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= 0171.0005.p (285 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B3KFN2.1 B3KFN2_9BACI AraC protein arabinose-binding/dimerisation 348 2e-94 B1DH21.1 B1DH21_9BACL Transcriptional regulator, AraC family 263 1e-68 B1DE54.1 B1DE54_9BACL Transcriptional regulator, AraC family 197 1e-48 B3K9Q0.1 B3K9Q0_9BACI AraC protein arabinose-binding/dimerisation 190 1e-46 Q9KAQ8.1 Q9KAQ8_BACHD Transcriptional regulator (AraC/XylS family) 178 6e-43 >B3KFN2.1 B3KFN2_9BACI AraC protein arabinose-binding/dimerisation Length = 287 Score = 348 bits (894), Expect = 2e-94, Method: Compositional matrix adjust. Identities = 168/273 (61%), Positives = 202/273 (73%) Query: 4 TYSVGSNPVVYDRQHLHVLFAGESQTLPLHQAGPKIYDYYLMHFIESGFGTFRTEERKYE 63 TYSV SNP LHV FAGESQTLP H GPKI+D+YL+H IESG G FRTE +Y+ Sbjct: 5 TYSVASNPAQQGGGWLHVRFAGESQTLPEHALGPKIFDHYLLHIIESGHGVFRTETDRYQ 64 Query: 64 LGPGDCFLIHPGQLVSYVSDEDQPWRYRWAAFTGTDADALVLQTGFTPQKPVLSTAEGSV 123 LGPGDCFLIHPGQ+VSYVSD QPWRYRW AF G AD + + G TP+KPVL E + Sbjct: 65 LGPGDCFLIHPGQIVSYVSDASQPWRYRWVAFDGEHADEEISRLGLTPEKPVLHLVENNP 124 Query: 124 FPGALAGMMRAFYTGKESAHLTSLGYLYLLVGEAADLLLASSRLPGAESQVKRTVKQMIH 183 PG ++ + F + +ES+H+ ++GYL+L+ E + SRL +E QV+RTVKQMI Sbjct: 125 IPGYVSLIQGHFQSREESSHMAAIGYLHLIWAEIMNQSDRPSRLTLSEPQVQRTVKQMIS 184 Query: 184 YMAAQYAHPVSIEQMCASLGYNRAYLSRIFKQETGLSPVTYLLKLRIEKSXXXXXXXXXX 243 YMA+QYAHPVSIEQMC SLGYNRAYLSRIFKQETG++P+TYLLKLRI++S Sbjct: 185 YMASQYAHPVSIEQMCTSLGYNRAYLSRIFKQETGMTPITYLLKLRIDQSKRLLRERPDL 244 Query: 244 SVEQVAASVGLTDALYFSRQFKRFCAQSPTAYR 276 S+EQV+ASVGLTD LYFSRQFKR +SP+ YR Sbjct: 245 SIEQVSASVGLTDPLYFSRQFKRLVGRSPSRYR 277 >B1DH21.1 B1DH21_9BACL Transcriptional regulator, AraC family Length = 287 Score = 263 bits (673), Expect = 1e-68, Method: Compositional matrix adjust. Identities = 134/277 (48%), Positives = 171/277 (61%), Gaps = 2/277 (0%) Query: 2 EHTYSVGSNPVVYDRQHLHVLFAGESQTLPLHQAGPKIYDYYLMHFIESGFGTFRTEERK 61 + TY V SNPV+ +H++VLFAGESQT P HQ GPK+YD+YLMH + G G F + Sbjct: 3 QDTYKVASNPVITYNEHMNVLFAGESQTKPSHQRGPKVYDFYLMHTVLEGKGEFTCGGKS 62 Query: 62 YELGPGDCFLIHPGQLVSYVSDEDQPWRYRWAAFTGTDADALVLQTGFTPQKPVLSTAEG 121 Y L GD FLI P LVSY+S+ D+PW YRW AF G A L GF+ PV TA Sbjct: 63 YPLQAGDTFLIEPEALVSYISNADEPWLYRWVAFNGPQAAELAQAAGFSVANPVAETAAI 122 Query: 122 SVFPGALAGMMRAFYTGKESAHLTSLGYLYLLVGEAADL--LLASSRLPGAESQVKRTVK 