAICRSIIENHRGRL 504 Query: 417 HVCSEPGQGTTFRIELPIDP 436 V + G F +LP P Sbjct: 505 RVAAAQPHGALFSFDLPRVP 524 >gi|300309882|ref|YP_003773974.1| multi-sensor hybrid histidine kinase [Herbaspirillum seropedicae SmR1] Length = 845 Score = 108 bits (269), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 92/343 (26%), Positives = 150/343 (43%), Gaps = 66/343 (19%) Query: 116 DGSYLWMHDTLRLIRDASGTPLEVIGLMTDITGRKQLEDALQCQAE----EQRALIEQLK 171 D +W + L ++R+ S + + + E L+ E E A +L Sbjct: 394 DAPRVWTENELAIVREVSERACAAFERIRNQRALAESEARLRAINESLEAEVSARTRELM 453 Query: 172 MAQAQLLQSEKLASIGQLAAGVAHEINNPIGFVNANLNTLGNYVATLLEGIKLYQCVAGG 231 + L S+K+ +IGQL G+AH+ NN +G ++ +L+ L ++L Q G Sbjct: 454 ATEEALRHSQKIEAIGQLTGGLAHDFNNLLGGISGSLD---------LMRVRLVQ----G 500 Query: 232 KLPSSVAQSELQSFEDRADLQFLSEDVTELLSESNEGLQRVKNIVQSLKDFSR------- 284 + E++ + + QR ++ Q L F+R Sbjct: 501 R----------------------GEELLRYVELAARSTQRAASLTQRLLAFARRQTLAPK 538 Query: 285 TGESNWQMADLHRGLDSTLNIANNELKYKVNIVKQYGELPMVKCLASELNQVFMNLLVNA 344 N ++ + + T+ A + +V G P +L +NL +NA Sbjct: 539 PTRVNALISGMEELIRRTIGPA-----IVLEVVGAGGLWPTF-VDGPQLESALLNLCINA 592 Query: 345 AQAISERGSVTIRT-----------ERH---GDRVAVSISDTGHGIAPEHINRIFEPFFT 390 A+ G +TI T ER G V +S++D+G G+ P+ + R F+PFFT Sbjct: 593 RDAMPGGGRLTIETANKWLDDRWAHERDLPPGQYVCISVTDSGVGMPPDVLARAFDPFFT 652 Query: 391 TKPVGSGTGLGLSLSYGIIKKHGGDIHVCSEPGQGTTFRIELP 433 TKP+G+GTGLGLS+ YG ++ GG + + SE GQGTT I LP Sbjct: 653 TKPIGAGTGLGLSMVYGFARQSGGQVRLYSEVGQGTTVSIYLP 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 0.317 0.134 0.388 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: 1,313,196 Number of extensions: 50795 Number of successful extensions: 303 Number of sequences better than 1.0e-08: 34 Number of HSP's gapped: 292 Number of HSP's successfully gapped: 34 Length of query: 453 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 365 Effective length of database: 1,203,190 Effective search space: 439164350 Effective search space used: 439164350 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: 132 (55.5 bits)