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= 0010.0145.p (713 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312286|ref|YP_003776378.1| signal-transducing histidine ki... 1192 0.0 gi|300309957|ref|YP_003774049.1| chemotaxis histidine kinase [He... 318 1e-87 gi|300311033|ref|YP_003775125.1| chemotaxis histidine kinase [He... 219 6e-58 gi|300312396|ref|YP_003776488.1| chemotaxis CheA protein [Herbas... 212 1e-55 gi|300313133|ref|YP_003777225.1| CheA-like histidine kinase [Her... 178 1e-45 >gi|300312286|ref|YP_003776378.1| signal-transducing histidine kinase CheA protein [Herbaspirillum seropedicae SmR1] Length = 697 Score = 1192 bits (3083), Expect = 0.0, Method: Compositional matrix adjust. Identities = 614/708 (86%), Positives = 633/708 (89%), Gaps = 28/708 (3%) Query: 23 MEKLLLAVNVASPDPEDLNAVFRAAHSIKGGSSTFGLTDIAEVTHVLESLLDRIRQGQMK 82 MEKLLLAVNVASPDPEDLNAVFRAAHSIKGGSSTFGLTDIAEVTHVLESLLDRIRQGQM Sbjct: 1 MEKLLLAVNVASPDPEDLNAVFRAAHSIKGGSSTFGLTDIAEVTHVLESLLDRIRQGQMA 60 Query: 83 LTSEHVDAFLAAKDVLKSMLDGHKHGATVDQDAVGDVRMLLEALSQGKSSSAAQAAEAAV 142 LTSEHVDAFLAAKDVLKSMLDGHKHGA VDQ AV DVR LLEALSQGKSS+ A+AA A Sbjct: 61 LTSEHVDAFLAAKDVLKSMLDGHKHGADVDQGAVADVRRLLEALSQGKSSAPAKAAAPAA 120 Query: 143 VGPGGVH----RYRLDMPAITDKDAEALADELSMLGKLEKNKSPEGKWIFILDTAEPIDD 198 G RYR++MP I DKDAEALADEL+MLGK+EK KSPEG+W+FILDTAEP+DD Sbjct: 121 GGVPVAPGGVCRYRIEMPVIADKDAEALADELAMLGKIEKTKSPEGQWVFILDTAEPLDD 180 Query: 199 VVAICAFIMNVADLKISQAVEAAKSSDEERGYGFFDNFVTQEERERAQGYGFFDNQTAIE 258 VVAICAFI+NVADLKISQAVE+A S+D+ERGYGFFDNFVTQEERER QGYGFFDN TAIE Sbjct: 181 VVAICAFIVNVADLKISQAVESAPSADQERGYGFFDNFVTQEERERTQGYGFFDNHTAIE 240 Query: 259 DKEREQGYGFFAPFVPLDISAKKSDGEAAAHAGGNGNGGNGNGHHDDG------HLHGDH 312 DKEREQGYGFFAPFVPLDISAKK D E + H DD H + Sbjct: 241 DKEREQGYGFFAPFVPLDISAKKPDAETLSQP-----------HPDDAPLAVTEHAAAEK 289 Query: 313 GGEKKAVKGGTGQESSSIRVSIEKVDQLINLVGELVITQAMIEQRVGKLDPMHHEHLLNS 372 K A G ESSSIRVS+EKVDQLINLVGELVITQAMIEQRVGKLDPM HEHLLNS Sbjct: 290 KAAKAAAAAAAGHESSSIRVSVEKVDQLINLVGELVITQAMIEQRVGKLDPMTHEHLLNS 349 Query: 373 VSQLSRNTRDLQESVMSIRMMPMDYVFSRFPRMVRDLAHKLGKQVEFVTHGAATELDKGL 432 VSQLSRNTRDLQESVMSIRMMPMDYVFSRFPRMVRDLAHKLGKQVEFVTHGAATELDKGL Sbjct: 350 VSQLSRNTRDLQESVMSIRMMPMDYVFSRFPRMVRDLAHKLGKQVEFVTHGAATELDKGL 409 