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= 0001.0059.p (475 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311514|ref|YP_003775606.1| two component sensor histidine ... 539 e-154 gi|300313895|ref|YP_003777987.1| two-component system sensor his... 108 8e-25 gi|300313829|ref|YP_003777921.1| sensor histidine kinase [Herbas... 103 4e-23 gi|300310848|ref|YP_003774940.1| two component sensor histidine ... 102 6e-23 gi|300311468|ref|YP_003775560.1| oxidative stress resistance two... 100 4e-22 >gi|300311514|ref|YP_003775606.1| two component sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 473 Score = 539 bits (1389), Expect = e-154, Method: Compositional matrix adjust. Identities = 290/474 (61%), Positives = 362/474 (76%), Gaps = 23/474 (4%) Query: 1 VGRLFWKFFFFIMVAQLTATIGVGIMFSLENRERDRRTSDLDQSPPAAFMIRSAAATLQY 60 +GRLFWKFFFFI +AQ+TAT GVG++F +EN ER R S++D SPPA+FMIRSAAATLQ+ Sbjct: 1 MGRLFWKFFFFIAIAQITATFGVGVLFWVENLERSNRNSEIDLSPPASFMIRSAAATLQF 60 Query: 61 GGTEALRKLVLNSERHH---VYAVDEQQHELLGREVHPRLIEEARTLLGAEKQETRRRVV 117 GGTEALR L+ N R H +YA+DE +L+GREV P+L+E+A+ +L E++ VV Sbjct: 61 GGTEALRSLI-NEGRPHRLQLYALDEDNKDLMGREVSPKLVEQAKHILATERERR---VV 116 Query: 118 EEVKAADGHTYLLFLPSPVNPEFG-------GPPPHE--ERGPRRMQPPPFFFPMMPMLV 168 E VKA +GH+YL+F+P+P N EFG PH ERGP+ M FFP MP++V Sbjct: 117 ERVKAPNGHSYLMFIPAP-NDEFGPGGPPGGAREPHRIGERGPKSM-----FFPTMPIVV 170 Query: 169 ATVASLFFAMLLAWYFSQPIRLLKSAFARASSGNLNDRLAPQMGKRNDELTDLGRDFDGM 228 A +ASL FA+LLAWYFS PI LK+AF +A++GNL+ L P M RNDEL DLGRDFD M Sbjct: 171 ALLASLVFALLLAWYFSHPIGHLKNAFNQAANGNLDLELEPVMSARNDELADLGRDFDVM 230 Query: 229 TDKLRALMDSQRRLLHDVSHELRSPIARLQASIGLARLQ-PEKTAATLERIEREGVRMDK 287 T KLR LM+SQRRLLHDVSHELRSPIARLQ +IGLAR+Q +K TLERIERE VRMDK Sbjct: 231 TAKLRTLMESQRRLLHDVSHELRSPIARLQVAIGLARVQDKDKLDLTLERIERESVRMDK 290 Query: 288 LVGELLTLSRLETGVTGAMEDHIRMEDLLTEIIDDARFEAEAVDRHIEGMVRCDVVIKGG 347 LVGELLTLSRLE V G+ME+ I +E +L ++I+DA FEAEA+ +H++ + C V +KG Sbjct: 291 LVGELLTLSRLEANVPGSMEEPIAIEAMLGDMINDASFEAEAIGKHVDDQLDCRVQVKGN 350 Query: 348 AELLYRAIENVVRNAIKQTAVDTTIAINTQVDKDRQSLLVSVIDHGPGVPEEELQLIFEP 407 ELLYRAIENV+RNAIK TA TT+ I+TQ+D+ + L +S++D GPGVPEEE+ IFE Sbjct: 351 PELLYRAIENVLRNAIKHTAPGTTVQIHTQLDEINKLLHLSILDRGPGVPEEEMNSIFEL 410 Query: 408 FFRSSRTRENSNGYGLGLTIARRIIEAHGGRIRAFNRVDGGLCVDIILPYDAIE 461 FFRSSRT+ NS+G+GLGL+IARRI+EAH G I+A NR +GGL VDI LP+ A E Sbjct: 411 FFRSSRTKSNSSGHGLGLSIARRIVEAHQGFIQAANRSNGGLRVDITLPFMADE 464 >gi|300313895|ref|YP_003777987.1| two-component system sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 475 Score = 108 bits (271), Expect = 8e-25, Method: Compositional matrix adjust. Identities = 91/310 (29%), Positives = 149/310 (48%), Gaps = 15/310 (4%) Query: 153 RMQPPPFFFPMMPMLVATVASLFFAMLLAWYFSQPIRLLKSAFARASSGNLNDRLAPQMG 212 R Q F ++ +VA + + F + ++ ++P+ + A R +SG+ R+ + G Sbjct: 165 RFQQSQFAAQIIIAVVAVMLAAFLVVRISGVLTRPLTRVARATHRLASGDYAIRVEVESG 224 Query: 213 KRNDELTDLGRDFDGMTDKLRALMDSQRRLLHDVSHELRSPIARLQASIGLAR---LQPE 269 DE+ L +DF+ + L +R + DVSHELR+P+A L + LQP+ Sbjct: 225 ---DEVGMLAQDFNQLAMTLERNEKLRREFMADVSHELRTPLAILNGQLEALEDGVLQPD 281 Query: 270 KTAATLERIEREGVRMDKLVGELLTLSRLETGVTGAMEDHIRMEDLL--TEIIDDARFEA 327 A TL ++ E ++KLVG+L LS + G I + LL + + RF Sbjct: 282 --AQTLRSLKSEVEHLNKLVGDLYDLSLADAGALTYRRADIDLAPLLRDSAALYSDRFSQ 339 Query: 328 EAVDRHIEGMVRCDVVIKGGAELLYRAIENVVRNAIKQTAVDTTIAINTQVDKDRQSLLV 387 + E + + + G A L + + N+ N+++ T + ++ + + L+ Sbjct: 340 RGMRLSCE--LPASMPVHGDAARLQQLLSNLFENSLRYTDAGGRLQVHAHLQQQHWHLVF 397 Query: 388 SVIDHGPGVPEEELQLIFEPFFRSSRTREN-SNGYGLGLTIARRIIEAHGGRIRAFNRVD 446 D PGVP E + +FE FFR +R S G GLGL I RRI++AH G I A Sbjct: 398 D--DSEPGVPPEVMARLFERFFRVEASRNRASGGAGLGLAICRRIVDAHQGTIGASASPL 455 Query: 447 GGLCVDIILP 456 GGL V ++LP Sbjct: 456 GGLRVVVVLP 465 >gi|300313829|ref|YP_003777921.1| sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 478 Score = 103 bits (256), Expect = 4e-23, Method: Compositional matrix adjust. Identities = 78/257 (30%), Positives = 126/257 (49%), Gaps = 32/257 (12%) Query: 209 PQMGKRNDELTDLGRDFDGMTDKLRALMDSQRRLLHDVSHELRSPIARLQASIGLARLQP 268 P+ G R E R F GM ++++ ++ + RL +SH+LR+PI RL+ Sbjct: 243 PETGSR--EYVKTARAFSGMRERIKRYLEDRERLFVSISHDLRTPITRLKLRT------- 293 Query: 269 EKTAATLERIEREGVRMDKLVGELLTLSRLETGVTGAMED--------HIRMEDLLTEII 320 E ++ + +R D +L L + G +++D +R++ L+ +I Sbjct: 294 -------ELMDDDAMRTD-FHDDLDELDMMVKGALQSVKDSDIHENRTEVRLDALVLRMI 345 Query: 321 DDARFEAEAVDRHIEGMVRCDVVIKGGAELLYRAIENVVRNAIKQTAVDTTIAINTQVDK 380 DAR + G+ +V+ K A L RAI N+ NA+ I+I Sbjct: 346 RDARLAGHEIAFTPSGI---NVIAKPLA--LKRAIGNLFDNALYY-GQKVEISIRPSPGA 399 Query: 381 DRQSLLVSVIDHGPGVPEEELQLIFEPFFRSSRTR-ENSNGYGLGLTIARRIIEAHGGRI 439 + + + + DHGPGVPE+ + +F+P+ R R +NS G GLGL I+R I++AHGG + Sbjct: 400 EGDLVEIEIRDHGPGVPEDAMGTLFQPYVRLEHGRAQNSGGMGLGLGISRNIVQAHGGEL 459 Query: 440 RAFNRVDGGLCVDIILP 456 N +GGL IILP Sbjct: 460 LLRNHPEGGLMATIILP 476 >gi|300310848|ref|YP_003774940.1| two component sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 465 Score = 102 bits (255), Expect = 6e-23, Method: Compositional matrix adjust. Identities = 99/323 (30%), Positives = 161/323 (49%), Gaps = 34/323 (10%) Query: 141 GGPPPHEER-GPRRMQPPPFFFPMMPMLVATVASLFFAMLLAWYFSQPIRLLKSAFARAS 199 G PP R GP P F + +L+ V A L+A ++PIR L A +R Sbjct: 162 GEPPALRARAGP---GGPASLFGLQYILLFLVLIAMLAWLVARMATRPIRQLAQAASRLG 218 Query: 200 SGNLNDRLAPQMGKRNDELTDLGRDFDGMTDKLRALMDSQRRLLHDVSHELRSPIARLQA 