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= 0001.1002.p (691 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310534|ref|YP_003774626.1| transmembrane sensor histidine ... 1113 0.0 gi|300311886|ref|YP_003775978.1| multi-sensor signal transductio... 129 1e-30 gi|300311282|ref|YP_003775374.1| transmembrane sensor histidine ... 88 2e-18 gi|300312076|ref|YP_003776168.1| signal transduction histidine k... 71 3e-13 gi|300312939|ref|YP_003777031.1| transmembrane nitrate/nitrite s... 71 3e-13 >gi|300310534|ref|YP_003774626.1| transmembrane sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 677 Score = 1113 bits (2878), Expect = 0.0, Method: Compositional matrix adjust. Identities = 596/668 (89%), Positives = 627/668 (93%) Query: 1 MKKNNDGLRPSSADIQNSASVEYFAASHAHDSSMVTLAMGLSMAVILLGLVVLLTSLLGE 60 M+KNNDGLRPSSADIQNSASVEYFAASHAH SSM TLAMGL+MAVILLGLVVLL SLLGE Sbjct: 1 MQKNNDGLRPSSADIQNSASVEYFAASHAHYSSMATLAMGLAMAVILLGLVVLLASLLGE 60 Query: 61 EYRRLLSGLLALRPLSAAGFILGALALYLSCMHSPTRPPALRRVRLGLALLLLLLGLGSL 120 EYRRLLSGLL +R ++A G ILGA ALYL C+H R LRRV GL+ +LL LGLG+L Sbjct: 61 EYRRLLSGLLEMREMTAVGLILGASALYLRCIHGGARRSGLRRVAAGLSWMLLALGLGTL 120 Query: 121 VHALMYALGWLPLDSTHPISPLAISPLLSLGFVLMAGSLLLHDWRLLGGYYPAEYLAFTL 180 H LMYALGWLP+D HP+SPL I PLLSLGFV+MA LLL DWR+LGGYYPAEYL+F L Sbjct: 121 AHGLMYALGWLPIDQNHPLSPLVIPPLLSLGFVVMAAVLLLQDWRMLGGYYPAEYLSFAL 180 Query: 181 MALSAIPLVGYLYDVSQFIYLQFPLPVSLLSSLVLALLGAALLMARPGHPLMAVILRIAP 240 + L+AIPLVGYLY VSQF+YL FPLPVSLLS+LV+ALL ALLMARP HPLMA+I RIAP Sbjct: 181 IGLAAIPLVGYLYGVSQFVYLDFPLPVSLLSALVMALLATALLMARPAHPLMAIITRIAP 240 Query: 241 GGQMLRHLLPQTLFLLLAFSLLLNWGMSHGWILPELVLPTLTLINGVIVLFIFWGSASRL 300 GGQMLRHLLPQT+FLLLAFSLLLNWGM+HGWILPEL+LPTLTLINGVIVLFIFWGSASRL Sbjct: 241 GGQMLRHLLPQTVFLLLAFSLLLNWGMTHGWILPELLLPTLTLINGVIVLFIFWGSASRL 300 Query: 301 DSEYGERTRNAQKLAETSALLNAVSESTSDPIFVKNRQGLMIFANPATLHKLGKTWEETM 360 DSEYGERTRNAQKLAETSALLNAVSESTSDPIFVKNRQGLMIFANPATLHKLGKTWEETM Sbjct: 301 DSEYGERTRNAQKLAETSALLNAVSESTSDPIFVKNRQGLMIFANPATLHKLGKTWEETM 360 Query: 361 YRSSRELFLLPEEAEAVDRDDRRVMASGKPEKLEQTLHLPEGVVTFQTAKVPWFGKDGSV 420 YRSSRELFL+PEEA+ +DRDDRRVMASGKPEKLEQTLHLPEGVVTFQTAKVPWFGKDGSV Sbjct: 361 YRSSRELFLVPEEADTIDRDDRRVMASGKPEKLEQTLHLPEGVVTFQTAKVPWFGKDGSV 420 Query: 421 QGVIGISTDITERKQAEDELRQRESQLEKTVVQRTALLRELTNHLETVREEEKRAIAREL 480 QGVIGISTDITERKQAEDELRQRESQLEKTV+QRTALLRELTNHLETVREEEKRAIAREL Sbjct: 421 QGVIGISTDITERKQAEDELRQRESQLEKTVIQRTALLRELTNHLETVREEEKRAIAREL 480 Query: 481 HDNMGASLTALSMHLEGVYQILPADDKWADRKTRMQGLMKSLVATTRRIQTELRPNTLDL 540 HDNMGASLTALSMHLEGVYQILP D+KWADRK RMQGLMKSLVATTRRIQTELRPNTLDL Sbjct: 481 HDNMGASLTALSMHLEGVYQILPPDEKWADRKVRMQGLMKSLVATTRRIQTELRPNTLDL 540 Query: 541 FGLKAAISEQLDELHERTGIICRASLPDEDVEVGHEMEIAIYRMLQEMLNNVTKHAKASK 600 FGLKAAISEQLDELHERTGI