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= 0472.0019.p (246 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B3K9Q0.1 B3K9Q0_9BACI AraC protein arabinose-binding/dimerisation 290 1e-76 B1DE54.1 B1DE54_9BACL Transcriptional regulator, AraC family 216 2e-54 B1DH21.1 B1DH21_9BACL Transcriptional regulator, AraC family 182 2e-44 Q9KAQ8.1 Q9KAQ8_BACHD Transcriptional regulator (AraC/XylS family) 177 8e-43 B3KFN2.1 B3KFN2_9BACI AraC protein arabinose-binding/dimerisation 163 1e-38 >B3K9Q0.1 B3K9Q0_9BACI AraC protein arabinose-binding/dimerisation Length = 294 Score = 290 bits (741), Expect = 1e-76, Method: Compositional matrix adjust. Identities = 138/248 (55%), Positives = 179/248 (72%), Gaps = 4/248 (1%) Query: 1 VHDYYLIHTVLDGGGSFQSSTVTQQCRKGDTFVIFPGSLFSYQADEHNPWHYVWVALQGT 60 +HDY LIHTVL G G F+ + CR GDTFVI PG LFSY+AD+ NPWHY WVALQ Sbjct: 43 IHDYCLIHTVLTGQGVFECAGTVHHCRAGDTFVILPGVLFSYEADDRNPWHYNWVALQEK 102 Query: 61 AVSGLLSDIGITRERPLLYTENTSELHSL---YERIRICFKQSAYPRLESLEASGWTRLL 117 + LL+D+G+T RP++ +EL+ L Y +R+ F QS +P LE L+ASGW RLL Sbjct: 103 GTNLLLADMGVTPVRPIIRCTEETELNDLAEMYRHLRLGFNQSDHPWLEDLQASGWLRLL 162 Query: 118 LHHFGQDNLALLPARPKELPEIIDRQIDQAIRWISLQFHQQISIDHMAATLGYHRAHLSK 177 LH N LP+ ++P+I +R + Q RWIS Q+HQQ+SID MA LGYHRAHLSK Sbjct: 163 LHKLAMLNREHLPSSSNDVPDI-ERGVRQTERWISTQYHQQLSIDQMAKALGYHRAHLSK 221 Query: 178 AFKQKTGLSPKQYLLKMRLDKAKSLLSGTLTIDQVASSVGFNDALYFSRQFRKFSGMSPS 237 FKQ TGLSP QYL+K+R++KAK+L+ + +I ++ASSVGFNDALYFS+QFRK++GM+PS Sbjct: 222 MFKQHTGLSPMQYLMKVRIEKAKALMRSSFSIHEIASSVGFNDALYFSKQFRKWTGMTPS 281 Query: 238 EYRAMLRQ 245 EY+ L + Sbjct: 282 EYKYSLEK 289 >B1DE54.1 B1DE54_9BACL Transcriptional regulator, AraC family Length = 294 Score = 216 bits (549), Expect = 2e-54, Method: Compositional matrix adjust. Identities = 103/245 (42%), Positives = 158/245 (64%) Query: 1 VHDYYLIHTVLDGGGSFQSSTVTQQCRKGDTFVIFPGSLFSYQADEHNPWHYVWVALQGT 60 V++Y LIH++ G G+F+ KGD FVIFPG LF+Y+AD+ PW Y WVALQG Sbjct: 43 VYNYTLIHSIDHGFGTFEWQRKKYHLGKGDIFVIFPGVLFNYEADKAEPWSYRWVALQGR 102 Query: 61 AVSGLLSDIGITRERPLLYTENTSELHSLYERIRICFKQSAYPRLESLEASGWTRLLLHH 120 V+ +L ++G+T P++ +++ L S++E I + + + SL GW RLLL Sbjct: 103 NVTEMLENVGVTITNPIVRGADSANLASIFETIEQELELKSGETITSLATDGWFRLLLAE 