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= 0106.0001.p (296 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value A9KPU7.1 A9KPU7_CLOPH Transcriptional regulator, AraC family 163 1e-38 A6M0H0.1 A6M0H0_CLOB8 Transcription activator, effector binding 130 2e-28 Q9K766.1 Q9K766_BACHD Transcriptional regulator (AraC/XylS family) 83 3e-14 B1KXL7.1 B1KXL7_CLOBM Transcriptional regulator, AraC family 75 6e-12 C2MHE0.1 C2MHE0_BACCE Transcriptional regulator, AraC 74 1e-11 >A9KPU7.1 A9KPU7_CLOPH Transcriptional regulator, AraC family Length = 294 Score = 163 bits (413), Expect = 1e-38, Method: Compositional matrix adjust. Identities = 87/262 (33%), Positives = 143/262 (54%), Gaps = 1/262 (0%) Query: 32 QVNISKFHLLRIWKGATAIGLMEYVRRRRIALSLGDLIHERNSIEFISSKYSFGCERTYS 91 Q+ ISKFH RI+K T L+ YVR R++ SL +L+ ++ I I+ Y+F E++Y Sbjct: 32 QIGISKFHFHRIFKAITGSPLITYVRGRKLTSSLNELLDDKLKIIDIAYDYNFEYEQSYE 91 Query: 92 RVFKEEFNISPAKWRRSPTPLQIMDRFNADFLHRAGEGLVYFHSTSVLPPFSIAGLEYQV 151 R FK+ F ++P+ +R+ L I+ R + L+ +G+V +P F +AG++ + Sbjct: 92 RAFKQLFGLTPSAFRQKNCELPIVPRIDTSLLNDISKGIVITPWYCTMPKFHLAGIKTLI 151 Query: 152 DVNDNMANQTANRLGVAFFYKDRPRIINPVNKDIYIGYTTVPEPFQGYTWYQPSVEINQS 211 + +N TAN + F+Y R + N +N+ +Y G T + F +Y PSVE+++S Sbjct: 152 NHIENYNTATANSSAMDFYYNKRYLLQNAINEHLYYGLVTYHD-FYTADYYMPSVEVSES 210 Query: 212 SIVPPDMSVKHVAPHRYGVFTYMGPHRPEEINSKSLSTIWRYIFETWMPTVQFDLKEKFS 271 + + + Y VF Y+G H PE++ K LS I+ I W+PT F +F Sbjct: 211 FDFNSIFTCQTIERSDYAVFRYVGLHSPEDLTMKLLSEIYEVIETVWLPTTSFKPTRQFH 270 Query: 272 FELINYARCNKQYCECNLYYPI 293 FE +N C + YCE ++Y+PI Sbjct: 271 FERMNQKICKEDYCEADIYFPI 292 >A6M0H0.1 A6M0H0_CLOB8 Transcription activator, effector binding Length = 297 Score = 130 bits (327), Expect = 2e-28, Method: Compositional matrix adjust. Identities = 80/294 (27%), Positives = 142/294 (48%), Gaps = 6/294 (2%) Query: 5 LLETINQTTEFXXXXXXXXXXXXXXXXQVNISKFHLLRIWKGATAIGLMEYVRRRRIALS 64 L ETI +T + ISK++L RI+K T +MEYV+ R++ S Sbjct: 4 LKETIIETVAYIEDNLYNKISLADISLHTGISKYYLHRIFKSLTGESIMEYVQGRKLTSS 63 Query: 65 LGDLIHERNSIEFISSKYSFGCERTYSRVFKEEFNISPAKWRRSPTPLQIM--DRFNADF 122 L +LI+ I I+ +Y F E++Y R FK+ F +P K R L ++ ++ N + Sbjct: 64 LNELINTTMRIIDIALEYGFDYEQSYIRAFKKCFGHTPLKIRSDKISLSLILKEKINCND 123 Query: 123 LHRAGEGLVYFHSTSVLPPFSIAGLEYQVDVNDNMANQTANRLGVAFFYKDRPRIINPVN 182 + G + Y F++ G+++++ +++AN G FFY + +I N +N Sbjct: 124 ILSIGNSITYNPQFVFKQKFNLIGIKHKI--LSKSGDKSANSYGRDFFYNHKHKINNLIN 181 Query: 183 KDIYIGYTTVPEPFQGYTWYQPSVEINQSSIVPPDMSVKHVAPHRYGVFTYMGPHRPEEI 242 Y G+T + +Y PSV+++ + +P M + H+Y VF ++G RP+++ Sbjct: 182 PHEYFGFTDWGS--DDFIYYIPSVQVSDINTIPEGMISISIPAHKYVVFRFVGFFRPDDL 239 Query: 243 NSKSLSTIWRYIFETWMPTVQFDLKEKFSFELINYARCNKQYCECNLYYPISQV 296 N + L + ++ W+ + F FE I+ +R YCE +Y PI + Sbjct: 240 NGRHLGRLLVQLYRKWIFKSGYKFAATFRFEYIDNSRSKDNYCELYVYQPIEDL 