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= 0001.0495.p (433 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309843|ref|YP_003773935.1| GntR family transcription regul... 568 e-163 gi|300310416|ref|YP_003774508.1| MocR family transcription regul... 97 2e-21 gi|300312133|ref|YP_003776225.1| transcription regulator protein... 92 1e-19 gi|300312337|ref|YP_003776429.1| transcription regulator protein... 76 6e-15 gi|300313928|ref|YP_003778020.1| GntR family transcription regul... 69 5e-13 >gi|300309843|ref|YP_003773935.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 431 Score = 568 bits (1464), Expect = e-163, Method: Compositional matrix adjust. Identities = 300/432 (69%), Positives = 346/432 (80%), Gaps = 2/432 (0%) Query: 1 MKIQGKTAADIFECVRALVQTQRLQAGQALPPVRELAEQLGLNRNTVAAAYRRLATAGIA 60 MKI GKTA +IFECVR LVQTQRL GQ LPPVRELAEQLG+NRNTVAAAYRRL+TAGIA Sbjct: 1 MKIHGKTATEIFECVRTLVQTQRLHPGQLLPPVRELAEQLGVNRNTVAAAYRRLSTAGIA 60 Query: 61 ITQGRLGTVIRAPAAPGEEEGSQGDTALTDLADGNPNPAWLPDLAQTWRSIAYQPRLYGA 120 TQ RLGT IR+ APGE+EGSQ T L DLA GNP+P WLPDLA WR +YQPRLYGA Sbjct: 61 STQRRLGTSIRSLPAPGEQEGSQPGTTLIDLAHGNPDPRWLPDLAALWRGRSYQPRLYGA 120 Query: 121 PTVNAGLAQFMMQWCRPDCPPEFELDLTHGAVDAIERLLAAHLRHGDKVAVEDPCFLASI 180 TVN LA ++ QWC DCP FE+DL HGAVDAIERLL A+LR GDKVAVE+PCFLASI Sbjct: 121 DTVNPALANYIAQWCGLDCPAGFEVDLAHGAVDAIERLLFAYLRPGDKVAVENPCFLASI 180 Query: 181 NLLRSSGWQSVGVGMDEQGMLPEALQAALNRGVQALILTPRAHNPTGASLSRRRARALSA 240 NL+R+SG +SVGV +D +GM + L++AL +GV+A+ILTPRAHNPTG +LS RA AL Sbjct: 181 NLIRTSGLESVGVSVDAEGMRVDELRSALAKGVRAVILTPRAHNPTGCALSAARALALRR 240 Query: 241 ILEKHPHVLVIVDDHFALLSGQPYHSVIPRQASRWALVRSFSKALGPDVRVAAVASDAAT 300 +LEKHPHVLVIVDDHFAL S YHSVIP A RWALVRSFSKALGPD+RVAAVASDAAT Sbjct: 241 LLEKHPHVLVIVDDHFALTSMARYHSVIPAAAPRWALVRSFSKALGPDLRVAAVASDAAT 300 Query: 301 SRLLRTRLSAGSNWVSHFLQDAIEFIITQPETAGLMQRARSAYGLCRQHLESALAAQDIA 360 S+LLRTRLS G +WVSHFLQD+IE +++P+TA LMQ+AR+ Y R+ LE AL + IA Sbjct: 301 SQLLRTRLSPGGSWVSHFLQDSIESALSRPDTARLMQQARADYAARRERLERALHKEGIA 360 Query: 361 CWSQGDGLNLWLPLPLSIDDQAVALAMARQGWLVRPGSVFAVQQAVSGLRITVSTLDEDL 420 C + GDGLNLW + LS DDQA AL+MAR GWL+R G F+VQQ V GLRIT+S L+ D Sbjct: 361 CATGGDGLNLW--IALSGDDQAAALSMARLGWLLRHGEAFSVQQRVHGLRITLSALEADA 418 Query: 421 SQALAADLRQCL 432 + LAADLR+ L Sbjct: 419 AGKLAADLRRSL 430 >gi|300310416|ref|YP_003774508.1| MocR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 516 Score = 97.4 bits (241), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 120/458 (26%), Positives = 190/458 (41%), Gaps = 57/458 (12%) Query: 11 IFECVRALVQTQRLQAGQALPPVRELAEQLGLNRNTVAAAYRRLATAGIAITQGRLGTVI 70 I++ +R + L AG LP R+LA +LG +RNTV AY +L G ++ GT + Sbjct: 49 IYQLIREAILAHTLPAGMQLPSSRDLALELGSSRNTVTYAYEQLLAEGYLESRPGAGTFV 108 Query: 71 RAPAAP-----------------GEEEGSQGDTALTDLADGNPNPAW------LPDLA-- 105 A AP G+ E S LT A G W +PD+ Sbjct: 109 -ADTAPDQIPEAVERPEPLTDPSGKSELSARGAMLTRQA-GVGERQWGAFMPGVPDVTCV 166 Query: 106 ----------QTWRSIAYQPRLYGAPTVNAGLAQFMMQWCRP----DCPPEFELDLT--H 149 + WR YG AGL + + ++ R +C P L T H Sbjct: 167 PYKIWGRLQNKHWRRSNADLLTYGPGAGYAGLREQIAEYLRVARSVNCTPSQVLITTGIH 226 Query: 150 GAVDAIERLLAAHLRHGDKVAVEDPCFLASINLLRSSGWQSVGVGMDEQGMLPEALQAAL 209 ++D + +LL HGD VEDPC+ + ++L S G QSV + +D++GM A L Sbjct: 227 QSLDIVVKLLG---EHGDSAWVEDPCYWGTRSVLNSLGIQSVPIAVDQEGM--RMRLANL 281 Query: 210 NRGVQALILTPRAHNPTGASLSRRRARALSAILEKHPHVLVIVDDHFALL--SGQPYHSV 267 R + + TP P G +S R R L H V +I DD+ + G+P S+ Sbjct: 282 RRPPRFICTTPSHQYPLGMVMSLSRRRMLLEYAATH-KVWIIEDDYDSEFRYGGRPLASL 340 Query: 268 IPRQA-SRWALVRSFSKALGPDVRVAAVASDAATSRLLRTRLSAGSNWVSHFLQDAIEFI 326 R + +FSK + P +R+ + + +R T ++ FLQ + Sbjct: 341 QGMDTQDRVLYMGTFSKIMFPGLRIGFLVVPESLARAFSTGIAELYRNGQVFLQATLADF 400 Query: 327 ITQPETAGLMQRARSAYGLCRQHLESALA---AQDIACWSQGDGLNLWLPLPLSIDDQAV 383 + + A +++ R Y Q L+ ++ + + GL+L L LP DD + Sbjct: 401 MAEGHFASHIRKMRVLYAERLQLLQQSINRHFGEKMTITGGEAGLHLVLGLPQECDDVLI 460 Query: 384 ALAMARQGWLVRPGSVFAVQQ--AVSGLRITVSTLDED 419 G +VRP S + + A GL + +++ D Sbjct: 461 CEQALAAGIVVRPLSRYYMHARGARRGLLLGYASVPND 498 >gi|300312133|ref|YP_003776225.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 491 Score = 91.7 bits (226), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 131/458 (28%), Positives = 197/458 (43%), Gaps = 54/458 (11%) Query: 11 IFECVRALVQTQRLQAGQALPPVRELAEQLGLNRNTVAAAYRRLATAGIAITQGRLGTVI 70 IF V V+T+RL G LP +R +AE ++R+TVA AY +L G T+ G + Sbjct: 36 IFTAVLEGVRTRRLAHGDKLPSLRVVAESAQVSRDTVARAYEKLVAHGHVYTRPGAGFFV 95 Query: 71 RAPAAPGEEEGSQGDTA----LTD---------------LADGNPNPAWL--PDLAQTWR 109 R + +Q TA LT+ L G+ W+ P LA R Sbjct: 96 RVD---NQVANAQTQTAPAPLLTNWRQRLLDPRTLLHRGLGSGDLPAEWINVPQLAAALR 152 Query: 