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= 0001.4528.p (472 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313928|ref|YP_003778020.1| GntR family transcription regul... 936 0.0 gi|300311134|ref|YP_003775226.1| transcription regulator protein... 311 7e-86 gi|300312337|ref|YP_003776429.1| transcription regulator protein... 305 4e-84 gi|300312133|ref|YP_003776225.1| transcription regulator protein... 242 4e-65 gi|300311016|ref|YP_003775108.1| MocR family transcription regul... 143 3e-35 >gi|300313928|ref|YP_003778020.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 472 Score = 936 bits (2418), Expect = 0.0, Method: Compositional matrix adjust. Identities = 456/472 (96%), Positives = 462/472 (97%) Query: 1 MAKPARAPLQLDLQRNTSARLVEQVADGLAGLIEAGELRSGERLPSVRQFAHSHAIGAST 60 MAKPARAPLQLDL+R TSARLVEQVA+GLAGLIE GELRSGERLPSVRQFA H IG+ST Sbjct: 1 MAKPARAPLQLDLKRKTSARLVEQVANGLAGLIETGELRSGERLPSVRQFAQHHDIGSST 60 Query: 61 VVEAYEQLVARGMLLARRGAGFFVAARAGQSGPRAVFVPPEPVIDSAWLLSEMFADERVP 120 VVEAYEQLVARGML ARRGAGFFVAARAGQSG AVFVPPEPVIDSAWLLSEMFADERVP Sbjct: 61 VVEAYEQLVARGMLQARRGAGFFVAARAGQSGQHAVFVPPEPVIDSAWLLSEMFADERVP 120 Query: 121 IKAGCGWLPGKWLNDEGLHQAERRIIRSPGAQQVGYGHPYGYAPLRQLITQFLGHWSLEL 180 IKAGCGWLPGKWLNDEGLHQAERRIIRSPGAQQVGYGHPYGYAPLRQLITQFLGHWSLEL Sbjct: 121 IKAGCGWLPGKWLNDEGLHQAERRIIRSPGAQQVGYGHPYGYAPLRQLITQFLGHWSLEL 180 Query: 181 GIEQVLTTHGATQALDLVIRTMTQPGDTVLIDDPGYCNLIAMLRLAALNVIGVPRTPGGV 240 GIEQVLTTHGATQALDLVIRTMTQPGDTVLIDDPGYCNLIAMLRLA LNVIGVPRTPGGV Sbjct: 181 GIEQVLTTHGATQALDLVIRTMTQPGDTVLIDDPGYCNLIAMLRLAGLNVIGVPRTPGGV 240 Query: 241 DTDVLETLARTHRPKMFFTTSVLQNPTGTSYTPACAMRVLQAAERHGFWVVEDDIFRELG 300 DTDVLETLARTH PKMFFTTSVLQNPTGTSYTPACAMRVLQAAERHGFWVVEDDIFRELG Sbjct: 241 DTDVLETLARTHHPKMFFTTSVLQNPTGTSYTPACAMRVLQAAERHGFWVVEDDIFRELG 300 Query: 301 QATDPMLAALDGLQRVIYVGSYSKTIAPSLRVGYIACQRELARQIVHTKMVLTLTNSEIN 360 QATDPMLAALDGLQRVIYVGSYSKTIAPSLRVGYIACQRELARQIVHTKMVLTLTNSEIN Sbjct: 301 QATDPMLAALDGLQRVIYVGSYSKTIAPSLRVGYIACQRELARQIVHTKMVLTLTNSEIN 360 Query: 361 ERLVHNVLTEGHHRRHVQTLNATLLNAQATLNAKLTEVGLTPFTAARGGMFSWATIEGCE 420 ERLVHNVLTEGHHRRHVQTLNATLL+AQATLNAKL+EVGLTPFTAARGGMFSWATIEGCE Sbjct: 361 ERLVHNVLTEGHHRRHVQTLNATLLSAQATLNAKLSEVGLTPFTAARGGMFSWATIEGCE 420 Query: 421 LSAREIADRARQKGIWLAPGDFFHLSAPHKTSFRFNVGYADVPELFDFLRGL 472 LSAREIADRARQKGIWLAPGDFFHLSAPH+TSFRFNVGYADVPELFDFLRGL Sbjct: 421 LSAREIADRARQKGIWLAPGDFFHLSAPHQTSFRFNVGYADVPELFDFLRGL 472 >gi|300311134|ref|YP_003775226.