C ASLPDEDVEVGHEMEIAIYRMLQEMLNNVTKHAKASK Sbjct: 541 FGLKAAISEQLDELHERTGIACHASLPDEDVEVGHEMEIAIYRMLQEMLNNVTKHAKASK 600 Query: 601 VDVILDVDEDHVALTVRDDGVGIPEERRDNHKTYGLRGLRERATFFGGEVDIRSTPGKGA 660 VDVILD+DEDHVALTVRDDGVGIPEERRDNHKTYGLRGLRERATFFGGEVDIRSTPGKGA Sbjct: 601 VDVILDIDEDHVALTVRDDGVGIPEERRDNHKTYGLRGLRERATFFGGEVDIRSTPGKGA 660 Query: 661 LISISLPL 668 LI+ISLP+ Sbjct: 661 LITISLPI 668 >gi|300311886|ref|YP_003775978.1| multi-sensor signal transduction histidine kinase [Herbaspirillum seropedicae SmR1] Length = 475 Score = 129 bits (323), Expect = 1e-30, Method: Compositional matrix adjust. Identities = 110/374 (29%), Positives = 183/374 (48%), Gaps = 41/374 (10%) Query: 310 NAQKLAETSALLNAVSESTSDPIFVKNRQGLMIFANPATLHKLGKTWEETMYRSSRELFL 369 +AQ L E A NA + P ++K+ Q + NPA G T + + EL + Sbjct: 121 SAQALREMQARFNAFMNAAPMPTWIKDAQLRYSYVNPAQSAFYGMTPGDMDGLTDLEL-M 179 Query: 370 LPEEAEAVDRDDRRVMASGKPEKLEQTLHLPEGVVT-------FQTAKVPWFGKDGSVQG 422 A A +DR+V+ +K E LH E V + P G +G Sbjct: 180 SSGAAAASQENDRKVL----EQKCE--LHTQETVFDHNHNARILDVVRFPISG-EGKGDM 232 Query: 423 VIGISTDITERKQAEDELRQRESQLEKTVVQRTALLRELTNHLETVREEEKRAIARELHD 482 V G++ D+TER+Q+ +L + +QR LL ++ + V+E E++ +AR LHD Sbjct: 233 VAGLAIDVTEREQSRRDL--------ELAIQRQQLL---SSRVIEVQERERQHLARGLHD 281 Query: 483 NMGASLTALSMHLEGVYQIL----PADDKWADRKTRMQGLMKSLVATTRRIQTELRPNTL 538 ++G SLTAL ++LE + ++ P+ D ++ +++A R + +LRP L Sbjct: 282 DVGQSLTALKINLETIKKMGSLEGPSLQNGID-------IVTAVLAQVRSLSLDLRPPQL 334 Query: 539 DLFGLKAAISEQLDELHERTGIICRASLPDEDVEVGHEMEIAIYRMLQEMLNNVTKHAKA 598 D GL AA+ +++ + + D ++ H++E +R++QE + N+ +HA+ Sbjct: 335 DNLGLIAALRSYVEQKSKLANVNGWFESSGHDEQLHHDIENTAFRIVQEAVTNILRHARC 394 Query: 599 SKVDVILDVDEDHVALTVRDDGVGIPEER-RDNH---KTYGLRGLRERATFFGGEVDIRS 654 + V +D D V L++RDDG G ER R N ++GL + ERA GG ++I S Sbjct: 395 QNIWVKIDRQHDQVYLSIRDDGRGFDIERARSNAISGTSFGLLNMEERAVLVGGSMEITS 454 Query: 655 TPGKGALISISLPL 668 PG G I + LP+ Sbjct: 455 APGAGTEIVMHLPV 468 >gi|300311282|ref|YP_003775374.1| transmembrane sensor histidine kinase transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 464 Score = 88.2 bits (217), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 66/231 (28%), Positives = 112/231 (48%), Gaps = 23/231 (9%) Query: 456 ALLRELTNHLETVREEEKRAIARELHDNMGASLTALSMHLEGVY--------QILPADDK 507 A LR+L + +EEE+ ++R+LHD + L ++ + +E Q A Sbjct: 233 AKLRQLAQRVVRSQEEERARLSRDLHDGISQWLVSIKLQIEAALVRLNGTPEQAATARAG 292 Query: 508 WADRKTRMQGLMKSLVATTRRIQTELRPNTLDLFGLKAAISEQLDELHERTG-----IIC 562 + T++ G++ A RRI +LRP LD GL AA+ E + G + Sbjct: 293 FEKTATQINGVL----AEVRRISHDLRPAILDDLGLAAALEHLCGEWRDAAGAGVEIVFE 348 Query: 563 RASLPDEDVEVGHEMEIAIYRMLQEMLNNVTKHAKASKVDVILDVDEDHVALTVRDDGVG 622 + D+ + + ++R+ QE L N+ +HA AS++ V L + + L V+D+G G Sbjct: 349 NQAQADDGATLPDVVNTVLFRIAQEALTNIARHAGASRIKVRLYQGHNLLMLQVQDNGHG 