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= 0340.0026.p (276 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B1DGH0.1 B1DGH0_9BACL Transcriptional regulator, AraC family 325 2e-87 B1D714.1 B1D714_9BACL Transcriptional regulator, AraC family 190 1e-46 O52846.1 O52846_BACME XylS/AraC transcriptional regulator 171 5e-41 Q6PU53.1 Q6PU53_BACME BgaR 166 2e-39 A4XK77.1 A4XK77_CALS8 Transcriptional regulator, AraC family 166 3e-39 >B1DGH0.1 B1DGH0_9BACL Transcriptional regulator, AraC family Length = 274 Score = 325 bits (834), Expect = 2e-87, Method: Compositional matrix adjust. Identities = 152/272 (55%), Positives = 201/272 (73%) Query: 3 MESTLIFCETEEMAALPLYATTIGFWEHQPEMERPAGFPDYQLHQVLEGKGELFLKDKHY 62 ME F +E + LPL+ATT+G+WEHQ E ERP GFPDY + QVLEG GE+ + K Y Sbjct: 1 MEGNYFFRSQDETSGLPLFATTVGYWEHQVETERPEGFPDYLMQQVLEGFGEVVVNGKAY 60 Query: 63 IVEPGDVFFLFPHVVHAYAPISAAWKLSWVSFNGREAGSLLAYAGIRESGTGRLSRLPLL 122 VE GDVFFL+P + H+Y P++ WK+SWVSFNGREA +L +AGI ESGTGRL L+ Sbjct: 61 KVEAGDVFFLYPDIPHSYKPLNQKWKVSWVSFNGREADQMLLFAGISESGTGRLKTNELI 120 Query: 123 ESLHKMLELSHGNSLQMNLERSKLMYALLLELKVQLSAPAGGPEELERIKPVLQHIESNL 182 + L +ML L+ N + +LERSKL+Y LL++LK QL +P+ +E +R+KPVL +IE+NL Sbjct: 121 KPLEQMLTLAMDNDQEADLERSKLLYGLLIDLKYQLLSPSYSDQEFDRVKPVLHYIENNL 180 Query: 183 HRALPLKELAEVASISPQYLCRLFQRTLHERPVTYINKQRINLSKQLMFSGREKRIYEIA 242 R L L ELA VA+++PQYLCR+FQ+T++ RP+ YIN+QRI SKQLMF R+YEIA Sbjct: 181 QRPLTLIELAGVATVTPQYLCRMFQQTMNIRPMEYINQQRIKRSKQLMFQHPAMRMYEIA 240 Query: 243 EQAGFENTSYFCAVFKRVTGMRPEEFKQLHGL 274 + GFE++SYF VF+++ GM PE FK+LHGL Sbjct: 241 GRVGFESSSYFGVVFRKLNGMNPEAFKKLHGL 272 >B1D714.1 B1D714_9BACL Transcriptional regulator, AraC family Length = 275 Score = 190 bits (482), Expect = 1e-46, Method: Compositional matrix adjust. Identities = 101/259 (38%), Positives = 159/259 (61%), Gaps = 2/259 (0%) Query: 18 LPLYATTIGFWEHQPEMERPAGFPDYQLHQVLEGKGELFLKDKHYIVEPGDVFFLFPHVV 77 LP+Y IG W +Q ++R GFP YQ Q G+G L++ D+ Y V+PG F LFP V Sbjct: 16 LPIYVDIIGHWNNQETIDRQQGFPHYQWLQSTGGEGVLWIGDEKYTVKPGQGFCLFPGVP 75 Query: 78 HAYAPISAAWKLSWVSFNGREAGSLLAYAGIRESGTGRLSRLPLLES-LHKMLELSHGNS 136 H Y + W + ++SF G A LL AGI+E G ++ ++ + L + ++ Sbjct: 76 HRYYAVRDPWDVYFISFGGSLAKDLLNQAGIKEPGLYSVTDSEMIVAHLRGISAMAESGL 135 Query: 137 LQMNLERSKLMYALLLE-LKVQLSAPAGGPEELERIKPVLQHIESNLHRALPLKELAEVA 