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= 0028.0011.p (416 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311886|ref|YP_003775978.1| multi-sensor signal transductio... 598 e-172 gi|300310534|ref|YP_003774626.1| transmembrane sensor histidine ... 125 6e-30 gi|300311282|ref|YP_003775374.1| transmembrane sensor histidine ... 110 2e-25 gi|300312939|ref|YP_003777031.1| transmembrane nitrate/nitrite s... 84 2e-17 gi|300312076|ref|YP_003776168.1| signal transduction histidine k... 64 3e-11 >gi|300311886|ref|YP_003775978.1| multi-sensor signal transduction histidine kinase [Herbaspirillum seropedicae SmR1] Length = 475 Score = 598 bits (1542), Expect = e-172, Method: Compositional matrix adjust. Identities = 309/474 (65%), Positives = 355/474 (74%), Gaps = 64/474 (13%) Query: 6 MEEDVILMVRELKRGGFEPTWQRVDTEPDMEAALRDK-WDIVISDYSMPMFSAVDA---- 60 MEED LMVRELKRGGFEP W+RVD E + AAL+ + WDIVISDYSMPMFS V+A Sbjct: 1 MEEDAFLMVRELKRGGFEPAWERVDDEQALLAALQAQPWDIVISDYSMPMFSGVEALKLV 60 Query: 61 ------------------------------------------HRTAAALREMQAR----- 73 H LR+ QAR Sbjct: 61 KAHNDQTPFIIVSGVIGEQTAVEVMKAGAQDYFLKSAIGRLPHAVDRELRDAQARRKQRA 120 Query: 74 -----------FYAFMSAAPMPAWIKDADLRYLYVNPAQSAFFGMTPGDMIGLSDFDIMS 122 F AFM+AAPMP WIKDA LRY YVNPAQSAF+GMTPGDM GL+D ++MS Sbjct: 121 SAQALREMQARFNAFMNAAPMPTWIKDAQLRYSYVNPAQSAFYGMTPGDMDGLTDLELMS 180 Query: 123 SGAAQNAQSNDRKVLDGNREMHTQETVFDADHNPKIMDMVRFPIGSDGK-ILAAGLAMDV 181 SGAA +Q NDRKVL+ E+HTQETVFD +HN +I+D+VRFPI +GK + AGLA+DV Sbjct: 181 SGAAAASQENDRKVLEQKCELHTQETVFDHNHNARILDVVRFPISGEGKGDMVAGLAIDV 240 Query: 182 TERVNSQKELEQAMQRQKMLASRVIEVQERERQHLARGLHDDVGQSLTALKINLETIKKT 241 TER S+++LE A+QRQ++L+SRVIEVQERERQHLARGLHDDVGQSLTALKINLETIKK Sbjct: 241 TEREQSRRDLELAIQRQQLLSSRVIEVQERERQHLARGLHDDVGQSLTALKINLETIKKM 300 Query: 242 GSLEGPSLQNGIDIVAAVLSQVRSLSLDLRPPQLDNLGLIATLRSYVENKSTLANVKGWF 301 GSLEGPSLQNGIDIV AVL+QVRSLSLDLRPPQLDNLGLIA LRSYVE KS LANV GWF Sbjct: 301 GSLEGPSLQNGIDIVTAVLAQVRSLSLDLRPPQLDNLGLIAALRSYVEQKSKLANVNGWF 360 Query: 302 ESSPLTVELHHDIENTCFRIVQEAVTNILRHAQAENIWVKVSQRQDQLNVSIRDDGKGFD 361 ESS +LHHDIENT FRIVQEAVTNILRHA+ +NIWVK+ ++ DQ+ +SIRDDG+GFD Sbjct: 361 ESSGHDEQLHHDIENTAFRIVQEAVTNILRHARCQNIWVKIDRQHDQVYLSIRDDGRGFD 420 Query: 362 LEKARSNAIAGTSFGLLNMEERAVLVGGAMDITSAPGEGVEIVLQLPVTPVMRR 415 +E+ARSNAI+GTSFGLLNMEERAVLVGG+M+ITSAPG G EIV+ LPV P++RR Sbjct: 421 IERARSNAISGTSFGLLNMEERAVLVGGSMEITSAPGAGTEIVMHLPVAPIVRR 474 >gi|300310534|ref|YP_003774626.1| transmembrane sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 