162 Query: 121 FGQDNLALLPARPKELPEIIDRQIDQAIRWISLQFHQQISIDHMAATLGYHRAHLSKAFK 180 F + N L ++ +R ++QAIRW Q+ ISI+ +A +LGYHR H +K FK Sbjct: 163 FARLNTNKLHYSSTKVLTDSERLVEQAIRWFQTQYMLPISIEKLATSLGYHRTHFTKVFK 222 Query: 181 QKTGLSPKQYLLKMRLDKAKSLLSGTLTIDQVASSVGFNDALYFSRQFRKFSGMSPSEYR 240 Q T LSPKQY+ ++R+++A+ LL+ ++I+QV +S GF D LYFS+QF+K++G SP++YR Sbjct: 223 QLTSLSPKQYINQVRMERARELLNTNISIEQVGNSCGFTDPLYFSKQFKKWTGTSPTQYR 282 Query: 241 AMLRQ 245 L++ Sbjct: 283 EELKR 287 >B1DH21.1 B1DH21_9BACL Transcriptional regulator, AraC family Length = 287 Score = 182 bits (463), Expect = 2e-44, Method: Compositional matrix adjust. Identities = 100/253 (39%), Positives = 149/253 (58%), Gaps = 16/253 (6%) Query: 1 VHDYYLIHTVLDGGGSFQSSTVTQQCRKGDTFVIFPGSLFSYQADEHNPWHYVWVALQGT 60 V+D+YL+HTVL+G G F + + GDTF+I P +L SY ++ PW Y WVA G Sbjct: 40 VYDFYLMHTVLEGKGEFTCGGKSYPLQAGDTFLIEPEALVSYISNADEPWLYRWVAFNGP 99 Query: 61 AVSGLLSDIGITRERPLLYTENTSELHSLYERIRICFKQSAYPRLESLEASGWTRLLL-- 118 + L G + P+ T + LY I F+++ L+A+G+ +LLL Sbjct: 100 QAAELAQAAGFSVANPVAETAAIRRVGVLYNHIFSIFRKN--DPAAHLKAAGYLQLLLAE 157 Query: 119 ----HHFGQDNLALLPARPKELPEIIDRQIDQAIRWISLQFHQQISIDHMAATLGYHRAH 174 H +DN A+ + D+ I Q I ++S Q+ Q +SI+ MA + GY+RA+ Sbjct: 158 FCTVHKLSEDNAAMTNM------DDTDKLIQQMIHYLSTQYAQPVSIEQMAESFGYNRAY 211 Query: 175 LSKAFKQKTGLSPKQYLLKMRLDKAKSLLSGT--LTIDQVASSVGFNDALYFSRQFRKFS 232 LS+ FK+ TG SP +LLK+R+DKA+ ++ LTI+Q+A+SVG D+LYFS+QFR+F Sbjct: 212 LSRVFKRYTGESPITFLLKLRIDKARQMIREREGLTIEQIAASVGLQDSLYFSKQFRRFY 271 Query: 233 GMSPSEYRAMLRQ 245 G+SPS YR +RQ Sbjct: 272 GLSPSAYRESMRQ 284 >Q9KAQ8.1 Q9KAQ8_BACHD Transcriptional regulator (AraC/XylS family) Length = 287 Score = 177 bits (449), Expect = 8e-43, Method: Compositional matrix adjust. Identities = 94/248 (37%), Positives = 146/248 (58%), Gaps = 18/248 (7%) Query: 1 VHDYYLIHTVLDGGGSFQSSTVTQQCRKGDTFVIFPGSLFSYQADEHNPWHYVWVALQGT 60 VHDY+L+H VL G GSF + T GD+F I+P L +Y++D +PW+Y WVA QG Sbjct: 38 VHDYFLLHVVLRGKGSFHCAGKTYSLSAGDSFFIYPKELVTYESDRTDPWYYTWVAFQGP 97 Query: 61 AVSGLLSDIGITRERPLLYTENTS--------ELHSLYERIRICFKQSAYPRLESLEASG 112 L GI E P++ +L+S +++ SL+ + Sbjct: 98 FFEETLRSAGIQPESPIVSLGGKGSMIKQLFYDLYSSMTELKVA---------SSLKTNA 