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= 0004.0122.p (565 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312396|ref|YP_003776488.1| chemotaxis CheA protein [Herbas... 816 0.0 gi|300309957|ref|YP_003774049.1| chemotaxis histidine kinase [He... 250 3e-67 gi|300311033|ref|YP_003775125.1| chemotaxis histidine kinase [He... 234 1e-62 gi|300312286|ref|YP_003776378.1| signal-transducing histidine ki... 215 6e-57 gi|300312322|ref|YP_003776414.1| two component hybrid sensor his... 187 2e-48 >gi|300312396|ref|YP_003776488.1| chemotaxis CheA protein [Herbaspirillum seropedicae SmR1] Length = 638 Score = 816 bits (2108), Expect = 0.0, Method: Compositional matrix adjust. Identities = 406/415 (97%), Positives = 410/415 (98%) Query: 151 DGEPKAAAPAQQNRRATDSPGGAKEESIRIDAVKLDALLEVAGESVQAANQAAVLLEKLQ 210 DGEPKAAAPAQ NRRA+DSPGGAKEESIRIDA KLDALLEVAGESVQAANQAAVLLEKLQ Sbjct: 224 DGEPKAAAPAQHNRRASDSPGGAKEESIRIDAGKLDALLEVAGESVQAANQAAVLLEKLQ 283 Query: 211 QFKFEGTAAALMSTLAETLGRASRYSSELQRATLSTRMQPVGRLFQKFPRLVRELAKDLG 270 QFKFEGTAAALMSTLAETLGRASRYSSELQRATLSTRMQPVGRLFQKFPRLVRELAKDLG Sbjct: 284 QFKFEGTAAALMSTLAETLGRASRYSSELQRATLSTRMQPVGRLFQKFPRLVRELAKDLG 343 Query: 271 KDVDLVITGAETEVDRVVVDSLYDPLVHMLRNSLDHGIEVDRAAAGKPNKATISLNAWQA 330 KDVDLVITGAETEVDRVVVDSLYDPLVHMLRNSLDHGIEVDR AAGKP KATISLNAWQA Sbjct: 344 KDVDLVITGAETEVDRVVVDSLYDPLVHMLRNSLDHGIEVDRVAAGKPTKATISLNAWQA 403 Query: 331 GSSVMIEVFDDGKGMDPDMLRNKALAKGLINEHQALTSDEALQLVFLPGFSTKEVASSVS 390 GSSVMIEVFDDGKGMDPDMLR+KALAKGLINEHQALT+DEALQLVFLPGFSTKEVASSVS Sbjct: 404 GSSVMIEVFDDGKGMDPDMLRSKALAKGLINEHQALTADEALQLVFLPGFSTKEVASSVS 463 Query: 391 GRGVGMDVVKTAVEKHRGTIRIESTIGKGTKFSIRLPIELSIIPTMLVRCAGAPLALPMA 450 GRGVGMDVVKTAVEKHRGTIRIESTIGKGTKFSIRLPIELSIIPTMLVRCAGAPLALPMA Sbjct: 464 GRGVGMDVVKTAVEKHRGTIRIESTIGKGTKFSIRLPIELSIIPTMLVRCAGAPLALPMA 523 Query: 451 VVERVVELPETFDEVGGAPVLRDQGRPLPVNSLAGVLGYEPGNERVGIVMAVPHPYILGV 510 VVERVVELPE FDEVGGAPVLRDQGRPLPVNSLAGVLGYEPGNERVGIVMAVPHPYILGV Sbjct: 524 VVERVVELPENFDEVGGAPVLRDQGRPLPVNSLAGVLGYEPGNERVGIVMAVPHPYILGV 583 Query: 511 ESVEGTADLVIKPLTAIHTAGITGTARSAEGELVLVVGLSFLLDGCRDLERTAVA 565 