Query: 433 IERIVDPLTHLVRNSIDHGIELPDARLA-------VLSLSAEHQGGNIIIEVTDDGGGLN 485 IERIVDPLTHLVRNSIDHGIELPDAR A LSLSAEHQGGNIIIEVTDDGGGLN Sbjct: 410 IERIVDPLTHLVRNSIDHGIELPDARRASGKSEAGTLSLSAEHQGGNIIIEVTDDGGGLN 469 Query: 486 RDKILAKAKQQGMPVTDSLTDAEVWQLIFEPGFSTAEQVTDVSGRGVGMDVVKRNILAMG 545 R+KILAKAKQQGMPVTD+L+DAEVWQLIFEPGFSTAEQVTDVSGRGVGMDVVKRNILAMG Sbjct: 470 REKILAKAKQQGMPVTDNLSDAEVWQLIFEPGFSTAEQVTDVSGRGVGMDVVKRNILAMG 529 Query: 546 GAVDIRSSKGFGTTISISLPLTLAILDGMSIRIGEEVYILPLGYVVESLQPLPQDIKEIS 605 GAVDIRSSKGFGTTISISLPLTLAILDGMSIRIGEEVYILPLGYVVESLQPL QDIKEIS Sbjct: 530 GAVDIRSSKGFGTTISISLPLTLAILDGMSIRIGEEVYILPLGYVVESLQPLAQDIKEIS 589 Query: 606 GQGQVLRVRGEYLPLIPLYQIFNIEPSFTDPSQGLVVILESDGKKAALFVDDLIGQQQIV 665 GQGQVLRVRGEYLPLIPLYQIFNIEPSFTDPSQGLVVILESDGKKAALFVDDLIGQQQIV Sbjct: 590 GQGQVLRVRGEYLPLIPLYQIFNIEPSFTDPSQGLVVILESDGKKAALFVDDLIGQQQIV 649 Query: 666 VKNLESNYRKVAGISGATILGDGGVALIVDVAALLRSSRQLNDESVFS 713 VKNLESNYRKVAGISGATILGDGGVALIVDVAALLRSSRQLNDESVFS Sbjct: 650 VKNLESNYRKVAGISGATILGDGGVALIVDVAALLRSSRQLNDESVFS 697 >gi|300309957|ref|YP_003774049.1| chemotaxis histidine kinase [Herbaspirillum seropedicae SmR1] Length = 725 Score = 318 bits (814), Expect = 1e-87, Method: Compositional matrix adjust. Identities = 174/397 (43%), Positives = 256/397 (64%), Gaps = 18/397 (4%) Query: 317 KAVKGGTGQESSSIRVSIEKVDQLINLVGELVITQAMIEQRVGKLDPMHHEHLLNSVSQL 376 +A+ QE I++ + K+DQLI+LVGELVI A + E ++ L Sbjct: 321 RALDERRAQEQKFIKIEVSKLDQLIDLVGELVIAGASARLIARRRKDSQFEEATQAIDTL 380 Query: 377 SRNTRDLQESVMSIRMMPMDYVFSRFPRMVRDLAHKLGKQVEFVTHGAATELDKGLIERI 436 RD + +++RM+ ++ VF RFPR+VRD+A LGK ++ V G+ TELDK ++ER+ Sbjct: 381 MEQIRD---AALTLRMVQINEVFQRFPRIVRDIARDLGKDIDLVMTGSDTELDKSMVERL 437 Query: 437 VDPLTHLVRNSIDHGIELPDARLAV-------LSLSAEHQGGNIIIEVTDDGGGLNRDKI 489 DPL H+VRN+IDHGIE RLA L L+A H+ G+++IEV DDG G++R+ I Sbjct: 438 ADPLMHIVRNAIDHGIEPAAERLAAGKPAKASLQLNAIHESGSVVIEVMDDGRGMDREAI 497 Query: 490 LAKAKQQGMPVTDS-LTDAEVWQLIFEPGFSTAEQVTDVSGRGVGMDVVKRNILAMGGAV 548 LAKA QG+ D+ L+DAE+++ +FEPGFSTA QVT++SGRGVGMDVV+RNI A+ G V Sbjct: 498 LAKAVAQGLASPDAELSDAEIYRFVFEPGFSTARQVTELSGRGVGMDVVRRNIEALHGEV 557 Query: 549 DIRSSKGFGTTISISLPLTLAILDGMSIRIGEEVYILPLGYVVESLQPLPQDIKEISGQG 608 I + +G GT + + LPLTLAI+ G + +G V+++PL VVE + PQ Sbjct: 558 