179 + F +AHL + GYL LL+ E + L + + ++ Sbjct: 123 RRVGVLYNHIFSIFRKNDPAAHLKAAGYLQLLLAEFCTVHKLSEDNAAMTNMDDTDKLIQ 182 Query: 180 QMIHYMAAQYAHPVSIEQMCASLGYNRAYLSRIFKQETGLSPVTYLLKLRIEKSXXXXXX 239 QMIHY++ QYA PVSIEQM S GYNRAYLSR+FK+ TG SP+T+LLKLRI+K+ Sbjct: 183 QMIHYLSTQYAQPVSIEQMAESFGYNRAYLSRVFKRYTGESPITFLLKLRIDKARQMIRE 242 Query: 240 XXXXSVEQVAASVGLTDALYFSRQFKRFCAQSPTAYR 276 ++EQ+AASVGL D+LYFS+QF+RF SP+AYR Sbjct: 243 REGLTIEQIAASVGLQDSLYFSKQFRRFYGLSPSAYR 279 >B1DE54.1 B1DE54_9BACL Transcriptional regulator, AraC family Length = 294 Score = 197 bits (501), Expect = 1e-48, Method: Compositional matrix adjust. Identities = 102/278 (36%), Positives = 162/278 (58%), Gaps = 11/278 (3%) Query: 5 YSVGSNPVVYDRQHLHVLFAGESQTLPLHQAGPKIYDYYLMHFIESGFGTFRTEERKYEL 64 Y V NP + + + L++ FAG ++ PLH+ GP +Y+Y L+H I+ GFGTF + +KY L Sbjct: 10 YRVQINPYLLNAE-LNITFAGAARPRPLHKVGPAVYNYTLIHSIDHGFGTFEWQRKKYHL 68 Query: 65 GPGDCFLIHPGQLVSYVSDEDQPWRYRWAAFTGTDADALVLQTGFTPQKPVLSTAEGSVF 124 G GD F+I PG L +Y +D+ +PW YRW A G + ++ G T P++ A+ + Sbjct: 69 GKGDIFVIFPGVLFNYEADKAEPWSYRWVALQGRNVTEMLENVGVTITNPIVRGADSANL 128 Query: 125 PGALAGMMR--AFYTGKESAHLTSLGYLYLLVGEAADLLLASSRLPGAESQV----KRTV 178 + + +G+ L + G+ LL+ E A L +++L + ++V +R V Sbjct: 129 ASIFETIEQELELKSGETITSLATDGWFRLLLAEFAR--LNTNKLHYSSTKVLTDSERLV 186 Query: 179 KQMIHYMAAQYAHPVSIEQMCASLGYNRAYLSRIFKQETGLSPVTYLLKLRIEKSXXXXX 238 +Q I + QY P+SIE++ SLGY+R + +++FKQ T LSP Y+ ++R+E++ Sbjct: 187 EQAIRWFQTQYMLPISIEKLATSLGYHRTHFTKVFKQLTSLSPKQYINQVRMERA--REL 244 Query: 239 XXXXXSVEQVAASVGLTDALYFSRQFKRFCAQSPTAYR 276 S+EQV S G TD LYFS+QFK++ SPT YR Sbjct: 245 LNTNISIEQVGNSCGFTDPLYFSKQFKKWTGTSPTQYR 282 >B3K9Q0.1 B3K9Q0_9BACI AraC protein arabinose-binding/dimerisation Length = 294 Score = 190 bits (483), Expect = 1e-46, Method: Compositional matrix adjust. Identities = 108/294 (36%), Positives = 167/294 (56%), Gaps = 16/294 (5%) Query: 2 EHT-YSVGSNPVVYDRQHLHVLFAGESQTLPLHQAGPKIYDYYLMHFIESGFGTFRTEER 60 +HT Y++G NP L++LF+GE +P H+ GP I+DY L+H + +G G F Sbjct: 6 DHTLYTIGMNPSPGGHD-LNILFSGEGMPVPRHKIGPIIHDYCLIHTVLTGQGVFECAGT 64 Query: 61 KYELGPGDCFLIHPGQLVSYVSDEDQPWRYRWAAFTGTDADALVLQTGFTPQKPVLSTAE 120 + GD F+I PG L SY +D+ PW Y W A + L+ G TP +P++ E Sbjct: 65 VHHCRAGDTFVILPGVLFSYEADDRNPWHYNWVALQEKGTNLLLADMGVTPVRPIIRCTE 124 Query: 121 GSVFPGALAGMMRAFYTG-KESAH-----LTSLGYLYLLVGEAADLLLASSRLPGAESQV 