259 S + AP E+ F+ M ++R + + +L ++H+L++P+ R+ Sbjct: 219 S---DIDHAPLAETGPTEIRQAAHAFNAMQARIRRQIQHRTHMLAAITHDLQTPLTRM-- 273 Query: 260 SIGLARLQPEKTA---ATLERIEREGVRMDKLVGELLTLSRLETGVTGAMEDHIRMEDLL 316 RL+ EK + + I+ GV M +V E L L+R + + + ++ LL Sbjct: 274 -----RLRLEKVSDPGLQQKLIDDLGV-MHGMVREGLDLAR--SMDSSEKIQALDIDSLL 325 Query: 317 TEIIDDARFEAEAVDRHIEGMVRCDVVIKGGAELLYRAIENVVRNAIKQ-TAVDTTIAIN 375 + DA + D ++G R V+ + GA L R + N++ NA K + +IA+ Sbjct: 326 DSVCADAADAGQ--DVALQGSTRAFVMAQPGA--LRRCLTNLIDNACKYGKSARVSIAL- 380 Query: 376 TQVDKDRQSLLVSVIDHGPGVPEEELQLIFEPFFR--SSRTRENSNGYGLGLTIARRIIE 433 ++Q + + + D GPG+PE EL+ +FEPF+R +SR+R+ + G GLGLTIA I E Sbjct: 381 -----EQQKIAIRIRDQGPGIPESELEAVFEPFYRLEASRSRD-TGGTGLGLTIALNIAE 434 Query: 434 AHGGRIRAFNRVDGGLCVDIILP 456 H G++R N +GGL V + LP Sbjct: 435 NHHGQLRLRNLAEGGLEVLLELP 457 >gi|300311468|ref|YP_003775560.1| oxidative stress resistance two component transmembrane sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 455 Score = 100 bits (248), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 82/295 (27%), Positives = 141/295 (47%), Gaps = 21/295 (7%) Query: 168 VATVASLFFAMLLAWYFSQPIRLLKSAFARASSGNLNDRLAPQMGKRNDELTDLGRDFDG 227 +A SL A+ ++ +QP+ L +A + G + L P+ G E+ + R F+ Sbjct: 168 IALFLSLIGAVFISTLINQPLARLTAAARAIAKGRQPEPL-PESGP--TEIEEANRSFNQ 224 Query: 228 MTDKLRALMDSQRRLLHDVSHELRSPIARLQASIGLARLQPEKTAATLERIEREGVRMDK 287 M L + + +L +SH+LR+P+AR+Q + +A L E + + + +MD Sbjct: 225 MVADLNRIESDRALILAGISHDLRTPLARMQLEVEMANLSDEAR----DGMHSDLAQMDS 280 Query: 288 LVGELLTLSRLETGVTGAMEDHIRMEDLLTEIIDDARFEAEAVDRHIEGMVRCDVVIKGG 347 ++G+ L ++ T ++E I + D+L ++ +A + D + + D + G Sbjct: 281 IIGQFLDYAK--PFDTSSLET-IDLADVLQDVAGNA---SRLSDIRVHTQITPDTQVAGN 334 Query: 348 AELLYRAIENVVRNAIKQTAVDTT----IAINTQVDKDRQSLLVSVIDHGPGVPEEELQL 403 L R N+V NA + + T I I ++++ ++V V DHGPGVP E + Sbjct: 335 GTELARVFSNLVENARRYGKTEGTDCAEIDIRSRIEG--HQVVVEVADHGPGVPVNECER 392 Query: 404 IFEPFFRSSRTRENSNGYGLGLTIARRIIEAHGGR--IRAFNRVDGGLCVDIILP 456 + PF R R +NG GLGL I RI+ H G+ ++ GL V I LP Sbjct: 393 LLRPFTRLDTARGQANGSGLGLAIVNRIVLKHNGKLLLKGHEETRSGLLVQITLP 447 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 0.138 0.396 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: 1,321,127 Number of extensions: 52281 Number of successful extensions: 341 Number of sequences better than 1.0e-08: 39 Number of HSP's gapped: 288 Number of HSP's successfully gapped: 39 Length of query: 475 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 386 Effective length of database: 1,198,455 Effective search space: 462603630 Effective search space used: 462603630 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 (21.9 bits) S2: 132 (55.5 bits)