SIDTGRGRGTVVRLRLPLTLAIISGFQVVVGNAVFVIPLDMVVECIDMPPQ-----QPGS 612 Query: 609 QVLRVRGEYLPLIPLYQIFNIEPSFTDPSQGLVVILESDGKKAALFVDDLIGQQQIVVKN 668 ++ VR E LP +PL ++F++ P+ + + +VI++ +A L VD L+G+ Q V+K Sbjct: 613 HIVNVRDEPLPFVPLRELFDL-PA-RERGRNSLVIVQYGPLRAGLLVDGLLGECQAVIKP 670 Query: 669 LESNYRKVAGISGATILGDGGVALIVDVAALLRSSRQ 705 L + KV G+SG+TILGDG VALI+D+A L+ ++Q Sbjct: 671 LGRLFGKVKGLSGSTILGDGRVALILDIAHLVHHTQQ 707 Score = 65.9 bits (159), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 37/108 (34%), Positives = 58/108 (53%), Gaps = 2/108 (1%) Query: 1 MSIDMSQFFQVFFDEAEEGLAEMEKLLLAVNVASPDPEDLNAVFRAAHSIKGGSSTFGLT 60 MS D ++ V EA E L ME LL + P + ++A+FRAAH+IKG + F Sbjct: 1 MSKDSARHAMV--QEARELLVAMEAALLQTEMEGPSRDSIHAIFRAAHTIKGSAGLFAFD 58 Query: 61 DIAEVTHVLESLLDRIRQGQMKLTSEHVDAFLAAKDVLKSMLDGHKHG 108 I + TH LE +L+R+R+ ++ L S + L D + ++D + G Sbjct: 59 SIVQFTHHLEHVLERVREERLALDSHLMSLLLQCSDYIGELVDAIERG 106 >gi|300311033|ref|YP_003775125.1| chemotaxis histidine kinase [Herbaspirillum seropedicae SmR1] Length = 837 Score = 219 bits (558), Expect = 6e-58, Method: Compositional matrix adjust. Identities = 132/388 (34%), Positives = 224/388 (57%), Gaps = 22/388 (5%) Query: 327 SSSIRVSIEKVDQLINLVGELVITQ---AMIEQRVGKLDPMHHEHLLNSVSQ----LSRN 379 + S++V K+D+L+NL+GE+V+++ + QR D L + ++R Sbjct: 448 NKSVKVEQVKIDRLMNLIGEMVVSKNALPYLAQRAE--DQFGVRELAREIKAQYAVINRI 505 Query: 380 TRDLQESVMSIRMMPMDYVFSRFPRMVRDLAHKLGKQVEFVTHGAATELDKGLIERIVDP 439 ++Q+++M +RMMP+ VF RFPR+VRD++ KLGK+V+ V G TE DK +IE + DP Sbjct: 506 AEEMQDAIMQVRMMPVSVVFQRFPRLVRDISRKLGKEVQLVLVGEETEADKNIIEALADP 565 Query: 440 LTHLVRNSIDHGIELPDAR-------LAVLSLSAEHQGGNIIIEVTDDGGGLNRDKILAK 492 L H+VRNS+DHG+E P+ R L L++SA H+G ++I + DDG G++ I K Sbjct: 566 LIHIVRNSLDHGLEGPEQRRASGKPALGSLTISAAHEGDQVVIVIEDDGKGIDPALIKRK 625 Query: 493 AKQQGM---PVTDSLTDAEVWQLIFEPGFSTAEQVTDVSGRGVGMDVVKRNILAMGGAVD 549 A ++G+ + ++D + L+F GFSTAE V+D+SGRGVGMDVV+ + + G++ Sbjct: 626 AYEKGLIDEAQLERISDQDAVNLVFSSGFSTAEVVSDLSGRGVGMDVVRNAVEKVNGSLA 685 Query: 550 IRSSKGFGTTISISLPLTLAILDGMSIRIGEEVYILPLGYVVESLQPLPQDIKEISGQGQ 609 + S G GT + ISLPL++A+ M I +++ +P+ +V+E+++ +P+ + Sbjct: 686 LHSVSGKGTRLQISLPLSMAVTKVMIIESDGQLFGVPMEHVMETVR-VPRSSLHFANSSA 744 Query: 610 VLRVRGEYLPLIPLYQIFNIEPSFTDPSQGLVVIL--ESDGKKAALFVDDLIGQQQIVVK 