174 + LA M R G +S H L + G+L LL+ + A +L LP + + V Sbjct: 125 ETEL-NDLAEMYRHLRLGFNQSDHPWLEDLQASGWLRLLLHKLA--MLNREHLPSSSNDV 181 Query: 175 ---KRTVKQMIHYMAAQYAHPVSIEQMCASLGYNRAYLSRIFKQETGLSPVTYLLKLRIE 231 +R V+Q +++ QY +SI+QM +LGY+RA+LS++FKQ TGLSP+ YL+K+RIE Sbjct: 182 PDIERGVRQTERWISTQYHQQLSIDQMAKALGYHRAHLSKMFKQHTGLSPMQYLMKVRIE 241 Query: 232 KSXXXXXXXXXXSVEQVAASVGLTDALYFSRQFKRFCAQSPTAYRIATARHGEK 285 K+ S+ ++A+SVG DALYFS+QF+++ +P+ Y+ + + K Sbjct: 242 KA--KALMRSSFSIHEIASSVGFNDALYFSKQFRKWTGMTPSEYKYSLEKSSNK 293 >Q9KAQ8.1 Q9KAQ8_BACHD Transcriptional regulator (AraC/XylS family) Length = 287 Score = 178 bits (451), Expect = 6e-43, Method: Compositional matrix adjust. Identities = 91/267 (34%), Positives = 150/267 (56%), Gaps = 4/267 (1%) Query: 20 HVLFAGESQTLPLHQAGPKIYDYYLMHFIESGFGTFRTEERKYELGPGDCFLIHPGQLVS 79 +VLF+G SQT P H+ GP+++DY+L+H + G G+F + Y L GD F I+P +LV+ Sbjct: 19 NVLFSGYSQTFPYHKVGPQVHDYFLLHVVLRGKGSFHCAGKTYSLSAGDSFFIYPKELVT 78 Query: 80 YVSDEDQPWRYRWAAFTGTDADALVLQTGFTPQKPVLST-AEGSVFPGALAGMMRAFYTG 138 Y SD PW Y W AF G + + G P+ P++S +GS+ + + Sbjct: 79 YESDRTDPWYYTWVAFQGPFFEETLRSAGIQPESPIVSLGGKGSMIKQLFYDLYSSMTEL 138 Query: 139 KESAHLTSLGYLYLLVGEAAD-LLLASSRLPGAESQVKRTVKQMIHYMAAQYAHPVSIEQ 197 K ++ L + YL L++ E + + + Q+ + ++ +I ++ +Y P+SIE Sbjct: 139 KVASSLKTNAYLRLIISEFIEQTTILDEHSQKEDHQLDQHIQDVIRLLSLRYFEPLSIET 198 Query: 198 MCASLGYNRAYLSRIFKQETGLSPVTYLLKLRIEKSXXXXXXXXXXSVEQVAASVGLTDA 257 + AS GYNR Y S+ FK+ TG SP YLL +R++K+ ++++VA+SVG D Sbjct: 199 IAASYGYNRTYFSKKFKEYTGYSPSKYLLNIRMKKA--EALLQKSLTIQEVASSVGYRDP 256 Query: 258 LYFSRQFKRFCAQSPTAYRIATARHGE 284 LYFS+QFK++ +P+ +R + E Sbjct: 257 LYFSKQFKQWSGVAPSVFRQQHLKESE 283 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 0.320 0.134 0.400 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: 1,654,092,774 Number of extensions: 66459211 Number of successful extensions: 157457 Number of sequences better than 1.0e-05: 1175 Number of HSP's gapped: 160959 Number of HSP's successfully gapped: 1175 Length of query: 285 Length of database: 3,060,696,203 Length adjustment: 134 Effective length of query: 151 Effective length of database: 1,798,280,193 Effective search space: 271540309143 Effective search space used: 271540309143 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 (21.8 bits) S2: 130 (54.7 bits)