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= 0002.0319.p (465 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311134|ref|YP_003775226.1| transcription regulator protein... 330 1e-91 gi|300313928|ref|YP_003778020.1| GntR family transcription regul... 300 2e-82 gi|300312337|ref|YP_003776429.1| transcription regulator protein... 296 2e-81 gi|300312133|ref|YP_003776225.1| transcription regulator protein... 270 2e-73 gi|300311016|ref|YP_003775108.1| MocR family transcription regul... 158 9e-40 >gi|300311134|ref|YP_003775226.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 500 Score = 330 bits (847), Expect = 1e-91, Method: Compositional matrix adjust. Identities = 177/462 (38%), Positives = 271/462 (58%), Gaps = 19/462 (4%) Query: 13 SLVEQIVEQLRKLIDKGTLRSGTKMTSIRLFAQQQAVSVHTVAEAYERLVALGYFESRPR 72 SLVEQIV +R ID LRSG +M SIR FA +S TV EAY+RLVA GY ESR Sbjct: 39 SLVEQIVRGIRARIDDKLLRSGMRMPSIRQFADTNQISRFTVVEAYDRLVAQGYLESRRG 98 Query: 73 SGFFIKR---------AHTAEQKRDPTQSFAKAFDHLWQLRSHLINADGLLNVTSGKLPT 123 SGF++K A AE +P + D +W +R+ G LP Sbjct: 99 SGFYVKERAPLGGSYGAAQAELDTEP----GRGLDVVWLVRNMFRQMPPAKMPGGGLLPP 154 Query: 124 DWMDADMVRASLKSVAAKIDSAMLQYGDPHGYLPLRSLLQTRLSDLGIHTQSDQILLTGG 183 DW+D +++ +L++V+ +L YG P G+LPLR LQ +L++L I +QI+LT G Sbjct: 155 DWLDGELIANALRAVSRDNPQLLLGYGTPQGFLPLRQQLQLKLAELEIAAAPEQIVLTTG 214 Query: 184 ASQAMDLIIRYLLRTGDKVLVDDPGYFNLFSNLQMQGIEPLPVRRNHDGPDLDMLENLAQ 243 +Q +D + R+ LR GD + VDDP +F +F + G + + + R DGPD+ L LA Sbjct: 215 VTQGLDTVARHFLRPGDVIFVDDPAWFLMFGSFAALGAKVVGIPRLGDGPDIARLRELAA 274 Query: 244 LHRPRMMFTQSILQTPTGSTISAGNAYRLLRLAEQYDFRIVENDVYADMLG----EPVPR 299 +H+P++ S+L PT +++SA A+++LR+AE++DF IVE+D+Y DM +P R Sbjct: 275 VHKPKLYVINSVLHNPTSTSLSAAKAFQVLRIAEEHDFVIVEDDIYCDMHPGSAVQPATR 334 Query: 300 IAALDQLSRVLYVGSFSKTLSVSARVGYVAAAAADIRDLANMKMITSITSAQLAEKFVFH 359 IAALDQL RV+Y+G FSKTLS + RVGY+A +A R LA+ K+++++T+ ++ E+ + Sbjct: 335 IAALDQLQRVIYLGGFSKTLSANLRVGYIATSAELARSLADRKLLSTLTTGEIGERVAYK 394 Query: 360 ALTEGLYRRSVERLRLRLAASMAETEKALRPLGFQFFCRPLGGKFVWLRHPNFESSSDIW 419 L+EG YR+ ER+R RL + + + L LG P G F+W+ ++ + Sbjct: 395 VLSEGHYRKHAERVRARLNGARDKVMRQLERLGMDVVEAPPCGMFLWVD--TGRDTNVMT 452 Query: 420 KLAGDAGIVIAPGKVFRSSMQDTPWFRLNVSYGTEPALLKFL 461 + A G ++APG +F + + + R+NV+ +P + +FL Sbjct: 453 EAAMQEGFLLAPGSLFSPAQLPSTYMRINVASMADPGIWRFL 494 >gi|300313928|ref|YP_003778020.