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= 0003.0048.p (456 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311282|ref|YP_003775374.1| transmembrane sensor histidine ... 509 e-145 gi|300311886|ref|YP_003775978.1| multi-sensor signal transductio... 102 6e-23 gi|300310534|ref|YP_003774626.1| transmembrane sensor histidine ... 88 2e-18 gi|300312531|ref|YP_003776623.1| methyl-accepting chemotaxis tra... 75 8e-15 gi|300312076|ref|YP_003776168.1| signal transduction histidine k... 74 2e-14 >gi|300311282|ref|YP_003775374.1| transmembrane sensor histidine kinase transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 464 Score = 509 bits (1310), Expect = e-145, Method: Compositional matrix adjust. Identities = 264/453 (58%), Positives = 334/453 (73%), Gaps = 7/453 (1%) Query: 1 MKLRHKIIFFAVTPLLISFGVIAVVVWHQTIRLGEQQRQSIQEAYRSSKDAELRHYVDLA 60 MKLR KIIF A+ PL ++F IA+VV +Q + L QQR +++ AY +SK+ ELRHYVDLA Sbjct: 1 MKLRQKIIFLAIVPLCLAFTAIALVVRYQAVELASQQRAAVEAAYLASKNTELRHYVDLA 60 Query: 61 EHSIAHLYERGDVENA-KREALDILARLDYGDDGYFFAYDFSGNTLVHPRQPELLGKNLW 119 +H++AHLY+ G ++A K EA +LA L++GDDGYFF YD +G +++HPRQPEL+G +W Sbjct: 61 QHALAHLYDTGRTDDAIKEEARHLLADLEFGDDGYFFVYDDTGRSIMHPRQPELVGSEMW 120 Query: 120 DWENVDGTKTIQRLIVRAQEGGGYERYLWRKPSSSTVAPKLAYVIALPKWGWIIGTGMYL 179 +W + G+ TIQ LI RA++GGGYERYLWRKPSS TVAPKL YVI+LP+WGW+IGTG+YL Sbjct: 121 NWRDASGSFTIQHLIERARQGGGYERYLWRKPSSKTVAPKLGYVISLPRWGWVIGTGIYL 180 Query: 180 DDVDAALANVDRQISGHNLDTMRLIAIIALLSVAAVAGFGLMFNLSEQRVADAKLRELAQ 239 DDV+AALA +DRQ SG+ T+ LIA IAL S AV GL+ NLSE RVADAKLR+LAQ Sbjct: 181 DDVEAALAQIDRQNSGYLHQTLLLIASIALASALAVGLAGLLLNLSEHRVADAKLRQLAQ 240 Query: 240 RVVLSQEEERARVARDLHDGISQHLVSIKLQTEAAIIKLEATREIAPACDA-FEHTVEQM 298 RVV SQEEERAR++RDLHDGISQ LVSIKLQ EAA+++L T E A A FE T Q+ Sbjct: 241 RVVRSQEEERARLSRDLHDGISQWLVSIKLQIEAALVRLNGTPEQAATARAGFEKTATQI 300 Query: 299 NRLLGEIRHISHGLRPALLDDLGLISALQFLCDEWNANGELQIDFSFSETSNAS-----P 353 N +L E+R ISH LRPA+LDDLGL +AL+ LC EW ++ F + A P Sbjct: 301 NGVLAEVRRISHDLRPAILDDLGLAAALEHLCGEWRDAAGAGVEIVFENQAQADDGATLP 360 Query: 354 DVVNTVMFRVAQEALNNIWRHAKASSVSLELTEDPGLFLLTIRDNGIGFDTGQIAKHPKR 413 DVVNTV+FR+AQEAL NI RHA AS + + L + L +L ++DNG GFD GQ+ H + Sbjct: 361 DVVNTVLFRIAQEALTNIARHAGASRIKVRLYQGHNLLMLQVQDNGHGFDLGQVDDHSRH 420 Query: 414 GIGLRNMAERLQAVGGSFSVSSSSEGTVVSAQV 446 GIGLRNM ER++AVGG + SS GT +SA + Sbjct: 421 GIGLRNMRERIEAVGGELGIDSSPAGTSISAVI 453 >gi|300311886|ref|YP_003775978.1| multi-sensor signal transduction histidine kinase [Herbaspirillum seropedicae SmR1] Length = 475 Score = 102 bits (254), Expect = 6e-23, Method: Compositional matrix adjust. Identities = 81/246 (32%), Positives = 127/246 (51%), Gaps = 22/246 (8%) Query: 215 VAGFGLMFNLSEQRVADAKL-----RELAQRVVLSQEEERARVARDLHDGISQHLVSIKL 269 VAG + EQ D +L + L+ RV+ QE ER +AR LHD + Q L ++K+ Sbjct: 233 VAGLAIDVTEREQSRRDLELAIQRQQLLSSRVIEVQERERQHLARGLHDDVGQSLTALKI 292 Query: 270 QTEAAIIKLEATREIAPACDAFEHTVEQMNRLLGEIRHISHGLRPALLDDLGLISALQFL 329 E IK + E P+ ++ ++ + +L ++R +S LRP LD+LGLI+AL+ Sbjct: 293 NLET--IKKMGSLE-GPS---LQNGIDIVTAVLAQVRSLSLDLRPPQLDNLGLIAALRSY 346 Query: 330 CDE----WNANGELQIDFSFSETSNASPDVVNTVMFRVAQEALNNIWRHAKASSVSLELT 385 ++ N NG + S D+ NT FR+ QEA+ NI RHA+ ++ +++ Sbjct: 347 VEQKSKLANVNGWFE---SSGHDEQLHHDIENTA-FRIVQEAVTNILRHARCQNIWVKID 402 Query: 386 EDPGLFLLTIRDNGIGFDTGQIAKHPKRG--IGLRNMAERLQAVGGSFSVSSS-SEGTVV 