ESVEGTADLVIKPLTAIHTAGITGTARSAEGELVLVVGLSFLLDGCRD+ERTAVA Sbjct: 584 ESVEGTADLVIKPLTAIHTAGITGTARSAEGELVLVVGLSFLLDGCRDMERTAVA 638 Score = 262 bits (669), Expect = 7e-71, Method: Compositional matrix adjust. Identities = 128/131 (97%), Positives = 129/131 (98%) Query: 1 MDDEMLKDFVVEALDLATNVEEHLLTLERHPDDLEILNAVFRAFHTIKGGAGFVNLPAMV 60 MDDEMLKDFVVEAL+LATNVEEHLLTLERHPDDLEILNAVFRAFHTIKGGAGFVNLPAMV Sbjct: 1 MDDEMLKDFVVEALELATNVEEHLLTLERHPDDLEILNAVFRAFHTIKGGAGFVNLPAMV 60 Query: 61 SACHLTENLFDALRTGKAPVTPLAIEAALQASGFVADQLTELSNGAAPDSLASMPAELKD 120 SACHLTENLFDALRTGKAPVTPLAIEAALQASGFVADQL ELSNGAAPDSLASMP ELKD Sbjct: 61 SACHLTENLFDALRTGKAPVTPLAIEAALQASGFVADQLNELSNGAAPDSLASMPGELKD 120 Query: 121 ILTQAIEGKSE 131 ILTQAIEGKSE Sbjct: 121 ILTQAIEGKSE 131 >gi|300309957|ref|YP_003774049.1| chemotaxis histidine kinase [Herbaspirillum seropedicae SmR1] Length = 725 Score = 250 bits (638), Expect = 3e-67, Method: Compositional matrix adjust. Identities = 157/430 (36%), Positives = 248/430 (57%), Gaps = 21/430 (4%) Query: 139 AAAAPPIAAPAADGEPKAAAPAQQNRRATDSPGGAKEESIRIDAVKLDALLEVAGESVQA 198 AA+A P A AA EP AA Q RA D +++ I+I+ KLD L+++ GE V A Sbjct: 295 AASATPSDALAAAVEPMAAEGVLQRPRALDERRAQEQKFIKIEVSKLDQLIDLVGELVIA 354 Query: 199 ANQAAVLLEKLQQFKFEGTAAALMSTLAETLGRASRYSSELQRATLSTRMQPVGRLFQKF 258 A ++ + + +FE A+ TL E +++ A L+ RM + +FQ+F Sbjct: 355 GASARLIARRRKDSQFEEATQAI-DTLME----------QIRDAALTLRMVQINEVFQRF 403 Query: 259 PRLVRELAKDLGKDVDLVITGAETEVDRVVVDSLYDPLVHMLRNSLDHGIE--VDRAAAG 316 PR+VR++A+DLGKD+DLV+TG++TE+D+ +V+ L DPL+H++RN++DHGIE +R AAG Sbjct: 404 PRIVRDIARDLGKDIDLVMTGSDTELDKSMVERLADPLMHIVRNAIDHGIEPAAERLAAG 463 Query: 317 KPNKATISLNAWQAGSSVMIEVFDDGKGMDPDMLRNKALAKGLINEHQALTSDEALQLVF 376 KP KA++ LNA SV+IEV DDG+GMD + + KA+A+GL + L+ E + VF Sbjct: 464 KPAKASLQLNAIHESGSVVIEVMDDGRGMDREAILAKAVAQGLASPDAELSDAEIYRFVF 523 Query: 377 LPGFSTKEVASSVSGRGVGMDVVKTAVEKHRGTIRIESTIGKGTKFSIRLPIELSIIPTM 436 PGFST + +SGRGVGMDVV+ +E G + I++ G+GT +RLP+ L+II Sbjct: 524 EPGFSTARQVTELSGRGVGMDVVRRNIEALHGEVSIDTGRGRGTVVRLRLPLTLAIISGF 583 Query: 437 LVRCAGAPLALPMAVVERVVELPETFDEVGGAPVLRDQGRPL---PVNSLAGVLGYEPGN 493 V A +P+ +V +++P + G+ ++ + PL P+ L + E G Sbjct: 584 QVVVGNAVFVIPLDMVVECIDMPP---QQPGSHIVNVRDEPLPFVPLRELFDLPARERGR 640 Query: 494 ERVGIVMAVPHPYILGVESVEGTADLVIKPLTAI--HTAGITGTARSAEGELVLVVGLSF 551 + IV P L V+ + G VIKPL + G++G+ +G + L++ ++ Sbjct: 641 NSLVIVQYGPLRAGLLVDGLLGECQAVIKPLGRLFGKVKGLSGSTILGDGRVALILDIAH 700 Query: 552 LLDGCRDLER 561 L+ + E+ Sbjct: 701 LVHHTQQQEQ 710 >gi|300311033|ref|YP_003775125.1| chemotaxis histidine kinase [Herbaspirillum seropedicae SmR1] Length = 837 Score = 234 bits (598), Expect = 1e-62, Method: Compositional matrix adjust. Identities = 145/400 (36%), Positives = 231/400 (57%), Gaps = 21/400 (5%) Query: 164 RRATDSPGGAKEESIRIDAVKLDALLEVAGESVQAANQAAVLLEKLQ-QFKFEGTAAALM 222 RRA +S G K S++++ VK+D L+ + GE V + N L ++ + QF A + Sbjct: 439 RRAEESLSGNK--SVKVEQVKIDRLMNLIGEMVVSKNALPYLAQRAEDQFGVRELAREIK 496 Query: 223 STLAETLGRASRYSSELQRATLSTRMQPVGRLFQKFPRLVRELAKDLGKDVDLVITGAET 282 + A +R + E+Q A + RM PV +FQ+FPRLVR++++ LGK+V LV+ G ET Sbjct: 497 AQYAVI----NRIAEEMQDAIMQVRMMPVSVVFQRFPRLVRDISRKLGKEVQLVLVGEET 552 Query: 283 EVDRVVVDSLYDPLVHMLRNSLDHGIE--VDRAAAGKPNKATISLNAWQAGSSVMIEVFD 340 E D+ ++++L DPL+H++RNSLDHG+E R A+GKP +++++A G V+I + D Sbjct: 553 EADKNIIEALADPLIHIVRNSLDHGLEGPEQRRASGKPALGSLTISAAHEGDQVVIVIED 612 Query: 341 DGKGMDPDMLRNKALAKGLINEHQ--ALTSDEALQLVFLPGFSTKEVASSVSGRGVGMDV 398 DGKG+DP +++ KA KGLI+E Q ++ +A+ LVF GFST EV S +SGRGVGMDV Sbjct: 613 DGKGIDPALIKRKAYEKGLIDEAQLERISDQDAVNLVFSSGFSTAEVVSDLSGRGVGMDV 672 Query: 399 VKTAVEKHRGTIRIESTIGKGTKFSIRLPIELSIIPTMLVRCAGAPLALPMAVVERVVEL 458 V+ AVEK G++ + S GKGT+ I LP+ +++ M++ G +PM V V + Sbjct: 673 VRNAVEKVNGSLALHSVSGKGTRLQISLPLSMAVTKVMIIESDGQLFGVPMEHVMETVRV 732 Query: 459 PET---FDEVGGAPVLRDQGRPLP-VNSLAGVLGYEPGN---ERVGIVMAVPHPYI-LGV 510 P + F VLR L +N + G+ + N E +V+ V + L + Sbjct: 733 PRSSLHFANSSAKMVLRGHILGLKGINQILGIAAEQKTNADGEVAVLVVRVGGQSVGLVI 792 Query: 511 ESVEGTADLVIKP--LTAIHTAGITGTARSAEGELVLVVG 548 + T D++ KP + +G+A +G +++V+ Sbjct: 793 DDFRETVDVIQKPLLGILGGLSLYSGSALMGDGSVLMVLN 832 Score = 68.6 bits (166), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 33/93 (35%), Positives = 54/93 (58%), Gaps = 1/93 (1%) Query: 5 MLKD-FVVEALDLATNVEEHLLTLERHPDDLEILNAVFRAFHTIKGGAGFVNLPAMVSAC 63 +L+D F++E DL + E L+ LE P+ +E+L ++FR HT+KG +G ++P M Sbjct: 3 LLRDQFILETRDLLQGISEKLMQLEDAPEHVELLESLFRMVHTLKGNSGLFDVPEMTRVL 62 Query: 64 HLTENLFDALRTGKAPVTPLAIEAALQASGFVA 96 H E+L DA+R + + + + L A FVA Sbjct: 63 HACEDLMDAVRRRQVAYSEVLADRLLDAMDFVA 95 >gi|300312286|ref|YP_003776378.1| signal-transducing histidine kinase CheA protein [Herbaspirillum seropedicae SmR1] Length = 697 Score = 215 bits (548), Expect = 6e-57, Method: Compositional matrix adjust. Identities = 145/405 (35%), Positives = 223/405 (55%), Gaps = 22/405 (5%) Query: 172 GAKEESIRIDAVKLDALLEVAGESVQAANQAAVLLEKLQQFKFEGTAAALMSTLAETLGR 231 G + SIR+ K+D L+ + GE V + KL E L ++ + Sbjct: 301 GHESSSIRVSVEKVDQLINLVGELVITQAMIEQRVGKLDPMTHE--------HLLNSVSQ 352 Query: 232 ASRYSSELQRATLSTRMQPVGRLFQKFPRLVRELAKDLGKDVDLVITGAETEVDRVVVDS 291 SR + +LQ + +S RM P+ +F +FPR+VR+LA LGK V+ V GA TE+D+ +++ Sbjct: 353 LSRNTRDLQESVMSIRMMPMDYVFSRFPRMVRDLAHKLGKQVEFVTHGAATELDKGLIER 412 Query: 292 LYDPLVHMLRNSLDHGIEV--DRAAAGKPNKATISLNAWQAGSSVMIEVFDDGKGMDPDM 349 + DPL H++RNS+DHGIE+ R A+GK T+SL+A G +++IEV DDG G++ + Sbjct: 413 IVDPLTHLVRNSIDHGIELPDARRASGKSEAGTLSLSAEHQGGNIIIEVTDDGGGLNREK 472 Query: 350 LRNKALAKGL-INEHQALTSDEALQLVFLPGFSTKEVASSVSGRGVGMDVVKTAVEKHRG 408 + KA +G+ + ++ L+ E QL+F PGFST E + VSGRGVGMDVVK + G Sbjct: 473 ILAKAKQQGMPVTDN--LSDAEVWQLIFEPGFSTAEQVTDVSGRGVGMDVVKRNILAMGG 530 Query: 409 TIRIESTIGKGTKFSIRLPIELSIIPTMLVRCAGAPLALPMA-VVERVVELPETFDEVGG 467 + I S+ G GT SI LP+ L+I+ M +R LP+ VVE + L + E+ G Sbjct: 531 AVDIRSSKGFGTTISISLPLTLAILDGMSIRIGEEVYILPLGYVVESLQPLAQDIKEISG 590 Query: 468 -APVLRDQGRPLPVNSLAGVLGYEPG--NERVGIVMAVP---HPYILGVESVEGTADLVI 521 VLR +G LP+ L + EP + G+V+ + L V+ + G +V+ Sbjct: 591 QGQVLRVRGEYLPLIPLYQIFNIEPSFTDPSQGLVVILESDGKKAALFVDDLIGQQQIVV 650 Query: 522 KPLTAIH--TAGITGTARSAEGELVLVVGLSFLLDGCRDLERTAV 564 K L + + AGI+G +G + L+V ++ LL R L +V Sbjct: 651 KNLESNYRKVAGISGATILGDGGVALIVDVAALLRSSRQLNDESV 695 >gi|300312322|ref|YP_003776414.1| two component hybrid sensor histidine kinase/response regulator protein [Herbaspirillum seropedicae SmR1] Length = 775 Score = 187 bits (475), Expect = 2e-48, Method: Compositional matrix adjust. Identities = 140/397 (35%), Positives = 208/397 (52%), Gaps = 49/397 (12%) Query: 177 SIRIDAVKLDALLEVAGESVQAANQ-----AAVL------------LEKLQQF------- 212 ++R+ A LD LL + GES+ + Q A++L L+ LQQ Sbjct: 197 AVRVSADSLDRLLGLTGESLVESRQLKPFSASMLRMKRTQREAMQALDLLQQKLATTQLD 256 Query: 213 KFEGTAAALMSTLAET----LG-----------RASRYSSELQRATLSTRMQPVGRLFQK 257 +F TA A + TL + LG R+ S L L+ RM+P Sbjct: 257 EFAQTAFAELRTLMQQNQQLLGEQLSALDAFDRRSVNLSQRLYDEALACRMRPFADGTAG 316 Query: 258 FPRLVRELAKDLGKDVDLVITGAETEVDRVVVDSLYDPLVHMLRNSLDHGIE--VDRAAA 315 R+VR++ LGK V L I G T++DR +++ L P+ H+LRN++DHGIE R AA Sbjct: 317 LARMVRDVGNTLGKSVRLDIVGNTTQIDRDILEKLEAPIGHLLRNAVDHGIESSAQRRAA 376 Query: 316 GKPNKATISLNAWQAGSSVMIEVFDDGKGMDPDMLRNKALAKGLINEHQA--LTSDEALQ 373 GKP + I L A + ++IEV DDG G+D + +R+ +A+GL N+ A L+ E L+ Sbjct: 377 GKPEQGVIRLEARHSAGMLLIEVADDGAGIDIEQVRSAVVARGLSNQETAERLSEAELLE 436 Query: 374 LVFLPGFSTKEVASSVSGRGVGMDVVKTAVEKHRGTIRIESTIGKGTKFSIRLPIELSII 433 + LP FS ++ + +SGRGVG+DVV +++ RGTIRI + G+G++F ++LP+ LS+I Sbjct: 437 FLLLPSFSLRDTVTEISGRGVGLDVVADMLKQVRGTIRITTQAGQGSRFLMQLPLTLSVI 496 Query: 434 PTMLVRCAGAPLALPMAVVERVVELP-ETFDEVGGAPVLRDQGRPLPVNSLAGVLGYEPG 492 ++LV AG P A P+A V R + LP E + G GR + + S VL Sbjct: 497 RSLLVDIAGEPYAFPLAYVNRTLRLPAEALQTLEGYQHFSHGGRQVGLVSAHQVLQKGQW 556 Query: 493 NERVGIVMAV-----PHPYILGVESVEGTADLVIKPL 524 R G V V H Y L V++ G LV++PL Sbjct: 557 RSRDGSVCVVVIGEQEHTYGLAVDAFLGERMLVVQPL 593 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 0.316 0.133 0.368 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: 1,607,364 Number of extensions: 66441 Number of successful extensions: 331 Number of sequences better than 1.0e-08: 8 Number of HSP's gapped: 314 Number of HSP's successfully gapped: 11 Length of query: 565 Length of database: 1,619,870 Length adjustment: 90 Effective length of query: 475 Effective length of database: 1,193,720 Effective search space: 567017000 Effective search space used: 567017000 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 (21.6 bits) S2: 133 (55.8 bits)