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 500 Score = 311 bits (797), Expect = 7e-86, Method: Compositional matrix adjust. Identities = 186/466 (39%), Positives = 258/466 (55%), Gaps = 12/466 (2%) Query: 13 LQRNTSARLVEQVADGLAGLIEAGELRSGERLPSVRQFAHSHAIGASTVVEAYEQLVARG 72 L R + LVEQ+ G+ I+ LRSG R+PS+RQFA ++ I TVVEAY++LVA+G Sbjct: 32 LLRESGDSLVEQIVRGIRARIDDKLLRSGMRMPSIRQFADTNQISRFTVVEAYDRLVAQG 91 Query: 73 MLLARRGAGFFVAARA---GQSGPRAVFVPPEPV--IDSAWLLSEMFADERVPIKAGCGW 127 L +RRG+GF+V RA G G + EP +D WL+ MF G G Sbjct: 92 YLESRRGSGFYVKERAPLGGSYGAAQAELDTEPGRGLDVVWLVRNMFRQMPPAKMPGGGL 151 Query: 128 LPGKWLNDEGLHQAERRIIRSPGAQQVGYGHPYGYAPLRQLITQFLGHWSLELGIEQVLT 187 LP WL+ E + A R + R +GYG P G+ PLRQ + L + EQ++ Sbjct: 152 LPPDWLDGELIANALRAVSRDNPQLLLGYGTPQGFLPLRQQLQLKLAELEIAAAPEQIVL 211 Query: 188 THGATQALDLVIRTMTQPGDTVLIDDPGYCNLIAMLRLAALNVIGVPRTPGGVDTDVLET 247 T G TQ LD V R +PGD + +DDP + + V+G+PR G D L Sbjct: 212 TTGVTQGLDTVARHFLRPGDVIFVDDPAWFLMFGSFAALGAKVVGIPRLGDGPDIARLRE 271 Query: 248 LARTHRPKMFFTTSVLQNPTGTSYTPACAMRVLQAAERHGFWVVEDDIFREL--GQATDP 305 LA H+PK++ SVL NPT TS + A A +VL+ AE H F +VEDDI+ ++ G A P Sbjct: 272 LAAVHKPKLYVINSVLHNPTSTSLSAAKAFQVLRIAEEHDFVIVEDDIYCDMHPGSAVQP 331 Query: 306 M--LAALDGLQRVIYVGSYSKTIAPSLRVGYIACQRELARQIVHTKMVLTLTNSEINERL 363 +AALD LQRVIY+G +SKT++ +LRVGYIA ELAR + K++ TLT EI ER+ Sbjct: 332 ATRIAALDQLQRVIYLGGFSKTLSANLRVGYIATSAELARSLADRKLLSTLTTGEIGERV 391 Query: 364 VHNVLTEGHHRRHVQTLNATLLNAQATLNAKLTEVGLTPFTAARGGMFSWATIEGCELSA 423 + VL+EGH+R+H + + A L A+ + +L +G+ A GMF W G + + Sbjct: 392 AYKVLSEGHYRKHAERVRARLNGARDKVMRQLERLGMDVVEAPPCGMFLWVDT-GRDTNV 450 Query: 424 REIADRARQKGIWLAPGDFFHLSAPHKTSFRFNVGYADVPELFDFL 469 + + A Q+G LAPG F + T R NV P ++ FL Sbjct: 451 --MTEAAMQEGFLLAPGSLFSPAQLPSTYMRINVASMADPGIWRFL 494 >gi|300312337|ref|YP_003776429.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 469 Score = 305 bits (782), Expect = 4e-84, Method: Compositional matrix adjust. Identities = 168/438 (38%), Positives = 243/438 (55%), Gaps = 24/438 (5%) Query: 33 IEAGELRSGERLPSVRQFAHSHAIGASTVVEAYEQLVARGMLLARRGAGFFVAARAGQSG 92 I G G RLPS+R+ A H +T+V +++L A G+ RRGAGFFV Sbjct: 20 IAEGVYAPGSRLPSIREMAARHGCAKNTIVNVFDELTALGLAEPRRGAGFFVCV------ 73 Query: 93 PRAVFVPPEP----------VIDSAWLLSEMFADERVPIKAGCGWLPGKWLNDEGLHQAE 142 PP P +D WL+ E + ++ G G+ P +WL+D L + Sbjct: 74 -----APPRPKEDEEGNLSRAMDVVWLMREQLKHDPGQLRLGDGFPPVEWLHDVRLDKFH 128 Query: 143 RRIIRSPGAQQVGYGHPYGYAPLRQLITQFLGHWSLELGIEQVLTTHGATQALDLVIRTM 202 ++++R+ GYG +GY PLRQ + L +E G Q++ THGA QALD+VIR Sbjct: 129 QKVVRTGIGALFGYGSRFGYLPLRQHLVHKLAQHGIEAGTGQIVLTHGANQALDIVIRHF 