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 472 Score = 300 bits (768), Expect = 2e-82, Method: Compositional matrix adjust. Identities = 166/452 (36%), Positives = 248/452 (54%), Gaps = 1/452 (0%) Query: 14 LVEQIVEQLRKLIDKGTLRSGTKMTSIRLFAQQQAVSVHTVAEAYERLVALGYFESRPRS 73 LVEQ+ L LI+ G LRSG ++ S+R FAQ + TV EAYE+LVA G ++R + Sbjct: 21 LVEQVANGLAGLIETGELRSGERLPSVRQFAQHHDIGSSTVVEAYEQLVARGMLQARRGA 80 Query: 74 GFFIKRAHTAEQKRDPTQSFAKAFDHLWQLRSHLINADGLLNVTSGKLPTDWMDADMVRA 133 GFF+ + D W L + + G LP W++ + + Sbjct: 81 GFFVAARAGQSGQHAVFVPPEPVIDSAWLLSEMFADERVPIKAGCGWLPGKWLNDEGLHQ 140 Query: 134 SLKSVAAKIDSAMLQYGDPHGYLPLRSLLQTRLSDLGIHTQSDQILLTGGASQAMDLIIR 193 + + + + + YG P+GY PLR L+ L + +Q+L T GA+QA+DL+IR Sbjct: 141 AERRIIRSPGAQQVGYGHPYGYAPLRQLITQFLGHWSLELGIEQVLTTHGATQALDLVIR 200 Query: 194 YLLRTGDKVLVDDPGYFNLFSNLQMQGIEPLPVRRNHDGPDLDMLENLAQLHRPRMMFTQ 253 + + GD VL+DDPGY NL + L++ G+ + V R G D D+LE LA+ H P+M FT Sbjct: 201 TMTQPGDTVLIDDPGYCNLIAMLRLAGLNVIGVPRTPGGVDTDVLETLARTHHPKMFFTT 260 Query: 254 SILQTPTGSTISAGNAYRLLRLAEQYDFRIVENDVYADMLGEPVPRIAALDQLSRVLYVG 313 S+LQ PTG++ + A R+L+ AE++ F +VE+D++ ++ P +AALD L RV+YVG Sbjct: 261 SVLQNPTGTSYTPACAMRVLQAAERHGFWVVEDDIFRELGQATDPMLAALDGLQRVIYVG 320 Query: 314 SFSKTLSVSARVGYVAAAAADIRDLANMKMITSITSAQLAEKFVFHALTEGLYRRSVERL 373 S+SKT++ S RVGY+A R + + KM+ ++T++++ E+ V + LTEG +RR V+ L Sbjct: 321 SYSKTIAPSLRVGYIACQRELARQIVHTKMVLTLTNSEINERLVHNVLTEGHHRRHVQTL 380 Query: 374 RLRLAASMAETEKALRPLGFQFFCRPLGGKFVWLRHPNFE-SSSDIWKLAGDAGIVIAPG 432 L ++ A L +G F GG F W E S+ +I A GI +APG Sbjct: 381 NATLLSAQATLNAKLSEVGLTPFTAARGGMFSWATIEGCELSAREIADRARQKGIWLAPG 440 Query: 433 KVFRSSMQDTPWFRLNVSYGTEPALLKFLRTI 464 F S FR NV Y P L FLR + Sbjct: 441 DFFHLSAPHQTSFRFNVGYADVPELFDFLRGL 472 >gi|300312337|ref|YP_003776429.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 469 Score = 296 bits (759), Expect = 2e-81, Method: Compositional matrix adjust. Identities = 167/448 (37%), Positives = 254/448 (56%), Gaps = 9/448 (2%) Query: 8 ASVRMSLVEQIVEQLRKLIDKGTLRSGTKMTSIRLFAQQQAVSVHTVAEAYERLVALGYF 67 A +L +V+ +R+ I +G G+++ SIR A + + +T+ ++ L ALG Sbjct: 2 AEASTTLTSTLVQLIRRQIAEGVYAPGSRLPSIREMAARHGCAKNTIVNVFDELTALGLA 61 Query: 68 ESRPRSGFFIKRAHTAEQKRDPTQSFAKAFDHLWQLRSHLINADGLLNVTSGKLPTDWM- 126 E R +GFF+ A K D + ++A D +W +R L + G L + G P +W+ Sbjct: 62 EPRRGAGFFVCVA-PPRPKEDEEGNLSRAMDVVWLMREQLKHDPGQLRLGDGFPPVEWLH 120 Query: 127 DADMVRASLKSVAAKIDSAMLQYGDPHGYLPLRSLLQTRLSDLGIHTQSDQILLTGGASQ 186 D + + K V I A+ YG GYLPLR L +L+ GI + QI+LT GA+Q Sbjct: 121 DVRLDKFHQKVVRTGI-GALFGYGSRFGYLPLRQHLVHKLAQHGIEAGTGQIVLTHGANQ 179 Query: 187 AMDLIIRYLLRTGDKVLVDDPGYFNLFSNLQMQGIEPLPVRRNHDGPDLDMLENLAQLHR 246 A+D++IR+ +R GD+VLVD+PGY+ L+ L++ G + + R DGPD+ +LE +LHR Sbjct: 180 ALDIVIRHFIRPGDRVLVDEPGYYMLYGKLKLSGARIIGIPRLPDGPDVAVLER--ELHR 237 Query: 247 P---RMMFTQSILQTPTGSTISAGNAYRLLRLAEQYDFRIVENDVYADMLGEPVPRIAAL 303 P + FTQS+ PT S S A+R+L+LA++Y IVEND +AD PRIA L Sbjct: 238 PGKPPLFFTQSLAHNPTASDTSPHKAHRILQLADRYQAIIVENDAFADFKPATAPRIATL 297 Query: 304 DQLSRVLYVGSFSKTLSVSARVGYVAAAAADIRDLANMKMITSITSAQLAEKFVFHALTE 363 DQL R +YVGSFSK++S + RVG++A DLA++KM+ ++S++ E+ + L++ Sbjct: 298 DQLRRTVYVGSFSKSVSAALRVGFIACHRDLASDLADIKMLVHMSSSEYCERTLDVILSD 357 Query: 364 GLYRRSVERLRLRLAASMAETEKALRPLGFQFFCRPLGGKFVWLRHPNFESSSDIWKLAG 423 G + R RLR RLA + + L LG + FC P ++W R P FE + + + Sbjct: 358 GHFSRHTARLRERLAQATEQARAQLEGLGAELFCAPQQAMYLWARFPWFEDAKRLAQRLM 417 Query: 424 DAGIVIAPGKVFRSSMQDT-PWFRLNVS 450 IV+APG +F + T PW R NV Sbjct: 418 QRQIVLAPGSIFHVDTEQTQPWSRFNVG 445 >gi|300312133|ref|YP_003776225.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 491 Score = 270 bits (689), Expect = 2e-73, Method: Compositional matrix adjust. Identities = 164/451 (36%), Positives = 250/451 (55%), Gaps = 11/451 (2%) Query: 14 LVEQIVEQLRKLIDKGTLRSGTKMTSIRLFAQQQAVSVHTVAEAYERLVALGYFESRPRS 73 LV++I + + + L G K+ S+R+ A+ VS TVA AYE+LVA G+ +RP + Sbjct: 32 LVDRIFTAVLEGVRTRRLAHGDKLPSLRVVAESAQVSRDTVARAYEKLVAHGHVYTRPGA 91 Query: 74 GFFIKRAHTAEQKRDPTQSFAKAFDHLWQLRSHLINADGLLN--VTSGKLPTDWMDADMV 131 GFF++ + + TQ+ W R L++ LL+ + SG LP +W++ + Sbjct: 92 GFFVRVDNQVANAQ--TQTAPAPLLTNW--RQRLLDPRTLLHRGLGSGDLPAEWINVPQL 147 Query: 132 RASLKSVAAKIDSAMLQYGDPHGYLPLRSLLQTRLSDLGIHTQSDQILLTGGASQAMDLI 191 A+L++V+ + YGD GYLPLR LQ +L+D+G+ Q+L T GA+ A++LI Sbjct: 148 AAALRAVSRSNINWAAGYGDAQGYLPLRQQLQRKLADIGVDVTPPQVLTTLGATDAINLI 207 Query: 192 I-RYLLRTGDKVLVDDPGYFNLFSNLQMQGIEPLPVRRNHDGPDLDMLENLAQLHRPRMM 250 + YL + G VLVDDPG F L L G+ + V R+ DGPD+ L+N + H P Sbjct: 208 VMSYLRQPGMTVLVDDPGSFLLMERLLASGMHIVGVARDADGPDITALQNACEQHGPTFY 267 Query: 251 FTQSILQTPTGSTISAGNAYRLLRLAEQYDFRIVENDVYADML----GEPVPRIAALDQL 306 F QS+L +P + +S A+++LRLAE+++F IVE+D Y D+ R+A+LDQL Sbjct: 268 FCQSLLHSPGYTGLSPQRAFQILRLAERFNFTIVEDDTYGDLAPAHRSPHATRLASLDQL 327 Query: 307 SRVLYVGSFSKTLSVSARVGYVAAAAADIRDLANMKMITSITSAQLAEKFVFHALTEGLY 366 VLYVGSFSKTL R G++A I L K+++ ++ LAE+ ++ L+EG Y Sbjct: 328 QHVLYVGSFSKTLGAGMRAGFIAGNPQQIEWLLLYKLVSRASNGSLAERAIYRLLSEGGY 387 Query: 367 RRSVERLRLRLAASMAETEKALRPLGFQFFCRPLGGKFVWLRHPNFESSSDIWKLAGDAG 426 RR E+LR RL + AL LG RP G ++W + P ++ ++ + G Sbjct: 388 RRHCEQLRTRLDQARPRLMAALEALGIVLPHRPDAGLYLWGKLPGDLNAMEVAERMLANG 447 Query: 427 IVIAPGKVFRSSMQDTPWFRLNVSYGTEPAL 