110 SIAYQPRLYGAPTVNA-GLAQFMMQWCRP------DCPPEFELDLTHGAVDAIERLLAAH 162 +++ + A +A G Q R D P ++ T GA DAI ++ ++ Sbjct: 153 AVSRSNINWAAGYGDAQGYLPLRQQLQRKLADIGVDVTPP-QVLTTLGATDAINLIVMSY 211 Query: 163 LRH-GDKVAVEDPCFLASINLLRSSGWQSVGVGMDEQGMLPEALQAALNR-GVQALILTP 220 LR G V V+DP + L +SG VGV D G ALQ A + G Sbjct: 212 LRQPGMTVLVDDPGSFLLMERLLASGMHIVGVARDADGPDITALQNACEQHGPTFYFCQS 271 Query: 221 RAHNPTGASLSRRRARALSAILEKHPHVLVIVDDHFALLSGQPYHSVIPRQASRWA---- 276 H+P LS +RA + + E+ + ++ DD + L+ P H A+R A Sbjct: 272 LLHSPGYTGLSPQRAFQILRLAERF-NFTIVEDDTYGDLA--PAHR--SPHATRLASLDQ 326 Query: 277 -----LVRSFSKALGPDVRVAAVASDAATSR--LLRTRLSAGSNWVSHFLQDAIEFIITQ 329 V SFSK LG +R +A + LL +S SN + AI ++++ Sbjct: 327 LQHVLYVGSFSKTLGAGMRAGFIAGNPQQIEWLLLYKLVSRASN--GSLAERAIYRLLSE 384 Query: 330 PETAGLMQRARSAYGLCRQHLESALAAQDIACWSQGD-GLNLWLPLPLSIDDQAVALAMA 388 ++ R+ R L +AL A I + D GL LW LP ++ VA M Sbjct: 385 GGYRRHCEQLRTRLDQARPRLMAALEALGIVLPHRPDAGLYLWGKLPGDLNAMEVAERML 444 Query: 389 RQGWLVRPGSVFAVQQAV-SGLRITVSTLDEDLSQALA 425 G+L PG VF+ QA S +R V++ D++ +AL+ Sbjct: 445 ANGYLTAPGPVFSSGQAARSYMRFNVASSDDEALRALS 482 >gi|300312337|ref|YP_003776429.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 469 Score = 75.9 bits (185), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 106/421 (25%), Positives = 176/421 (41%), Gaps = 62/421 (14%) Query: 27 GQALPPVRELAEQLGLNRNTVAAAYRRLATAGIAITQGRLGT-VIRAPAAPGE-EEGS-- 82 G LP +RE+A + G +NT+ + L G+A + G V AP P E EEG+ Sbjct: 28 GSRLPSIREMAARHGCAKNTIVNVFDELTALGLAEPRRGAGFFVCVAPPRPKEDEEGNLS 87 Query: 83 -------------QGDTALTDLADGNPNPAWLPDL------AQTWRS-----IAYQPRLY 118 + D L DG P WL D+ + R+ Y R Sbjct: 88 RAMDVVWLMREQLKHDPGQLRLGDGFPPVEWLHDVRLDKFHQKVVRTGIGALFGYGSRFG 147 Query: 119 GAPTVNAGLAQFMMQWCRPDCPPEFELDLTHGAVDAIERLLAAHLRHGDKVAVEDPCFLA 178 P + + ++ LTHGA A++ ++ +R GD+V V++P + Sbjct: 148 YLPLRQHLVHKLAQHGIEAGTG---QIVLTHGANQALDIVIRHFIRPGDRVLVDEPGYYM 204 Query: 179 SINLLRSSGWQSVGVGMDEQGMLPEALQAALNR-GVQALILTPR-AHNPTGASLSRRRAR 236 L+ SG + +G+ G L+ L+R G L T AHNPT + S +A Sbjct: 205 LYGKLKLSGARIIGIPRLPDGPDVAVLERELHRPGKPPLFFTQSLAHNPTASDTSPHKAH 264 Query: 237 ALSAILEKHPHVLVIVDDHFALLSGQPYHSVIPR-----QASRWALVRSFSKALGPDVRV 291 + + +++ +++ +D FA + PR Q R V SFSK++ +RV Sbjct: 265 RILQLADRY-QAIIVENDAFADFKP----ATAPRIATLDQLRRTVYVGSFSKSVSAALRV 319 Query: 292 