188 Query: 203 TQPGDTVLIDDPGYCNLIAMLRLAALNVIGVPRTPGGVDTDVLE-TLARTHRPKMFFTTS 261 +PGD VL+D+PGY L L+L+ +IG+PR P G D VLE L R +P +FFT S Sbjct: 189 IRPGDRVLVDEPGYYMLYGKLKLSGARIIGIPRLPDGPDVAVLERELHRPGKPPLFFTQS 248 Query: 262 VLQNPTGTSYTPACAMRVLQAAERHGFWVVEDDIFRELGQATDPMLAALDGLQRVIYVGS 321 + NPT + +P A R+LQ A+R+ +VE+D F + AT P +A LD L+R +YVGS Sbjct: 249 LAHNPTASDTSPHKAHRILQLADRYQAIIVENDAFADFKPATAPRIATLDQLRRTVYVGS 308 Query: 322 YSKTIAPSLRVGYIACQRELARQIVHTKMVLTLTNSEINERLVHNVLTEGHHRRHVQTLN 381 +SK+++ +LRVG+IAC R+LA + KM++ +++SE ER + +L++GH RH L Sbjct: 309 FSKSVSAALRVGFIACHRDLASDLADIKMLVHMSSSEYCERTLDVILSDGHFSRHTARLR 368 Query: 382 ATLLNAQATLNAKLTEVGLTPFTAARGGMFSWATIEGCELSAREIADRARQKGIWLAPGD 441 L A A+L +G F A + M+ WA E A+ +A R Q+ I LAPG Sbjct: 369 ERLAQATEQARAQLEGLGAELFCAPQQAMYLWARFPWFE-DAKRLAQRLMQRQIVLAPGS 427 Query: 442 FFHLSAPHKTSF-RFNVG 458 FH+ + RFNVG Sbjct: 428 IFHVDTEQTQPWSRFNVG 445 >gi|300312133|ref|YP_003776225.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 491 Score = 242 bits (618), Expect = 4e-65, Method: Compositional matrix adjust. Identities = 159/458 (34%), Positives = 239/458 (52%), Gaps = 13/458 (2%) Query: 12 DLQRNTSARL-VEQVADGLAGLIEAGELRSGERLPSVRQFAHSHAIGASTVVEAYEQLVA 70 D+ SARL V+++ + + L G++LPS+R A S + TV AYE+LVA Sbjct: 22 DMGDKHSARLLVDRIFTAVLEGVRTRRLAHGDKLPSLRVVAESAQVSRDTVARAYEKLVA 81 Query: 71 RGMLLARRGAGFFVAARAGQSGPRAVFVPPEPVIDSAWLLSEMFADERVPIKAGCGW--L 128 G + R GAGFFV Q P P++ + W + D R + G G L Sbjct: 82 HGHVYTRPGAGFFVRVD-NQVANAQTQTAPAPLL-TNW--RQRLLDPRTLLHRGLGSGDL 137 Query: 129 PGKWLNDEGLHQAERRIIRSPGAQQVGYGHPYGYAPLRQLITQFLGHWSLELGIEQVLTT 188 P +W+N L A R + RS GYG GY PLRQ + + L +++ QVLTT Sbjct: 138 PAEWINVPQLAAALRAVSRSNINWAAGYGDAQGYLPLRQQLQRKLADIGVDVTPPQVLTT 197 Query: 189 HGATQALDLVIRT-MTQPGDTVLIDDPGYCNLIAMLRLAALNVIGVPRTPGGVDTDVLET 247 GAT A++L++ + + QPG TVL+DDPG L+ L + ++++GV R G D L+ Sbjct: 198 LGATDAINLIVMSYLRQPGMTVLVDDPGSFLLMERLLASGMHIVGVARDADGPDITALQN 257 Query: 248 LARTHRPKMFFTTSVLQNPTGTSYTPACAMRVLQAAERHGFWVVEDDIFRELGQATDP-- 305 H P +F S+L +P T +P A ++L+ AER F +VEDD + +L A Sbjct: 258 ACEQHGPTFYFCQSLLHSPGYTGLSPQRAFQILRLAERFNFTIVEDDTYGDLAPAHRSPH 317 Query: 306 --MLAALDGLQRVIYVGSYSKTIAPSLRVGYIACQRELARQIVHTKMVLTLTNSEINERL 363 LA+LD LQ V+YVGS+SKT+ +R G+IA + ++ K+V +N + ER Sbjct: 318 ATRLASLDQLQHVLYVGSFSKTLGAGMRAGFIAGNPQQIEWLLLYKLVSRASNGSLAERA 377 Query: 364 VHNVLTEGHHRRHVQTLNATLLNAQATLNAKLTEVGLTPFTAARGGMFSWATIEGCELSA 423 ++ +L+EG +RRH + L L A+ L A L +G+ G++ W + G +L+A Sbjct: 378 IYRLLSEGGYRRHCEQLRTRLDQARPRLMAALEALGIVLPHRPDAGLYLWGKLPG-DLNA 