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= 0028.0051.p (407 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 ... 673 0.0 gi|300311886|ref|YP_003775978.1| multi-sensor signal transductio... 105 6e-24 gi|300310534|ref|YP_003774626.1| transmembrane sensor histidine ... 89 6e-19 gi|300312531|ref|YP_003776623.1| methyl-accepting chemotaxis tra... 80 3e-16 gi|300312076|ref|YP_003776168.1| signal transduction histidine k... 77 3e-15 >gi|300311282|ref|YP_003775374.1| transmembrane sensor histidine kinase transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 464 Score = 673 bits (1736), Expect = 0.0, Method: Compositional matrix adjust. Identities = 356/405 (87%), Positives = 377/405 (93%), Gaps = 2/405 (0%) Query: 1 VDLAQHALAHLYDTGRTDDAIKEEARRILSDLAFGDDGYFFVYDDQGRSIMHPRQPELVG 60 VDLAQHALAHLYDTGRTDDAIKEEAR +L+DL FGDDGYFFVYDD GRSIMHPRQPELVG Sbjct: 57 VDLAQHALAHLYDTGRTDDAIKEEARHLLADLEFGDDGYFFVYDDTGRSIMHPRQPELVG 116 Query: 61 REMWDWRDDSGSPTIQHLIERAHQGGGFERYLWRKPSSKTVAPKLGYVIALPRWGWVIGT 120 EMW+WRD SGS TIQHLIERA QGGG+ERYLWRKPSSKTVAPKLGYVI+LPRWGWVIGT Sbjct: 117 SEMWNWRDASGSFTIQHLIERARQGGGYERYLWRKPSSKTVAPKLGYVISLPRWGWVIGT 176 Query: 121 GIYLDDVEAALAQVDHQNSGYLHQTMLLIAIIALSSALAVGLAGLLLNLSEHRVADAKLR 180 GIYLDDVEAALAQ+D QNSGYLHQT+LLIA IAL+SALAVGLAGLLLNLSEHRVADAKLR Sbjct: 177 GIYLDDVEAALAQIDRQNSGYLHQTLLLIASIALASALAVGLAGLLLNLSEHRVADAKLR 236 Query: 181 QLAQRVVRSQEEERARLSRDLHDGISQWLVSIKLQIEAALERLRGTPEQAAAARAGFEKT 240 QLAQRVVRSQEEERARLSRDLHDGISQWLVSIKLQIEAAL RL GTPEQAA ARAGFEKT Sbjct: 237 QLAQRVVRSQEEERARLSRDLHDGISQWLVSIKLQIEAALVRLNGTPEQAATARAGFEKT 296 Query: 241 ATQINGVLAEVRRISHDLRPAILDDLGLAAALEHLCGEWRESS-PQTQIVFEHERQRKDG 299 ATQINGVLAEVRRISHDLRPAILDDLGLAAALEHLCGEWR+++ +IVFE++ Q DG Sbjct: 297 ATQINGVLAEVRRISHDLRPAILDDLGLAAALEHLCGEWRDAAGAGVEIVFENQAQADDG 356 Query: 300 AALSDVVNTVLFRVAQEALTNIARHANASQIRMRLYDGHNLLMLQVQDNGSGFDPGQVDD 359 A L DVVNTVLFR+AQEALTNIARHA AS+I++RLY GHNLLMLQVQDNG GFD GQVDD Sbjct: 357 ATLPDVVNTVLFRIAQEALTNIARHAGASRIKVRLYQGHNLLMLQVQDNGHGFDLGQVDD 416 Query: 360 HSRHGIGLRNMRERMEAVGGELGIDSSAAGTSISAIIPRSSLFPS 404 HSRHGIGLRNMRER+EAVGGELGIDSS AGTSISA+I R+SL PS Sbjct: 417 HSRHGIGLRNMRERIEAVGGELGIDSSPAGTSISAVIARASL-PS 460 >gi|300311886|ref|YP_003775978.1| multi-sensor signal transduction histidine kinase [Herbaspirillum seropedicae SmR1] Length = 475 Score = 105 bits (262), Expect = 6e-24, Method: Compositional matrix adjust. Identities = 83/246 (33%), Positives = 126/246 (51%), Gaps = 21/246 (8%) Query: 162 LAGLLLNLSEHR-------VADAKLRQLAQRVVRSQEEERARLSRDLHDGISQWLVSIKL 214 +AGL ++++E +A + + L+ RV+ QE ER L+R LHD + Q L ++K+ Sbjct: 233 VAGLAIDVTEREQSRRDLELAIQRQQLLSSRVIEVQERERQHLARGLHDDVGQSLTALKI 292 Query: 215 QIEAALERLRGTPEQAAAARAGFEKTATQINGVLAEVRRISHDLRPAILDDLGLAAALEH 274 +E + G+ E + + + VLA+VR +S DLRP LD+LGL AAL Sbjct: 293 NLETI--KKMGSLEGPS-----LQNGIDIVTAVLAQVRSLSLDLRPPQLDNLGLIAALRS 345 Query: 275 LCGEWRESSPQTQIVFEHERQRKDGAALSDVVNTVLFRVAQEALTNIARHANASQIRMRL 334 + S + E D D+ NT FR+ QEA+TNI RHA I +++ Sbjct: 346 YV---EQKSKLANVNGWFESSGHDEQLHHDIENTA-FRIVQEAVTNILRHARCQNIWVKI 401 Query: 335 YDGHNLLMLQVQDNGSGFDPGQVDDHSRHG--IGLRNMRERMEAVGGELGIDSS-AAGTS 391 H+ + L ++D+G GFD + ++ G GL NM ER VGG + I S+ AGT Sbjct: 402 DRQHDQVYLSIRDDGRGFDIERARSNAISGTSFGLLNMEERAVLVGGSMEITSAPGAGTE 461 Query: 392 ISAIIP 397 I +P Sbjct: 462 IVMHLP 467 >gi|300310534|ref|YP_003774626.1| transmembrane sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 677 Score = 89.0 bits (219), Expect = 6e-19, Method: Compositional matrix adjust. Identities = 72/232 (31%), Positives = 116/232 (50%), Gaps = 16/232 (6%) Query: 177 AKLRQLAQRVVRSQEEERARLSRDLHDGISQWLVSIKLQIEAALERLRGTPEQAAAARAG 236 A LR+L + +EEE+ ++R+LHD + L ++ + +E + L P++ A R Sbjct: 456 ALLRELTNHLETVREEEKRAIARELHDNMGASLTALSMHLEGVYQIL--PPDEKWADR-- 511 Query: 237 FEKTATQ--INGVLAEVRRISHDLRPAILDDLGLAAALEHLCGEWRESSPQTQIVFEHER 294 K Q + ++A RRI +LRP LD GL AA+ E E +T I H Sbjct: 512 --KVRMQGLMKSLVATTRRIQTELRPNTLDLFGLKAAISEQLDELHE---RTGIAC-HAS 565 Query: 295 QRKDGAALSDVVNTVLFRVAQEALTNIARHANASQIRMRLYDGHNLLMLQVQDNGSGFDP 354 + + + ++R+ QE L N+ +HA AS++ + L + + L V+D+G G Sbjct: 566 LPDEDVEVGHEMEIAIYRMLQEMLNNVTKHAKASKVDVILDIDEDHVALTVRDDGVGIPE 625 Query: 355 GQVDDHSRHGIGLRNMRERMEAVGGELGIDSSAA-GTSISAIIP-RSSLFPS 404 + D+H + GLR +RER GGE+ I S+ G I+ +P R L PS Sbjct: 626 ERRDNHKTY--GLRGLRERATFFGGEVDIRSTPGKGALITISLPIRPELVPS 675 >gi|300312531|ref|YP_003776623.1| methyl-accepting chemotaxis transducer transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 609 Score = 80.5 bits (197), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 43/139 (30%), Positives = 73/139 (52%), Gaps = 8/139 (5%) Query: 1 VDLAQHALAHLYDTGRTDDA---IKEEARRI----LSDLAFGDDGYFFVYDDQGRSIMHP 53 ++ Q AL+ + G D+ KE+A+++ + L +G DGYF + +MHP Sbjct: 45 TNIGQTALSLVKGYGALADSGALSKEDAQKLAKQAIKSLRYGTDGYFSISTSGQIIVMHP 104 Query: 54 RQPELVGREMWDWRDDSGSPTIQHLIERAHQG-GGFERYLWRKPSSKTVAPKLGYVIALP 112 + EL G+++ +++D +G+ + + + GGF YLW K + PK +VIA Sbjct: 105 IKTELDGKDLSNFKDPAGNNLFVEITKAGSKPEGGFVHYLWPKVGAAEPVPKTSFVIAYK 164 Query: 113 RWGWVIGTGIYLDDVEAAL 131 W W + TG Y+DD+ AA Sbjct: 165 PWDWNLTTGAYMDDINAAF 183 >gi|300312076|ref|YP_003776168.1| signal transduction histidine kinase [Herbaspirillum seropedicae SmR1] Length = 356 Score = 77.0 bits (188), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 68/211 (32%), Positives = 107/211 (50%), Gaps = 11/211 (5%) Query: 190 QEEERARLSRDLHDGISQWLVSIKLQIEAALERLRGTPEQAAAARAGFEKTATQINGVLA 249 +E+ER R++RDLHD + L + + + E+L + AA A ++ + +A Sbjct: 151 REQERERIARDLHDDLGGVLAGVGMALGRLQEQLAA--QGLAAPLAEADEARQLLQQAMA 208 Query: 250 EVRRISHDLRPAILDDLGLAAALEHLCGE-WRESSPQTQIVFEHERQRKDGAALSDVVNT 308 + I +L P I++ GL AL+ C + RE Q+ +++D + Sbjct: 209 SMHSIIDELHPPIVE-FGLVDALQWQCRQIQREYRLHCQLDCPPTLEQED-----RFLIL 262 Query: 309 VLFRVAQEALTNIARHANASQIRMRLYDGHNLLMLQVQDNGSGFDPGQVDD-HSRHGIGL 367 L R+ +EA +N ARH AS +R+ L L +Q+ D+G G P + RHG GL Sbjct: 263 GLLRILREAASNAARHGRASALRVDLRMRQARLEMQIADDGCGIAPLHAKEVAPRHGHGL 322 Query: 368 RNMRERMEAVGGELGIDSSA-AGTSISAIIP 397 RNMRER +A+GGEL I++ G I +IP Sbjct: 323 RNMRERAQALGGELFIEAGQDGGVVIRTLIP 353 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 0.397 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: 1,132,797 Number of extensions: 42696 Number of successful extensions: 210 Number of sequences better than 1.0e-08: 8 Number of HSP's gapped: 199 Number of HSP's successfully gapped: 8 Length of query: 407 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 320 Effective length of database: 1,207,925 Effective search space: 386536000 Effective search space used: 386536000 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)