195 + LE SKL+Y LL+ +KV + + R+ PV+++IE ++ + +++L+ Sbjct: 136 PFLGLECSKLLYLFLLDLMKVVQVSTQSAEQYYMRLNPVIRYIEEHIDSVMTIQDLSSRI 195 Query: 196 SISPQYLCRLFQRTLHERPVTYINKQRINLSKQLMFSGREKRIYEIAEQAGFENTSYFCA 255 ++PQYLCRLF++ + RP+ Y+N++RIN SK+LMF GRE ++ EIA + GF++ SYF Sbjct: 196 GVTPQYLCRLFKQLMGMRPMEYVNRERINRSKELMFLGREHKMQEIAAKVGFDSASYFST 255 Query: 256 VFKRVTGMRPEEFKQLHGL 274 VFKR+ GM PE+FK++HG Sbjct: 256 VFKRMEGMSPEQFKKMHGF 274 >O52846.1 O52846_BACME XylS/AraC transcriptional regulator Length = 275 Score = 171 bits (434), Expect = 5e-41, Method: Compositional matrix adjust. Identities = 94/268 (35%), Positives = 153/268 (57%), Gaps = 11/268 (4%) Query: 12 TEEMAALPLYATTIGFWEHQPEMERPAGFPDYQLHQVLEGKGELFLKDKHYIVEPGDVFF 71 ++E LP Y T+ G W HQ ++R FPDYQ Q ++G+GEL + D+ YI++ + F Sbjct: 10 SDEDMKLPFYVTSAGSWRHQTHIKRQGEFPDYQWIQCIKGRGELRVNDEVYIIKENEGMF 69 Query: 72 LFPHVVHAYAPISAAWKLSWVSFNGREAGSLLAYAGIRESG----TGRLSRLPLLESLHK 127 L PHV H Y P+++ W++ WVSFNG ++ SG T S +L+ L Sbjct: 70 LTPHVPHEYYPVTSEWQVCWVSFNGSVIDDIMLSLQFINSGKIVLTNAESLYRMLQELMN 129 Query: 128 MLELSHGNSLQMNLERSKLMYALLLELKVQLSAPAGGPEELERI---KPVLQHIESNLHR 184 LE +H +S ++ S+L+Y+++L+L+ Q S L++I PVL++IE H+ Sbjct: 130 RLEENHTSS---TMQCSELLYSVILKLR-QDSVYIESKSRLQQITQLNPVLRYIEEYYHQ 185 Query: 185 ALPLKELAEVASISPQYLCRLFQRTLHERPVTYINKQRINLSKQLMFSGREKRIYEIAEQ 244 L L+ LA+ S++ QY C LFQ++L RP Y+ + RI +K+L+ + + +IA Q Sbjct: 186 PLTLEVLAQQLSVTEQYTCLLFQQSLGIRPFEYVTRVRIQKAKKLLLKTNQISVQDIARQ 245 Query: 245 AGFENTSYFCAVFKRVTGMRPEEFKQLH 272 G+E+ SYF FK + P F++++ Sbjct: 246 VGYEHPSYFIKRFKEQENVTPTIFRKMY 273 >Q6PU53.1 Q6PU53_BACME BgaR Length = 275 Score = 166 bits (421), Expect = 2e-39, Method: Compositional matrix adjust. Identities = 92/268 (34%), Positives = 150/268 (55%), Gaps = 11/268 (4%) Query: 12 TEEMAALPLYATTIGFWEHQPEMERPAGFPDYQLHQVLEGKGELFLKDKHYIVEPGDVFF 71 ++E LP Y T+ G W HQ + R FPDYQ Q ++G+GEL + D+ YI++ + F Sbjct: 10 SDEDMKLPFYVTSAGSWRHQTHINRQGEFPDYQWIQCIKGRGELHVNDEVYIIKENEGMF 69 Query: 72 LFPHVVHAYAPISAAWKLSWVSFNGREAGSLLAYAGIRESG----TGRLSRLPLLESLHK 127 L HV H Y P+++ W++ WVSFNG ++ SG T S +L+ L Sbjct: 70 LTRHVPHEYYPVTSEWQVCWVSFNGSVMDDIMLSLQFINSGKIVLTNAESLYRMLQELMN 129 Query: 128 MLELSHGNSLQMNLERSKLMYALLLELKVQLSAPAGGPEELERI---KPVLQHIESNLHR 184 LE +H S ++ S+L+Y+++L+L+ Q S L++I PVL++IE H+ Sbjct: 