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= 0015.0029.p (289 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313630|ref|YP_003777722.1| LysR family transcription regul... 493 e-140 gi|300312018|ref|YP_003776110.1| transcription regulator protein... 164 7e-42 gi|300309921|ref|YP_003774013.1| LysR family transcription regul... 144 6e-36 gi|300311233|ref|YP_003775325.1| LysR family transcription regul... 141 7e-35 gi|300311868|ref|YP_003775960.1| LysR family transcription regul... 135 3e-33 >gi|300313630|ref|YP_003777722.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 310 Score = 493 bits (1268), Expect = e-140, Method: Compositional matrix adjust. Identities = 260/289 (89%), Positives = 275/289 (95%) Query: 1 VAVVERQSFVRAAEHLGLSPSALSQTIRQLEERIGARLLNRTTRSVAPSASGELLYSRVA 60 VAVVERQSFVRAAEHLGLSPSALSQTIRQLE+RIGARLLNRTTRSVAPSA+GELLY RVA Sbjct: 13 VAVVERQSFVRAAEHLGLSPSALSQTIRQLEDRIGARLLNRTTRSVAPSANGELLYRRVA 72 Query: 61 PLFREMAAAVAEASEATGKMNGTLRINTLGIAARTVIAPRLARFHQANPGVVLDIVVDDT 120 PLFREMAAAVA+ASEATG+M+G LRINTLGIAART+IAPRLARFHQA+P VVLDIVVDDT Sbjct: 73 PLFREMAAAVAQASEATGQMSGRLRINTLGIAARTIIAPRLARFHQAHPDVVLDIVVDDT 132 Query: 121 LADIVAGRFDAGIRVGNRVEKDMVAIRLTPDLKMVAVASPDYLARRGIPRSPADLHAHTC 180 L DIVAGRFDAGIRVGNRVEKDMVAIRLTPDL MVAVASPDYLARRG+PRSP DLH HTC Sbjct: 133 LTDIVAGRFDAGIRVGNRVEKDMVAIRLTPDLNMVAVASPDYLARRGVPRSPKDLHDHTC 192 Query: 181 INWRLQTEGRQYRWEFKKRGRQVEVAVEGPVVTNHADIGIAAALDGLGIAYHFERDGVDE 240 INWRLQ +GR YRWEFKKRG+Q+EVAV+GP++TNHADIGIAAAL GLGIAYHFERDGV E Sbjct: 193 INWRLQMDGRHYRWEFKKRGQQLEVAVDGPIITNHADIGIAAALGGLGIAYHFERDGVSE 252 Query: 241 LLSQGRLVQVLADWSISRPGLFLYYPNRRHRPALLGAFIDCLLDRCTND 289 LLSQGRLVQVLADWSISRPGLFLYYPNR+HRPALLGAFIDCLLDR D Sbjct: 253 LLSQGRLVQVLADWSISRPGLFLYYPNRQHRPALLGAFIDCLLDRKLVD 301 >gi|300312018|ref|YP_003776110.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 305 Score = 164 bits (416), Expect = 7e-42, Method: Compositional matrix adjust. Identities = 105/282 (37%), Positives = 156/282 (55%), Gaps = 2/282 (0%) Query: 1 VAVVERQSFVRAAEHLGLSPSALSQTIRQLEERIGARLLNRTTRSVAPSASGELLYSRVA 60 V ++ SF AA LGL+PSA S +++LEER+ +LL R++R+++P+A+G L +R+ Sbjct: 16 VTILRTGSFKAAAIQLGLTPSATSHAMKRLEERLATQLLYRSSRAISPTAAGSELAARLE 75 Query: 61 PLFREMAAAVAEASEATGKMNGTLRINTLGIAARTVIAPRLARFHQANPGVVLDIVVDDT 120 F ++ AA+++ + G LRIN AA +I P + F + P V L IVVDD Sbjct: 76 QGFEQIGAALSQLDSSAAGSLGELRINVFADAAHLLIEPAIPEFVRQCPKVRLTIVVDDK 