442 L+IRD+G GFD + + G GL NM ER VGGS ++S+ GT + Sbjct: 403 RQHDQVYLSIRDDGRGFDIERARSNAISGTSFGLLNMEERAVLVGGSMEITSAPGAGTEI 462 Query: 443 SAQVPL 448 +P+ Sbjct: 463 VMHLPV 468 >gi|300310534|ref|YP_003774626.1| transmembrane sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 677 Score = 87.8 bits (216), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 64/225 (28%), Positives = 107/225 (47%), Gaps = 14/225 (6%) Query: 232 AKLRELAQRVVLSQEEERARVARDLHDGISQHLVSIKLQTEAAIIKLEATREIAPACDAF 291 A LREL + +EEE+ +AR+LHD + L ++ + LE +I P + + Sbjct: 456 ALLRELTNHLETVREEEKRAIARELHDNMGASLTALSMH-------LEGVYQILPPDEKW 508 Query: 292 EHTVEQMNRLLGEI----RHISHGLRPALLDDLGLISALQFLCDEWNANGELQIDFSFSE 347 +M L+ + R I LRP LD GL +A+ DE + + S + Sbjct: 509 ADRKVRMQGLMKSLVATTRRIQTELRPNTLDLFGLKAAISEQLDELHERTGIACHASLPD 568 Query: 348 TSNASPDVVNTVMFRVAQEALNNIWRHAKASSVSLELTEDPGLFLLTIRDNGIGFDTGQI 407 + ++R+ QE LNN+ +HAKAS V + L D LT+RD+G+G + Sbjct: 569 EDVEVGHEMEIAIYRMLQEMLNNVTKHAKASKVDVILDIDEDHVALTVRDDGVGIPEERR 628 Query: 408 AKHPKRGIGLRNMAERLQAVGGSFSV-SSSSEGTVVSAQVPLQTK 451 H + GLR + ER GG + S+ +G +++ +P++ + Sbjct: 629 DNH--KTYGLRGLRERATFFGGEVDIRSTPGKGALITISLPIRPE 671 >gi|300312531|ref|YP_003776623.1| methyl-accepting chemotaxis transducer transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 609 Score = 75.5 bits (184), Expect = 8e-15, Method: Compositional matrix adjust. Identities = 41/115 (35%), Positives = 65/115 (56%), Gaps = 3/115 (2%) Query: 74 ENAKREALDILARLDYGDDGYFFAYDFSGNTLV-HPRQPELLGKNLWDWENVDGTKTIQR 132 E+A++ A + L YG DGYF + SG +V HP + EL GK+L ++++ G Sbjct: 70 EDAQKLAKQAIKSLRYGTDGYF-SISTSGQIIVMHPIKTELDGKDLSNFKDPAGNNLFVE 128 Query: 133 LI-VRAQEGGGYERYLWRKPSSSTVAPKLAYVIALPKWGWIIGTGMYLDDVDAAL 186 + ++ GG+ YLW K ++ PK ++VIA W W + TG Y+DD++AA Sbjct: 129 ITKAGSKPEGGFVHYLWPKVGAAEPVPKTSFVIAYKPWDWNLTTGAYMDDINAAF 183 >gi|300312076|ref|YP_003776168.1| signal transduction histidine kinase [Herbaspirillum seropedicae SmR1] Length = 356 Score = 73.9 bits (180), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 58/201 (28%), Positives = 96/201 (47%), Gaps = 7/201 (3%) Query: 245 QEEERARVARDLHDGISQHLVSIKLQTEAAIIKLEATREIAPACDAFEHTVEQMNRLLGE 304 +E+ER R+ARDLHD + L + + +L A AP +A E + + + + Sbjct: 151 REQERERIARDLHDDLGGVLAGVGMALGRLQEQLAAQGLAAPLAEADE-ARQLLQQAMAS 209 Query: 305 IRHISHGLRPALLDDLGLISALQFLCDEWNANGELQIDFSFSETSNASPDVVNTVMFRVA 364 + I L P ++ + GL+ ALQ+ C + L T + + R+ Sbjct: 210 MHSIIDELHPPIV-EFGLVDALQWQCRQIQREYRLHCQLDCPPTLEQEDRFLILGLLRIL 268 Query: 365 QEALNNIWRHAKASSVSLELTEDPGLFLLTIRDNGIG---FDTGQIAKHPKRGIGLRNMA 421 +EA +N RH +AS++ ++L + I D+G G ++A P+ G GLRNM Sbjct: 269 REAASNAARHGRASALRVDLRMRQARLEMQIADDGCGIAPLHAKEVA--PRHGHGLRNMR 326 Query: 422 ERLQAVGGSFSVSSSSEGTVV 442 ER QA+GG + + +G VV Sbjct: 327 ERAQALGGELFIEAGQDGGVV 347 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 0.135 0.394 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: 1,198,824 Number of extensions: 43748 Number of successful extensions: 172 Number of sequences better than 1.0e-08: 8 Number of HSP's gapped: 163 Number of HSP's successfully gapped: 8 Length of query: 456 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 368 Effective length of database: 1,203,190 Effective search space: 442773920 Effective search space used: 442773920 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: 132 (55.5 bits)