677 Score = 125 bits (314), Expect = 6e-30, Method: Compositional matrix adjust. Identities = 99/370 (26%), Positives = 178/370 (48%), Gaps = 28/370 (7%) Query: 62 RTAAALREMQARFYAFMSAAPMPAWIKDADLRYLYVNPAQSAFFGMTPGDMIGLSDFDI- 120 R A L E A A + P ++K+ ++ NPA G T + + S ++ Sbjct: 309 RNAQKLAETSALLNAVSESTSDPIFVKNRQGLMIFANPATLHKLGKTWEETMYRSSRELF 368 Query: 121 MSSGAAQNAQSNDRKVLDGNREMHTQETVFDADHNPK---IMDMVRFP-IGSDGKILAA- 175 + A +DR+V+ + ++T+ H P+ + P G DG + Sbjct: 369 LVPEEADTIDRDDRRVMASGKPEKLEQTL----HLPEGVVTFQTAKVPWFGKDGSVQGVI 424 Query: 176 GLAMDVTERVNSQKELEQ--------AMQRQKML---ASRVIEVQERERQHLARGLHDDV 224 G++ D+TER ++ EL Q +QR +L + + V+E E++ +AR LHD++ Sbjct: 425 GISTDITERKQAEDELRQRESQLEKTVIQRTALLRELTNHLETVREEEKRAIARELHDNM 484 Query: 225 GQSLTALKINLETIKKTGSLEGPSLQNGI---DIVAAVLSQVRSLSLDLRPPQLDNLGLI 281 G SLTAL ++LE + + + + ++ ++++ R + +LRP LD GL Sbjct: 485 GASLTALSMHLEGVYQILPPDEKWADRKVRMQGLMKSLVATTRRIQTELRPNTLDLFGLK 544 Query: 282 ATLRSYVENKSTLANVKGWFESSPLTVELHHDIENTCFRIVQEAVTNILRHAQAENIWVK 341 A + ++ + VE+ H++E +R++QE + N+ +HA+A + V Sbjct: 545 AAISEQLDELHERTGIACHASLPDEDVEVGHEMEIAIYRMLQEMLNNVTKHAKASKVDVI 604 Query: 342 VSQRQDQLNVSIRDDGKGFDLEKARSNAIAGTSFGLLNMEERAVLVGGAMDITSAPGEGV 401 + +D + +++RDDG G E+ R N ++GL + ERA GG +DI S PG+G Sbjct: 605 LDIDEDHVALTVRDDGVGIP-EERRDNH---KTYGLRGLRERATFFGGEVDIRSTPGKGA 660 Query: 402 EIVLQLPVTP 411 I + LP+ P Sbjct: 661 LITISLPIRP 670 >gi|300311282|ref|YP_003775374.1| transmembrane sensor histidine kinase transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 464 Score = 110 bits (274), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 81/228 (35%), Positives = 119/228 (52%), Gaps = 15/228 (6%) Query: 199 KMLASRVIEVQERERQHLARGLHDDVGQSLTALKINLET--IKKTGSLE-GPSLQNGIDI 255 + LA RV+ QE ER L+R LHD + Q L ++K+ +E ++ G+ E + + G + Sbjct: 236 RQLAQRVVRSQEEERARLSRDLHDGISQWLVSIKLQIEAALVRLNGTPEQAATARAGFEK 295 Query: 256 VA----AVLSQVRSLSLDLRPPQLDNLGLIATLRSYVEN--KSTLANVKGWFESSPLT-- 307 A VL++VR +S DLRP LD+LGL A L + A V+ FE+ Sbjct: 296 TATQINGVLAEVRRISHDLRPAILDDLGLAAALEHLCGEWRDAAGAGVEIVFENQAQADD 355 Query: 308 -VELHHDIENTCFRIVQEAVTNILRHAQAENIWVKVSQRQDQLNVSIRDDGKGFDLEKAR 366 L + FRI QEA+TNI RHA A I V++ Q + L + ++D+G GFDL + Sbjct: 356 GATLPDVVNTVLFRIAQEALTNIARHAGASRIKVRLYQGHNLLMLQVQDNGHGFDLGQVD 415 Query: 367 SNAIAGTSFGLLNMEERAVLVGGAMDITSAP-GEGVEIVLQLPVTPVM 413 ++ G GL NM ER VGG + I S+P G + V+ P + Sbjct: 416 DHSRHG--IGLRNMRERIEAVGGELGIDSSPAGTSISAVIARASLPSL 461 >gi|300312939|ref|YP_003777031.1| transmembrane nitrate/nitrite sensor histidine