135 Query: 121 LADIVAGRFDAGIRVGNRVEKDMVAIRLTPDLKMVAVASPDYLARRGIPRSPADLHAHTC 180 DIV+ +DAGIR G+ V + MV LT + VA A+P YL R G P + DL HTC Sbjct: 136 PIDIVSEGYDAGIRYGHYVPEGMVTAPLTRAHRWVAAAAPAYLDRHGRPLTLQDLQQHTC 195 Query: 181 INWRLQTEGRQYRWEFKKRGRQVEVAVEGPVVTNHADIGIAAALDGLGIAYHFERDGVDE 240 + L + Y+WEF + + + V G V N+ IAAA G+GIAY E + + Sbjct: 196 LQL-LLGDNSSYQWEFGRGKHRQRIRVPGLVTINNTAATIAAAKAGVGIAYLLE-GRISK 253 Query: 241 LLSQGRLVQVLADWSISRPGLFLYYPNRRHRPALLGAFIDCL 282 + +G L +L +W+ +YY +RRH L ID + Sbjct: 254 EIEEGSLETILEEWAAPSEPFHMYYSSRRHAHPALRKLIDII 295 >gi|300309921|ref|YP_003774013.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 299 Score = 144 bits (364), Expect = 6e-36, Method: Compositional matrix adjust. Identities = 97/291 (33%), Positives = 152/291 (52%), Gaps = 18/291 (6%) Query: 1 VAVVERQSFVRAAEHLGLSPSALSQTIRQLEERIGARLLNRTTRSVAPSASGELLYSRVA 60 +AV + SFV+AAE LG+S +A+S+T+ +LE R+G+RL+ RTTR ++ + +G L R Sbjct: 11 IAVADLGSFVKAAEALGISKAAVSRTVLELEARLGSRLMQRTTRRLSLTEAGALYLERC- 69 Query: 61 PLFREMAAAVAEA----SEATGKMNGTLRIN---TLGIAARTVIAPRLARFHQANPGVVL 113 +++ AA+ EA S + K G LRIN T G+ +AP F + +P + L Sbjct: 70 ---KQIVAALEEADDLLSSGSAKPTGLLRINAPLTFGVLH---LAPLWPMFLERHPEISL 123 Query: 114 DIVVDDTLADIVAGRFDAGIRVGNRVEKDMVAIRLTPDLKMVAVASPDYLARRGIPRSPA 173 DI + D + DI+ +D IR+ + +V +LT + ASP YL G P P Sbjct: 124 DITLSDRIVDIIDEGYDMAIRIARLSDSTLVHRKLT-STSLHVCASPAYLDAHGTPAHPH 182 Query: 174 DLHAHTCINWRLQTEGRQYRWEFKKRGRQVEVAVEGPVVTNHADIGIAAALDGLGIAYHF 233 +L H I++ + W+F V V V + N+ D + AAL G+GI Sbjct: 183 ELAQHQTISYSYNQSKDE--WQFNGPEGPVSVRVSSRLHVNNGDSCVQAALGGIGITRQ- 239 Query: 234 ERDGVDELLSQGRLVQVLADWSISRPGLFLYYPNRRHRPALLGAFIDCLLD 284 +D+ L G+LV +L D+ G++ YP+R H PA + A +D L + Sbjct: 240 PTFMIDQYLRSGQLVSILGDYGAPELGIYAVYPSRAHLPAKMRAMLDFLTE 290 >gi|300311233|ref|YP_003775325.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 315 Score = 141 bits (355), Expect = 7e-35, Method: Compositional matrix adjust. Identities = 95/293 (32%), Positives = 143/293 (48%), Gaps = 13/293 (4%) Query: 3 VVERQSFVRAAEHLGLSPSALSQTIRQLEERIGARLLNRTTRSVAPSASGELLYSRVAPL 62 VVE SF AA LG +PSA+S+ I +LE+ +G +LL RTTR + S SG+ +++R + Sbjct: 19 VVETGSFSEAARQLGATPSAISRAIARLEKALGTQLLQRTTRKLRLSESGQDIHARCRDM 78 Query: 63 FREMAAAVAEASEATGKMNGTLRINTLGIAARTVIAPRLARFHQANPGVVLDIVVDDTLA 122 A +A + + G +R++ ++ P + F A+P V + + ++D Sbjct: 79 