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= 0006.0001.p (492 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300314018|ref|YP_003778110.1| two component sensor histidine ... 897 0.0 gi|300313666|ref|YP_003777758.1| two component sensor histidine ... 91 2e-19 gi|300313895|ref|YP_003777987.1| two-component system sensor his... 88 2e-18 gi|300312677|ref|YP_003776769.1| two component hybrid sensor his... 87 3e-18 gi|300311751|ref|YP_003775843.1| signal transduction histidine k... 84 2e-17 >gi|300314018|ref|YP_003778110.1| two component sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 492 Score = 897 bits (2319), Expect = 0.0, Method: Compositional matrix adjust. Identities = 460/492 (93%), Positives = 476/492 (96%) Query: 1 MFNAIEHTHPPQSPAGRKPGYLGLSFRQLLLAAFLLIAALLSGTSIHALFTLDRMSANSR 60 M NAIEH P + R GYLGLSFRQLLLAAFLLIAALLSGTSIHALFTLDRMSANSR Sbjct: 1 MLNAIEHHPTPHAAPARPSGYLGLSFRQLLLAAFLLIAALLSGTSIHALFTLDRMSANSR 60 Query: 61 ETARQAVQLTESAQRLAERTVAMERSARQYLVLDDRAFHDRFNEAREQARQALGELSDSL 120 ETARQAVQLTE+AQRLAERTVAMERSARQYLVLDD AFHDRFNEAR+QARQALGEL+DSL Sbjct: 61 ETARQAVQLTEAAQRLAERTVAMERSARQYLVLDDPAFHDRFNEARDQARQALGELADSL 120 Query: 121 PMAPRDLFSQWGVYVDEAAGVLEAESRKDKGEQAKLFQDFARLPALNERIALESRREVDR 180 P APR++F QW VYVDEAAGVL+A+SRKDKGEQA+LFQDFARLPALNERIALESRREVDR Sbjct: 121 PKAPREMFGQWSVYVDEAAGVLDADSRKDKGEQARLFQDFARLPALNERIALESRREVDR 180 Query: 181 RNNALSAALEQQRQLLTAQVVGAIVLAVLLAFCFGLWLSRPMARLEQAIGRLGDNRFDQP 240 RNNALSAALEQQRQ+LTAQVVGAIVLAVLLAFCFGLWLSRPMARLEQAIGRLGDNRFDQP Sbjct: 181 RNNALSAALEQQRQMLTAQVVGAIVLAVLLAFCFGLWLSRPMARLEQAIGRLGDNRFDQP 240 Query: 241 IDVRGPADIRRLGQQLDWLRQRLADLEAEKSRFLRHVSHELKTPLAALCEGAALLDDGVA 300 IDVRGPADIRRLGQQLDWLRQRLADLEAEKSRFLRHVSHELKTPLAALCEGAALLDDGVA Sbjct: 241 IDVRGPADIRRLGQQLDWLRQRLADLEAEKSRFLRHVSHELKTPLAALCEGAALLDDGVA 300 Query: 301 GQLTENQREIARILRQNTQSLQTQIEDLLRYNEVSFDAQRIHPVPVDLRALLHKVIDDQR 360 GQLT++QREIARILRQNTQSLQTQIEDLLRYNEVSFDAQRIHPVPVDLRALLHKVIDDQR Sbjct: 301 GQLTDSQREIARILRQNTQSLQTQIEDLLRYNEVSFDAQRIHPVPVDLRALLHKVIDDQR 360 Query: 361 LQWLARELKVEIEGVARTVVVDPEKMAIVLANLLSNAVRFSPQGGFIRFLLSEAPGMVRV 420 LQWLARELKVEIEG ARTVVVDPEKMAIVLANLLSNAVRFSPQGGFIRFLLSEAPG+VRV Sbjct: 361 LQWLARELKVEIEGAARTVVVDPEKMAIVLANLLSNAVRFSPQGGFIRFLLSEAPGLVRV 420 Query: 421 ECLDQGPGVAPTDAARIFEPFYQGLHQPSGARRGNGIGLSVVREYVQAHSGKVYLVPREG 480 EC+DQGPGVAPTDAARIFEPFYQGL+QP+ ARRGNGIGLSVVREYVQAHSGKVYLVPREG Sbjct: 421 ECVDQGPGVAPTDAARIFEPFYQGLNQPTAARRGNGIGLSVVREYVQAHSGKVYLVPREG 480 Query: 481 GAHFRIELPDEK 492 GAHFRIELPDEK Sbjct: 481 GAHFRIELPDEK 492 >gi|300313666|ref|YP_003777758.1| two component sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 479 Score = 90.9 bits (224), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 83/288 (28%), Positives = 133/288 (46%), Gaps = 27/288 (9%) Query: 203 AIVLAVLLAFCFGLWLSRPMARLEQAIGRLGDNRFDQPIDVRGPADIRRLGQQLDWLRQR 262 A+VL +A + +P+ + +A +LG N P+ GP ++ Q + +++R Sbjct: 213 AVVLIAWMAVRLAM---KPLQVMAEAAEKLGGNIRSAPLATDGPLEVSTAAQAFNAMQRR 269 Query: 263 LADLEAEKSRFLRHVSHELKTPLAALCEGAALLDDGVAGQLTENQREIARILRQNTQSLQ 322 + D AE++RFL VSH+L++P+ + +L D E +E R++ + Sbjct: 270 IIDNIAERTRFLAAVSHDLRSPITRMKLRTEMLPD-------ERGKE---KFRKDLDEMD 319 Query: 323 TQIEDLLRYNEVSFDAQRIHPVPVDLRALLHKVIDDQRLQWLAREL--KVEIEGVARTVV 380 I L + D Q P +DL +LL + DQ E+ +V + G A + Sbjct: 320 ALISATLNVVQ-DIDVQE-RPQLIDLDSLLESLRTDQ------AEVGGEVTLSGHAAPLQ 371 Query: 381 VDPEKMAIVLANLLSNAVRFSPQGGFIRFLLSEAPGMVRVECLDQGPGVAPTDAARIFEP 440 P + L NL+ NAVR+ G R L + V + D GPG+ R+ EP Sbjct: 372 GYPRSLRRCLQNLVENAVRY---GQRARVQLQDDADQVCIRVDDDGPGIPEALLERVQEP 428 Query: 441 FYQGLHQPSGARRGNGIGLSVVREYVQAHSGKVYLVPREGGAHFRIEL 488 FY+ + G G+GLS+ VQAH G + LV R GG R+E+ Sbjct: 429 FYRLERSRNAGTGGFGLGLSIAATVVQAHRGVMKLVNRPGGG-LRVEI 475 >gi|300313895|ref|YP_003777987.1| two-component system sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 475 Score = 88.2 bits (217), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 79/289 (27%), Positives = 129/289 (44%), Gaps = 8/289 (2%) Query: 189 LEQQRQLLTAQVVGAIVLAVLLAFC---FGLWLSRPMARLEQAIGRLGDNRFDQPIDVRG 245 L Q+ AQ++ A+V +L AF L+RP+ R+ +A RL + ++V Sbjct: 164 LRFQQSQFAAQIIIAVVAVMLAAFLVVRISGVLTRPLTRVARATHRLASGDYAIRVEVES 223 Query: 246 PADIRRLGQQLDWLRQRLADLEAEKSRFLRHVSHELKTPLAALCEGAALLDDGVAGQLTE 305 ++ L Q + L L E + F+ VSHEL+TPLA L L+DGV + Sbjct: 224 GDEVGMLAQDFNQLAMTLERNEKLRREFMADVSHELRTPLAILNGQLEALEDGV----LQ 279 Query: 306 NQREIARILRQNTQSLQTQIEDLLRYNEVSFDAQRIHPVPVDLRALLHKVIDDQRLQWLA 365 + R L+ + L + DL + A +DL LL ++ Sbjct: 280 PDAQTLRSLKSEVEHLNKLVGDLYDLSLADAGALTYRRADIDLAPLLRDSAALYSDRFSQ 339 Query: 366 RELKVEIEGVARTVV-VDPEKMAIVLANLLSNAVRFSPQGGFIRFLLSEAPGMVRVECLD 424 R +++ E A V D ++ +L+NL N++R++ GG ++ + D Sbjct: 340 RGMRLSCELPASMPVHGDAARLQQLLSNLFENSLRYTDAGGRLQVHAHLQQQHWHLVFDD 399 Query: 425 QGPGVAPTDAARIFEPFYQGLHQPSGARRGNGIGLSVVREYVQAHSGKV 473 PGV P AR+FE F++ + A G G+GL++ R V AH G + Sbjct: 400 SEPGVPPEVMARLFERFFRVEASRNRASGGAGLGLAICRRIVDAHQGTI 448 >gi|300312677|ref|YP_003776769.1| two component hybrid sensor histidine kinase/response regulator protein [Herbaspirillum seropedicae SmR1] Length = 1160 Score = 87.0 