457 + APG VF S + R NV+ + AL Sbjct: 448 YLTAPGPVFSSGQAARSYMRFNVASSDDEAL 478 >gi|300311016|ref|YP_003775108.1| MocR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 480 Score = 158 bits (400), Expect = 9e-40, Method: Compositional matrix adjust. Identities = 126/471 (26%), Positives = 221/471 (46%), Gaps = 35/471 (7%) Query: 14 LVEQIVEQLRKLIDKGTLRSGTKMTSIRLFAQQQAVSVHTVAEAYERLVALGYFESRPRS 73 L +Q +QL I G LR G ++ S+R+ +QQ VSV TV AYE L + G ES+P+S Sbjct: 6 LYKQFADQLAASIRDGVLRPGERIASVRIASQQHKVSVTTVVRAYELLESRGIIESQPQS 65 Query: 74 GFFIKRAHTAEQKRDPTQSFAKAFDH-LWQLRSHL------------INADGLLNVTSGK 120 G+F++ A K P DH WQ + + I DG + + S Sbjct: 66 GYFVREQPEAPPK--PALRTTSREDHPAWQESTEVDVSRLVLATLKTIQQDGTVPLGS-P 122 Query: 121 LPTDWMDADMVRASLKSVAAKIDSAMLQYGD-PHGYLPLRSLLQTRLSDLGIHTQSDQIL 179 P + A A+ S + D P G+ L + R + G+ ++I+ Sbjct: 123 YPNPALFPSHRLAQYAGRIARHASQSSVFDDLPPGHPELLRQIARRYLENGLKVDPEEIV 182 Query: 180 LTGGASQAMDLIIRYLLRTGDKVLVDDPGYFNLFSNLQMQGIEPLPVRRN-HDGPDLDML 238 +T GA++A++L ++ + R GD + V+ P ++ + ++ G+ L + + G D+ L Sbjct: 183 ITVGATEAINLCLQAVARPGDTIAVETPTFYAMLHAIERLGMRALEIPTDPQRGIDVGAL 242 Query: 239 ENLAQLHRPRMMFTQSILQTPTGSTISAGNAYRLLRLAEQYDFRIVENDVYADM-LGEPV 297 E + Q P G + RL+RLAEQ+ ++EN VY+++ G Sbjct: 243 EERMKTQAIAACMVMPNFQNPLGFQMPDSEKERLVRLAEQHQMPVIENAVYSELYYGNAH 302 Query: 298 P-RIAALDQLSRVLYVGSFSKTLSVSARVGYVAAAAADIRDLANMKMITSITSAQLAEKF 356 P + D+ VL+ SFSK+L+ + R+G+ A + +K + ++ + ++ Sbjct: 303 PSSLKNYDRDGLVLHCSSFSKSLTSAYRIGW-AMPGRYRAQVEKLKFLNTLATPTAPQRA 361 Query: 357 VFHALTEGLYRRSVERLRLRLAASMAETEKALRPLGFQFF------CRPLGGKFVWLRHP 410 + LT+G Y R + R+R + A+ +R +FF P GG +W+ P Sbjct: 362 IAEYLTQGGYERHLRRVR----RAFAQQRDMMRHFVLRFFPAGTQVSEPQGGYVLWVELP 417 Query: 411 NFESSSDIWKLAGDAGIVIAPGKVFRSSMQDTPWFRLNVSYG----TEPAL 457 + ++++ + GI +APG++F ++ + + + RLN SY TE AL Sbjct: 418 QGVDAMELYRRSLALGITVAPGRIFAATNRYSHFIRLNYSYAWSKETEQAL 468 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 0.136 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: 1,375,309 Number of extensions: 56155 Number of successful extensions: 195 Number of sequences better than 1.0e-08: 11 Number of HSP's gapped: 175 Number of HSP's successfully gapped: 11 Length of query: 465 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 376 Effective length of database: 1,198,455 Effective search space: 450619080 Effective search space used: 450619080 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.5 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (22.0 bits) S2: 132 (55.5 bits)