LNAAQAVLAVSGAFDAEPQGQVRVSVPKAVGHALVHPHVPDFLAAHPKVDVLLRLEDRYM 138 Query: 123 DIVAGRFDAGIRVGNRVEKDMVAIRLTPDLKMVAVASPDYLARRGIPRSPADLHAHTCIN 182 D++ D IR+ + ++ RL + + A+P YLA G P P L H+CI Sbjct: 139 DLIDDEVDLAIRITDHPPPGLMGRRLM-RIDHLLCATPHYLATHGTPAHPQALKEHSCIY 197 Query: 183 WRLQTEGRQYRWEFKKRGRQVEVAVEGPVVTNHADIGIAAALDGLGIA---YHFERDGVD 239 L RW F+++G+ V V V G NH + + A L LGIA Y R ++ Sbjct: 198 --LGESPADARWRFRRQGKSVNVEVRGRYAANHTGVRLDAVLRHLGIASLPYFIARPALE 255 Query: 240 ELLSQGRLVQVLADWSISRP---GLFLYYPNRRHRPALLGAFIDCLLDRCTND 289 E G LVQVL WS L+ YP RH P LGAF+ L R + Sbjct: 256 E----GSLVQVLPQWSFRTHYCGELWALYPATRHLPPRLGAFVQFLAQRLAQE 304 >gi|300311868|ref|YP_003775960.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 307 Score = 135 bits (341), Expect = 3e-33, Method: Compositional matrix adjust. Identities = 93/281 (33%), Positives = 138/281 (49%), Gaps = 2/281 (0%) Query: 3 VVERQSFVRAAEHLGLSPSALSQTIRQLEERIGARLLNRTTRSVAPSASGELLYSRVAPL 62 V E SF AA LGL +++S I+QLE+ +G RLL RTTR V +A GE Y R L Sbjct: 13 VAELASFSGAARQLGLPNASVSLAIQQLEQMLGTRLLQRTTRRVQLTADGEAFYRRSREL 72 Query: 63 FREMAAAVAEASEATGKMNGTLRINTLGIAARTVIAPRLARFHQANPGVVLDIVVDDTLA 122 E + + ++G LR++ AR V+ P L F +P + +++ D Sbjct: 73 LDEFESLRGMFHDGAQALSGRLRVDMSSAMAREVVLPALPSFLDKHPQLEIELSASDRRV 132 Query: 123 DIVAGRFDAGIRVGNRVEKDMVAIRLTPDLKMVAVASPDYLARRGIPRSPADLHAHTCIN 182 D+VA FD +R G + +VA R L + ASP+YL R G P++ DL H ++ Sbjct: 133 DLVAEGFDCVLRTGTLDDSSLVA-RPIGHLVQINCASPEYLRRYGTPQTLEDLAQHRLVH 191 Query: 183 WRLQTEGRQYRWEFKKRGRQVEVAVEGPVVTNHADIGIAAALDGLG-IAYHFERDGVDEL 241 +R GR WE+ + + + G + N + AA L GLG I ++ Sbjct: 192 YRQVLGGRSPGWEWFDGQQTRSLPMAGSITVNSTETYYAACLAGLGLIQLPLVGAQKRQM 251 Query: 242 LSQGRLVQVLADWSISRPGLFLYYPNRRHRPALLGAFIDCL 282 L G +V+VL + + + L Y +RRH PA L F+D L Sbjct: 252 LDGGHVVEVLPQYRPAPMPVSLLYASRRHVPARLAGFMDWL 292 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 0.323 0.137 0.402 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: 839,362 Number of extensions: 32768 Number of successful extensions: 256 Number of sequences better than 1.0e-08: 51 Number of HSP's gapped: 203 Number of HSP's successfully gapped: 51 Length of query: 289 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 205 Effective length of database: 1,222,130 Effective search space: 250536650 Effective search space used: 250536650 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 (22.0 bits) S2: 130 (54.7 bits)