667 + +RG L L + QI I + G V +L G+ L +DD ++ K Sbjct: 745 KMVLRGHILGLKGINQILGIAAEQKTNADGEVAVLVVRVGGQSVGLVIDDFRETVDVIQK 804 Query: 668 NLESNYRKVAGISGATILGDGGVALIVD 695 L ++ SG+ ++GDG V ++++ Sbjct: 805 PLLGILGGLSLYSGSALMGDGSVLMVLN 832 >gi|300312396|ref|YP_003776488.1| chemotaxis CheA protein [Herbaspirillum seropedicae SmR1] Length = 638 Score = 212 bits (539), Expect = 1e-55, Method: Compositional matrix adjust. Identities = 144/410 (35%), Positives = 222/410 (54%), Gaps = 23/410 (5%) Query: 316 KKAVKGGTGQESSSIRVSIEKVDQLINLVGELVITQAMIEQRVGKLDPMHHE-------- 367 ++A G + SIR+ K+D L+ + GE V + KL E Sbjct: 237 RRASDSPGGAKEESIRIDAGKLDALLEVAGESVQAANQAAVLLEKLQQFKFEGTAAALMS 296 Query: 368 HLLNSVSQLSRNTRDLQESVMSIRMMPMDYVFSRFPRMVRDLAHKLGKQVEFVTHGAATE 427 L ++ + SR + +LQ + +S RM P+ +F +FPR+VR+LA LGK V+ V GA TE Sbjct: 297 TLAETLGRASRYSSELQRATLSTRMQPVGRLFQKFPRLVRELAKDLGKDVDLVITGAETE 356 Query: 428 LDKGLIERIVDPLTHLVRNSIDHGIELP-----DARLAVLSLSAEHQGGNIIIEVTDDGG 482 +D+ +++ + DPL H++RNS+DHGIE+ A +SL+A G +++IEV DDG Sbjct: 357 VDRVVVDSLYDPLVHMLRNSLDHGIEVDRVAAGKPTKATISLNAWQAGSSVMIEVFDDGK 416 Query: 483 GLNRDKILAKAKQQGM-PVTDSLTDAEVWQLIFEPGFSTAEQVTDVSGRGVGMDVVKRNI 541 G++ D + +KA +G+ +LT E QL+F PGFST E + VSGRGVGMDVVK + Sbjct: 417 GMDPDMLRSKALAKGLINEHQALTADEALQLVFLPGFSTKEVASSVSGRGVGMDVVKTAV 476 Query: 542 LAMGGAVDIRSSKGFGTTISISLPLTLAILDGMSIRIGEEVYILPLGYVVESLQPLPQDI 601 G + I S+ G GT SI LP+ L+I+ M +R LP+ VVE + LP++ Sbjct: 477 EKHRGTIRIESTIGKGTKFSIRLPIELSIIPTMLVRCAGAPLALPMA-VVERVVELPENF 535 Query: 602 KEISGQGQVLRVRGEYLPLIPLYQIFNIEPSFTDPSQGLVVILESDGKKAALFVDDLIGQ 661 E+ G VLR +G LP+ L + EP + G+V+ + L V+ + G Sbjct: 536 DEVGG-APVLRDQGRPLPVNSLAGVLGYEPG--NERVGIVMAVP---HPYILGVESVEGT 589 Query: 662 QQIVVKNLESNYRKVAGISGATILGDGGVALIVDVAALLRSSRQLNDESV 711 +V+K L + + AGI+G +G + L+V ++ LL R + +V Sbjct: 590 ADLVIKPLTAIH--TAGITGTARSAEGELVLVVGLSFLLDGCRDMERTAV 637 Score = 59.7 bits (143), Expect = 7e-10, Method: Compositional matrix adjust. Identities = 42/127 (33%), Positives = 65/127 (51%), Gaps = 2/127 (1%) Query: 7 QFFQVFFDEAEEGLAEMEKLLLAVNVASPDPEDLNAVFRAAHSIKGGSSTFGLTDIAEVT 66 + + F EA E +E+ LL + D E LNAVFRA H+IKGG+ L + Sbjct: 4 EMLKDFVVEALELATNVEEHLLTLERHPDDLEILNAVFRAFHTIKGGAGFVNLPAMVSAC 63 Query: 67 