bits (214), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 67/224 (29%), Positives = 105/224 (46%), Gaps = 4/224 (1%) Query: 270 KSRFLRHVSHELKTPLAALCEGAALLDDGVAGQLTENQREIARILRQNTQSLQTQIEDLL 329 KS FL ++SHEL+TPL + A LL D G L++ Q A+ + L I D+L Sbjct: 475 KSEFLANMSHELRTPLNSTLILAKLLADNKQGNLSDEQVRFAQTISSAGNDLLALINDIL 534 Query: 330 RYNEVSFDAQRIHPVPVDLRALLHKVIDDQRLQWLAREL--KVEIE-GVARTVVVDPEKM 386 +++ I P L L ++ + + L KVE+E GV + + D +++ Sbjct: 535 DLSKMEAGKLDIVPESFPLTKLADELSASFAITAQQKGLGFKVEVEPGVPQRMETDIQRL 594 Query: 387 AIVLANLLSNAVRFSPQGGFIRFLLSEAPGMVRVECLDQGPGVAPTDAARIFEPFYQGLH 446 +L NLLSNA++F+ +G + +A G + D G G+ IFE F Q Sbjct: 595 GQILKNLLSNAIKFTEKGEVSLRIYPDAGGRIAFAVRDTGIGIGEDQHQFIFEAFRQADG 654 Query: 447 QPSGARRGNGIGLSVVREYVQAHSGKVYLVPREG-GAHFRIELP 489 G G+GLS+ R+ G + + R G G+ F + LP Sbjct: 655 STHRKYGGTGLGLSISRDLAHLLGGDIRVTSRLGEGSIFTLSLP 698 >gi|300311751|ref|YP_003775843.1| signal transduction histidine kinase [Herbaspirillum seropedicae SmR1] Length = 446 Score = 84.3 bits (207), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 74/250 (29%), Positives = 128/250 (51%), Gaps = 21/250 (8%) Query: 221 PMARLEQAIGRLGDNRFDQPIDVRG-PADIRRLGQQLDWLRQRLADLEAEKSRFLRHVSH 279 P+ L Q I G++ QPI R P +++ ++ L R+ A + RF+ +H Sbjct: 179 PLQALRQEIDSRGEDDL-QPIAERLLPREVQAFVAAINGLLARVEAGMAAQRRFVADAAH 237 Query: 280 ELKTPLAALCEGAALLDDGVAGQLTENQREIARILR-----QNTQSLQTQIEDLLRYNEV 334 EL+TPL AL A L ++E RE R+ R Q + L TQ+ L R Sbjct: 238 ELRTPLTALSLQAERLGRA---PMSETARE--RLTRLETGLQRARQLVTQLLALARAQTP 292 Query: 335 SFDAQRIHPVPVDLRALLHKVIDDQRLQWLARELKVEIEGV-ARTVVVDPEKMAIVLANL 393 + A + P L +L +VI++ +++ + ++G V+ P+++A +L NL Sbjct: 293 AGAALQ----PCSLHQVLREVIEELLPLAQCKQIDLGLDGERDACVLTQPQELAQLLRNL 348 Query: 394 LSNAVRFSPQGGFIRFLLSEAPGMVRVECLDQGPGVAPTDAARIFEPFYQGLHQPSGARR 453 + NA+ ++P GG + + V +E D GPG+A ++ R+F+PFY+ PSG + Sbjct: 349 IDNAIAYTPAGGAVSLRMERHAQWVALEICDTGPGIAASERERVFQPFYR--IDPSG--Q 404 Query: 454 GNGIGLSVVR 463 G+G+GL++V+ Sbjct: 405 GSGLGLAIVQ 414 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 0.322 0.136 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: 1,484,660 Number of extensions: 60668 Number of successful extensions: 392 Number of sequences better than 1.0e-08: 38 Number of HSP's gapped: 338 Number of HSP's successfully gapped: 38 Length of query: 492 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 403 Effective length of database: 1,198,455 Effective search space: 482977365 Effective search space used: 482977365 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)