kinase transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 650 Score = 84.0 bits (206), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 68/231 (29%), Positives = 114/231 (49%), Gaps = 23/231 (9%) Query: 189 KELEQAMQRQKMLASRVIEVQERERQHLARGLHDDVGQSLTALKINLETIKKTGSLE--- 245 + L A++ Q+++A ER LA+GLHD + Q L L + ++ ++ + + + Sbjct: 423 RHLGSAIENQRLIAREKEFAIANERNLLAQGLHDSIAQGLNFLNLQVQMLEDSLARDRLD 482 Query: 246 -----GPSLQNGIDIVAAVLSQVRSLSLDLRPPQLDNLGLIATLRSYVENKSTLANVKGW 300 P L+ G V VR L L+ R +L + L + +R ++ + ++G Sbjct: 483 EIRDIAPLLRTG---VQENYEDVRELLLNFR-TRLQDSNLDSEMRKALDKLQRQSGLQGQ 538 Query: 301 F----ESSPLTVELHHDIENTCFRIVQEAVTNILRHAQAENIWVKVSQRQDQLNVSIRDD 356 + PL E + I+QEA++NI +HA+A+ + + V RQD +++ DD Sbjct: 539 ITLTGDGPPLAPEQQLQV----LFILQEALSNIRKHARAQQVQISVDNRQD-FRMTVSDD 593 Query: 357 GKGFDLEKARSNAIAGTSFGLLNMEERAVLVGGAMDITSAPGEGVEIVLQL 407 G GF LE AR+ + GL M+ERA +G ++I S PG G I L L Sbjct: 594 GHGFTLESARAKGL--EHVGLRIMQERAERLGANLEIDSQPGHGTRIALTL 642 >gi|300312076|ref|YP_003776168.1| signal transduction histidine kinase [Herbaspirillum seropedicae SmR1] Length = 356 Score = 63.5 bits (153), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 56/211 (26%), Positives = 97/211 (45%), Gaps = 7/211 (3%) Query: 205 VIEVQERERQHLARGLHDDVGQSLTALKINLETIKKTGSLEG-----PSLQNGIDIVAAV 259 I ++E+ER+ +AR LHDD+G L + + L +++ + +G ++ Sbjct: 147 AIHIREQERERIARDLHDDLGGVLAGVGMALGRLQEQLAAQGLAAPLAEADEARQLLQQA 206 Query: 260 LSQVRSLSLDLRPPQLDNLGLIATLRSYVENKSTLANVKGWFESSPLTVELHHDIENTCF 319 ++ + S+ +L PP ++ GL+ L+ + + P + + Sbjct: 207 MASMHSIIDELHPPIVE-FGLVDALQWQCRQIQREYRLHCQLDCPPTLEQEDRFLILGLL 265 Query: 320 RIVQEAVTNILRHAQAENIWVKVSQRQDQLNVSIRDDGKGFDLEKARSNAIAGTSFGLLN 379 RI++EA +N RH +A + V + RQ +L + I DDG G A+ A GL N Sbjct: 266 RILREAASNAARHGRASALRVDLRMRQARLEMQIADDGCGIAPLHAKEVA-PRHGHGLRN 324 Query: 380 MEERAVLVGGAMDITSAPGEGVEIVLQLPVT 410 M ERA +GG + I + GV I +PV Sbjct: 325 MRERAQALGGELFIEAGQDGGVVIRTLIPVA 355 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 0.318 0.133 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: 1,247,920 Number of extensions: 49863 Number of successful extensions: 226 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 214 Number of HSP's successfully gapped: 6 Length of query: 416 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 328 Effective length of database: 1,203,190 Effective search space: 394646320 Effective search space used: 394646320 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 (21.7 bits) S2: 132 (55.5 bits)