130 RLEENHTFS---TMQCSELLYSVILKLR-QDSVYIESKSRLQQITQLNPVLRYIEEYYHQ 185 Query: 185 ALPLKELAEVASISPQYLCRLFQRTLHERPVTYINKQRINLSKQLMFSGREKRIYEIAEQ 244 L L+ LA+ S++ QY C LFQ++L RP Y+ + RI +K+L+ + + ++A Q Sbjct: 186 PLTLEVLAQQLSVTEQYTCLLFQQSLGIRPFEYVTRVRIQKAKKLLLKNNQISVQDVARQ 245 Query: 245 AGFENTSYFCAVFKRVTGMRPEEFKQLH 272 G+E+ SYF FK + P F++++ Sbjct: 246 VGYEHPSYFIKRFKEQENVTPTIFRKMY 273 >A4XK77.1 A4XK77_CALS8 Transcriptional regulator, AraC family Length = 273 Score = 166 bits (419), Expect = 3e-39, Method: Compositional matrix adjust. Identities = 91/274 (33%), Positives = 151/274 (55%), Gaps = 9/274 (3%) Query: 6 TLIFCETEEMAALPLYATTIGFWEHQPEMERPAGFPDYQLHQVLEGKGELFLKDKHYIVE 65 T T LP+Y ++G E+Q + R G PDY LEG G L + + Y+V+ Sbjct: 3 TCFIVNTSLEKGLPIYLKSVGSNEYQEHIIRKNGHPDYHYLHTLEGSGYLIVDGQKYLVD 62 Query: 66 PGDVFFLFPHVVHAYAPISAAWKLSWVSFNGREAGSLLAYAGIRESGTGRLSRLPLLESL 125 FFL+P + H Y ++ W W++FNG + ++L GIR +L+ LE Sbjct: 63 ENTAFFLYPGIAHEYFAATSKWSTIWLTFNGPASETILKTMGIRPFEIFKLTNKKYLEG- 121 Query: 126 HKMLE-LSHGNSLQ---MNLERSKLMYALLLELKVQLSAPAGGPEELERIK--PVLQHIE 179 MLE +S+ S+ +++E S+L+Y+ +L + + L E +K PVLQ+IE Sbjct: 122 --MLEAISNKASVYNYIVSIECSQLIYSFILHMFLNLQNKIEKNFENNYLKLLPVLQYIE 179 Query: 180 SNLHRALPLKELAEVASISPQYLCRLFQRTLHERPVTYINKQRINLSKQLMFSGREKRIY 239 N +A+ L E++ + ++SPQ+LC +F++T P Y+ + RI +K+L+ +I Sbjct: 180 ENYKKAISLDEISSIVNLSPQHLCTVFKKTFQTTPYEYLIRVRIQKAKELLMRQSSIQIK 239 Query: 240 EIAEQAGFENTSYFCAVFKRVTGMRPEEFKQLHG 273 E+ + GF+N SYFC +FK++ G+ P +FK+L G Sbjct: 240 EVCYEVGFKNPSYFCYMFKKLEGITPLQFKRLFG 273 Database: pfamseq Posted date: Aug 5, 2010 3:22 PM Number of letters in database: 3,060,696,203 Number of sequences in database: 9,421,015 Lambda K H 0.321 0.137 0.409 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 9421015 Number of Hits to DB: 1,661,402,198 Number of extensions: 68828099 Number of successful extensions: 190963 Number of sequences better than 1.0e-05: 2622 Number of HSP's gapped: 194987 Number of HSP's successfully gapped: 2622 Length of query: 276 Length of database: 3,060,696,203 Length adjustment: 134 Effective length of query: 142 Effective length of database: 1,798,280,193 Effective search space: 255355787406 Effective search space used: 255355787406 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: 130 (54.7 bits)