HVLESLLDRIRQGQMKLTSEHVDAFLAAKDVLKSMLDGHKHGATVDQDAV--GDVRMLLE 124 H+ E+L D +R G+ +T ++A L A + L+ +GA D A G+++ +L Sbjct: 64 HLTENLFDALRTGKAPVTPLAIEAALQASGFVADQLNELSNGAAPDSLASMPGELKDILT 123 Query: 125 ALSQGKS 131 +GKS Sbjct: 124 QAIEGKS 130 >gi|300313133|ref|YP_003777225.1| CheA-like histidine kinase [Herbaspirillum seropedicae SmR1] Length = 744 Score = 178 bits (451), Expect = 1e-45, Method: Compositional matrix adjust. Identities = 112/350 (32%), Positives = 193/350 (55%), Gaps = 21/350 (6%) Query: 364 MHHEHLLNSVS-------QLSRNTRDLQESVMSIRMMPMDYVFSRFPRMVRDLAHKLGKQ 416 +H L VS Q + +TR+LQ+ +M RM+ + + R +VR +A + GK Sbjct: 378 LHQRRLQEGVSSTREGLRQQAAHTRELQQELMYARMVKFNSMEVRMQHLVRQVAAETGKP 437 Query: 417 VEFVTHGAATELDKGLIERIVDPLTHLVRNSIDHGIELPDARLA-------VLSLSAEHQ 469 + ++D+ ++ER++ PL HL+RN+ HGIE + RLA L++ A H+ Sbjct: 438 LALDLSNCRLQIDRAILERLMGPLEHLLRNAAVHGIESAEQRLAEGKPAVGRLTVQATHE 497 Query: 470 GGNIIIEVTDDGGGLNRDKILAKAKQQGMPVTDSLTDAEVWQLIFEPGFSTAEQVTDVSG 529 G +I V+DDG GL+ + I KA + G + A + LIF+PG ST+ QV+ ++G Sbjct: 498 GNEAVIRVSDDGRGLDLEAIRQKALELGAAGLAEASQARLADLIFQPGLSTSPQVSALAG 557 Query: 530 RGVGMDVVKRNILAMGGAVDIRSSKGFGTTISISLPLTLAILDGMSIRIGEEVYILPLGY 589 RG+GMDVV+ + A+GG + + S G G ++ LPL+LA+ +R G++ + +P Sbjct: 558 RGIGMDVVRSEVAALGGWMRVHSQPGQGVQFTLYLPLSLAVQHVCLLRHGQQHFAIP-SM 616 Query: 590 VVESLQPL--PQDIKEISGQGQVLRVRGEYLPLIPLYQIFN--IEPSFTDPSQGLVVILE 645 +V+S+ L PQ + ++ + L +G L L P + + + EP+ V++++ Sbjct: 617 LVDSIVQLRGPQARQALAERS--LEHQGSRLALHPWHCLLDEAPEPAGEGSDSAYVLLIK 674 Query: 646 SDGKKAALFVDDLIGQQQIVVKNLESNYRKVAGISGATILGDGGVALIVD 695 D A+ D + G +++VVK + +AG+ GAT+LGDG + LI++ Sbjct: 675 RDDGLMAVLADHVSGNREVVVKPVGPQLATLAGVVGATVLGDGQIVLIIN 724 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 0.135 0.377 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: 1,975,304 Number of extensions: 79919 Number of successful extensions: 453 Number of sequences better than 1.0e-08: 7 Number of HSP's gapped: 425 Number of HSP's successfully gapped: 10 Length of query: 713 Length of database: 1,619,870 Length adjustment: 92 Effective length of query: 621 Effective length of database: 1,184,250 Effective search space: 735419250 Effective search space used: 735419250 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: 134 (56.2 bits)