AAV------ASDAATSRLLRTRLSAGSNWVSHFLQDAIEFIITQ----PETAGLMQRARS 341 + ASD A ++L +S+ S + + ++ I++ TA L +R Sbjct: 320 GFIACHRDLASDLADIKML-VHMSS-----SEYCERTLDVILSDGHFSRHTARLRERLAQ 373 Query: 342 AYGLCRQHLESALAAQDIACWSQGDGLNLWLPLPLSIDDQAVALAMARQGWLVRPGSVFA 401 A R LE A ++ C Q + LW P D + +A + ++ ++ PGS+F Sbjct: 374 ATEQARAQLEGLGA--ELFCAPQ-QAMYLWARFPWFEDAKRLAQRLMQRQIVLAPGSIFH 430 Query: 402 V 402 V Sbjct: 431 V 431 >gi|300313928|ref|YP_003778020.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 472 Score = 69.3 bits (168), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 93/350 (26%), Positives = 148/350 (42%), Gaps = 52/350 (14%) Query: 1 MKIQGKTAADIFECVR----ALVQTQRLQAGQALPPVRELAEQLGLNRNTVAAAYRRLAT 56 + ++ KT+A + E V L++T L++G+ LP VR+ A+ + +TV AY +L Sbjct: 11 LDLKRKTSARLVEQVANGLAGLIETGELRSGERLPSVRQFAQHHDIGSSTVVEAYEQLVA 70 Query: 57 AGIAITQGRLGTVIRAPAAPGEEEGSQG---------DTA--LTDLADGNPNP-----AW 100 G + Q R G A G + G D+A L+++ P W Sbjct: 71 RG--MLQARRGAGFFVAARAG-QSGQHAVFVPPEPVIDSAWLLSEMFADERVPIKAGCGW 127 Query: 101 LP-------DLAQTWRSIAYQPRL----YGAPTVNAGLAQFMMQWCRPDCPPEFELDL-- 147 LP L Q R I P YG P A L Q + Q+ + L+L Sbjct: 128 LPGKWLNDEGLHQAERRIIRSPGAQQVGYGHPYGYAPLRQLITQFL-----GHWSLELGI 182 Query: 148 -----THGAVDAIERLLAAHLRHGDKVAVEDPCFLASINLLRSSGWQSVGVGMDEQGMLP 202 THGA A++ ++ + GD V ++DP + I +LR +G +GV G+ Sbjct: 183 EQVLTTHGATQALDLVIRTMTQPGDTVLIDDPGYCNLIAMLRLAGLNVIGVPRTPGGVDT 242 Query: 203 EALQA-ALNRGVQALILTPRAHNPTGASLSRRRARALSAILEKHPHVLVIVDDHFALLSG 261 + L+ A + T NPTG S + A + E+H V+ DD F L G Sbjct: 243 DVLETLARTHHPKMFFTTSVLQNPTGTSYTPACAMRVLQAAERHG-FWVVEDDIFREL-G 300 Query: 262 QPYHSVIP--RQASRWALVRSFSKALGPDVRVAAVASDAATSR-LLRTRL 308 Q ++ R V S+SK + P +RV +A +R ++ T++ Sbjct: 301 QATDPMLAALDGLQRVIYVGSYSKTIAPSLRVGYIACQRELARQIVHTKM 350 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 0.133 0.401 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: 1,363,507 Number of extensions: 57816 Number of successful extensions: 274 Number of sequences better than 1.0e-08: 10 Number of HSP's gapped: 269 Number of HSP's successfully gapped: 10 Length of query: 433 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 345 Effective length of database: 1,203,190 Effective search space: 415100550 Effective search space used: 415100550 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)