436 Query: 424 REIADRARQKGIWLAPGDFFHLSAPHKTSFRFNVGYAD 461 E+A+R G APG F ++ RFNV +D Sbjct: 437 MEVAERMLANGYLTAPGPVFSSGQAARSYMRFNVASSD 474 >gi|300311016|ref|YP_003775108.1| MocR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 480 Score = 143 bits (360), Expect = 3e-35, Method: Compositional matrix adjust. Identities = 126/469 (26%), Positives = 213/469 (45%), Gaps = 44/469 (9%) Query: 21 LVEQVADGLAGLIEAGELRSGERLPSVRQFAHSHAIGASTVVEAYEQLVARGMLLARRGA 80 L +Q AD LA I G LR GER+ SVR + H + +TVV AYE L +RG++ ++ + Sbjct: 6 LYKQFADQLAASIRDGVLRPGERIASVRIASQQHKVSVTTVVRAYELLESRGIIESQPQS 65 Query: 81 GFFVAARAGQSGPRAVFVPPEPVIDS-------AW--------------LLSEMFADERV 119 G+FV + P A PP+P + + AW L + D V Sbjct: 66 GYFV-----REQPEA---PPKPALRTTSREDHPAWQESTEVDVSRLVLATLKTIQQDGTV 117 Query: 120 PIKAGCGWLPGKWLNDEGLHQAERRIIRSPGAQQVGYGHPYGYAP-LRQLITQFLGHWSL 178 P+ G + L Q RI R V P G+ LRQ+ ++L + L Sbjct: 118 PL--GSPYPNPALFPSHRLAQYAGRIARHASQSSVFDDLPPGHPELLRQIARRYLEN-GL 174 Query: 179 ELGIEQVLTTHGATQALDLVIRTMTQPGDTVLIDDPGYCNLIAMLRLAALNVIGVPRTPG 238 ++ E+++ T GAT+A++L ++ + +PGDT+ ++ P + ++ + + + +P P Sbjct: 175 KVDPEEIVITVGATEAINLCLQAVARPGDTIAVETPTFYAMLHAIERLGMRALEIPTDPQ 234 Query: 239 -GVDTDVLETLARTHRPKMFFTTSVLQNPTGTSYTPACAMRVLQAAERHGFWVVEDDIFR 297 G+D LE +T QNP G + R+++ AE+H V+E+ ++ Sbjct: 235 RGIDVGALEERMKTQAIAACMVMPNFQNPLGFQMPDSEKERLVRLAEQHQMPVIENAVYS 294 Query: 298 EL--GQATDPMLAALDGLQRVIYVGSYSKTIAPSLRVGYIACQRELARQIVHTKMVLTLT 355 EL G A L D V++ S+SK++ + R+G+ R A Q+ K + TL Sbjct: 295 ELYYGNAHPSSLKNYDRDGLVLHCSSFSKSLTSAYRIGWAMPGRYRA-QVEKLKFLNTLA 353 Query: 356 NSEINERLVHNVLTEGHHRRHVQTLNATLLNAQATLN---AKLTEVGLTPFTAARGGMFS 412 +R + LT+G + RH++ + + + + G T + +GG Sbjct: 354 TPTAPQRAIAEYLTQGGYERHLRRVRRAFAQQRDMMRHFVLRFFPAG-TQVSEPQGGYVL 412 Query: 413 WATI-EGCELSAREIADRARQKGIWLAPGDFFHLSAPHKTSFRFNVGYA 460 W + +G + A E+ R+ GI +APG F + + R N YA Sbjct: 413 WVELPQGVD--AMELYRRSLALGITVAPGRIFAATNRYSHFIRLNYSYA 459 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 0.322 0.137 0.413 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: 1,516,317 Number of extensions: 63402 Number of successful extensions: 253 Number of sequences better than 1.0e-08: 11 Number of HSP's gapped: 228 Number of HSP's successfully gapped: 11 Length of query: 472 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 383 Effective length of database: 1,198,455 Effective search space: 459008265 Effective search space used: 459008265 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 (21.9 bits) S2: 132 (55.5 bits)