148 Query: 113 WTRLLLHHFGQDNLALLPARPKELPEIIDRQIDQAIRWISLQFHQQISIDHMAATLGYHR 172 + RL++ F + L KE ++ D+ I IR +SL++ + +SI+ +AA+ GY+R Sbjct: 149 YLRLIISEFIEQTTILDEHSQKEDHQL-DQHIQDVIRLLSLRYFEPLSIETIAASYGYNR 207 Query: 173 AHLSKAFKQKTGLSPKQYLLKMRLDKAKSLLSGTLTIDQVASSVGFNDALYFSRQFRKFS 232 + SK FK+ TG SP +YLL +R+ KA++LL +LTI +VASSVG+ D LYFS+QF+++S Sbjct: 208 TYFSKKFKEYTGYSPSKYLLNIRMKKAEALLQKSLTIQEVASSVGYRDPLYFSKQFKQWS 267 Query: 233 GMSPSEYR 240 G++PS +R Sbjct: 268 GVAPSVFR 275 >B3KFN2.1 B3KFN2_9BACI AraC protein arabinose-binding/dimerisation Length = 287 Score = 163 bits (413), Expect = 1e-38, Method: Compositional matrix adjust. Identities = 92/244 (37%), Positives = 141/244 (57%), Gaps = 10/244 (4%) Query: 1 VHDYYLIHTVLDGGGSFQSSTVTQQCRKGDTFVIFPGSLFSYQADEHNPWHYVWVALQGT 60 + D+YL+H + G G F++ T Q GD F+I PG + SY +D PW Y WVA G Sbjct: 40 IFDHYLLHIIESGHGVFRTETDRYQLGPGDCFLIHPGQIVSYVSDASQPWRYRWVAFDGE 99 Query: 61 AVSGLLSDIGITRERPLLYTENTSELHSLYERIRICFKQSAYPRLES--LEASGWTRLLL 118 +S +G+T E+P+L+ + + I+ F+ R ES + A G+ L+ Sbjct: 100 HADEEISRLGLTPEKPVLHLVENNPIPGYVSLIQGHFQS----REESSHMAAIGYLHLIW 155 Query: 119 HHFGQDNLALLPARPKELPEIIDRQIDQAIRWISLQFHQQISIDHMAATLGYHRAHLSKA 178 N + P+R + R + Q I +++ Q+ +SI+ M +LGY+RA+LS+ Sbjct: 156 AEIM--NQSDRPSRLTLSEPQVQRTVKQMISYMASQYAHPVSIEQMCTSLGYNRAYLSRI 213 Query: 179 FKQKTGLSPKQYLLKMRLDKAKSLL--SGTLTIDQVASSVGFNDALYFSRQFRKFSGMSP 236 FKQ+TG++P YLLK+R+D++K LL L+I+QV++SVG D LYFSRQF++ G SP Sbjct: 214 FKQETGMTPITYLLKLRIDQSKRLLRERPDLSIEQVSASVGLTDPLYFSRQFKRLVGRSP 273 Query: 237 SEYR 240 S YR Sbjct: 274 SRYR 277 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 0.322 0.135 0.408 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: 1,437,687,785 Number of extensions: 55440444 Number of successful extensions: 162775 Number of sequences better than 1.0e-05: 5728 Number of HSP's gapped: 163708 Number of HSP's successfully gapped: 5733 Length of query: 246 Length of database: 3,060,696,203 Length adjustment: 132 Effective length of query: 114 Effective length of database: 1,817,122,223 Effective search space: 207151933422 Effective search space used: 207151933422 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: 129 (54.3 bits)