408 Query: 623 IPEERRDNHKTY--GLRGLRERATFFGGEVDIRSTPGKGALISI----SLP 667 + D+H + GLR +RER GGE+ I S+P ++ ++ SLP Sbjct: 409 FDLGQVDDHSRHGIGLRNMRERIEAVGGELGIDSSPAGTSISAVIARASLP 459 >gi|300312076|ref|YP_003776168.1| signal transduction histidine kinase [Herbaspirillum seropedicae SmR1] Length = 356 Score = 71.2 bits (173), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 59/207 (28%), Positives = 103/207 (49%), Gaps = 8/207 (3%) Query: 468 VREEEKRAIARELHDNMGASLTALSMHLEGVYQILPADDKWAD--RKTRMQGLMKSLVAT 525 +RE+E+ IAR+LHD++G L + M L + + L A A + L++ +A+ Sbjct: 150 IREQERERIARDLHDDLGGVLAGVGMALGRLQEQLAAQGLAAPLAEADEARQLLQQAMAS 209 Query: 526 TRRIQTELRPNTLDLFGLKAAISEQLDELHERTGIICRASLPDEDVEVGHEMEIAIYRML 585 I EL P ++ FGL A+ Q ++ + C+ P + + + + R+L Sbjct: 210 MHSIIDELHPPIVE-FGLVDALQWQCRQIQREYRLHCQLDCPPTLEQEDRFLILGLLRIL 268 Query: 586 QEMLNNVTKHAKASKVDVILDVDEDHVALTVRDDGVGI----PEERRDNHKTYGLRGLRE 641 +E +N +H +AS + V L + + + + + DDG GI +E H +GLR +RE Sbjct: 269 REAASNAARHGRASALRVDLRMRQARLEMQIADDGCGIAPLHAKEVAPRH-GHGLRNMRE 327 Query: 642 RATFFGGEVDIRSTPGKGALISISLPL 668 RA GGE+ I + G +I +P+ Sbjct: 328 RAQALGGELFIEAGQDGGVVIRTLIPV 354 >gi|300312939|ref|YP_003777031.1| transmembrane nitrate/nitrite sensor histidine kinase transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 650 Score = 70.9 bits (172), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 57/203 (28%), Positives = 106/203 (52%), Gaps = 14/203 (6%) Query: 472 EKRAIARELHDNMGASLTALSMHLEGVYQILPAD--DKWAD----RKTRMQGLMKSLVAT 525 E+ +A+ LHD++ L L++ ++ + L D D+ D +T +Q + + Sbjct: 446 ERNLLAQGLHDSIAQGLNFLNLQVQMLEDSLARDRLDEIRDIAPLLRTGVQENYEDVREL 505 Query: 526 TRRIQTELRPNTLDLFGLKAAISEQLDELHERTGIICRASLPDEDVEVGHEMEIAIYRML 585 +T L+ + LD + + + LD+L ++G+ + +L + + E ++ + +L Sbjct: 506 LLNFRTRLQDSNLD-----SEMRKALDKLQRQSGLQGQITLTGDGPPLAPEQQLQVLFIL 560 Query: 586 QEMLNNVTKHAKASKVDVILDVDEDHVALTVRDDGVGIPEE--RRDNHKTYGLRGLRERA 643 QE L+N+ KHA+A +V + +D +D +TV DDG G E R + GLR ++ERA Sbjct: 561 QEALSNIRKHARAQQVQISVDNRQD-FRMTVSDDGHGFTLESARAKGLEHVGLRIMQERA 619 Query: 644 TFFGGEVDIRSTPGKGALISISL 666 G ++I S PG G I+++L Sbjct: 620 ERLGANLEIDSQPGHGTRIALTL 642 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 0.320 0.136 0.392 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: 1,785,974 Number of extensions: 65757 Number of successful extensions: 328 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 323 Number of HSP's successfully gapped: 6 Length of query: 691 Length of database: 1,619,870 Length adjustment: 92 Effective length of query: 599 Effective length of database: 1,184,250 Effective search space: 709365750 Effective search space used: 709365750 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 (21.8 bits) S2: 134 (56.2 bits)