293 >Q9K766.1 Q9K766_BACHD Transcriptional regulator (AraC/XylS family) Length = 297 Score = 83.2 bits (204), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 69/276 (25%), Positives = 118/276 (42%), Gaps = 33/276 (11%) Query: 36 SKFHLLRIWKGATAIGLMEYVRRRRIALSLGDLIHERNSIEFISSKYSFGCERTYSRVFK 95 S FH R+++ +M+Y+R+RR+ + L + + I+ + F + +++R FK Sbjct: 34 SPFHYHRVFQAIVGESVMDYIRKRRLTCAAERLFYTDEKVITIAIEVGFQYQESFNRAFK 93 Query: 96 EEFNISPAKWR---RSPTPLQ---IMDRFNADFLHRAGEGLVYFHSTSVLPPFSIAGLEY 149 + + +SP ++R R PL+ +D+ H+ V P F I G E Sbjct: 94 KIYGVSPRQYRNAKRISGPLRGKACLDKKLWLGGHKMEPKFV------TKPAFHIIGYEL 147 Query: 150 QVDVNDNMANQT---------ANRLGVAFFYKDRPRIINPVNKDIYIGYTTVPEPFQGYT 200 + D N+ N+LG I NP++K + +G T P G Sbjct: 148 KTKNADGQNNKDIPEFWQHYLKNKLGCT--------IPNPLHKHVELGICTEFNPETGEF 199 Query: 201 WYQPSVEINQSSIVPPDMSVKHVAPHRYGVFTYMGPHRPEEINSKSLSTIWRYIFETWMP 260 Y +E+ + + P M K Y VFT P EE + S+ + W YIF W P Sbjct: 200 VYVIGMEVEKGTKAPEGMVYKSFPELEYAVFT--TPKANEESFTSSIQSTWNYIFTEWFP 257 Query: 261 TVQFDLKEKFSFELINYARCN-KQYCECNLYYPISQ 295 ++ FEL + RC+ + E ++Y P+ + Sbjct: 258 QSDYEHNGVVEFELYD-ERCHGTENIEMDIYIPVKK 292 >B1KXL7.1 B1KXL7_CLOBM Transcriptional regulator, AraC family Length = 289 Score = 75.1 bits (183), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 62/271 (22%), Positives = 116/271 (42%), Gaps = 21/271 (7%) Query: 33 VNISKFHLLRIWKGATAIGLMEYVRRRRIALSLGDLIHERNSIEFISSKYSFGCERTYSR 92 + S +H R+++G + Y+R+RRI + DLI+ I I+ + F ++R Sbjct: 31 IGYSYYHFTRLFEGLLGETIGNYIRKRRITRAAQDLIYTDKKIIDIALDFQFKSPEAFAR 90 Query: 93 VFKEEFNISPAKWRRSPTPLQIMDR--FNADFLHRAGEGLVYFHSTSVLPPFSIAGLEYQ 150 FK+ ++ISP ++R++ + ++ + + L + V+P + G++ + Sbjct: 91 AFKKIYDISPTEYRKNRIDVLKGNKKYIDNERLKHILNNITIQPVIKVIPEVKVIGIKGK 150 Query: 151 VDVNDNMANQTANRLGVAFFYKDRPRIINPVNKDIYIGYTTVPEP---FQGYTWYQPSV- 206 + +N+ N F K +IIN Y G +P F Y V Sbjct: 151 TSLKNNLLPDLWND-----FNKSSSQIINRAEPLKYYGICQNDKPNNEFGENVVYSEIVG 205 Query: 207 -EINQSSIVPPDMSVKHVAPHRYGVFTYMGPHRPEEINSKSLSTIWRYIFETWMP--TVQ 263 E+ +P M K + +Y VFT+ G + + L + YI+ TW+P V+ Sbjct: 206 TEVTSFDYIPEGMVAKVIPQGKYVVFTHKG-------SVEKLQETYEYIWGTWIPFSKVE 258 Query: 264 FDLKEKFSFELINYARCNKQYCECNLYYPIS 294 D+++ F + N E ++Y PI Sbjct: 259 LDMRDDFELYDERFKGENNHLSEIDIYIPIK 289 >C2MHE0.1 C2MHE0_BACCE Transcriptional regulator, AraC Length = 300 Score = 74.3 bits (181), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 65/272 (23%), Positives = 115/272 (42%), Gaps = 13/272 (4%) Query: 33 VNISKFHLLRIWKGATAIGLMEYVRRRRIALSLGDLIHERNSIEFISSKYSFGCERTYSR 92 S+ H R+++ +MEYVR+RR+A + L H I I+ ++ F T++R Sbjct: 32 AGFSESHFHRVFQALVGDTVMEYVRKRRLARAAYQLSHTDEKIIDIAFEHGFQSHETFTR 91 Query: 93 VFKEEFNISPAKWRRS--PTPLQIMDRFNADFLHRAGEGLVYFHSTSVLPPFSIAGLEYQ 150 FK+ F ++P+++R+ TP+ L+ G+ + P F +AG E + Sbjct: 92 AFKKLFQMTPSEYRKQEIETPMYYSVNVKQRKLNPYLGGIQMEYRIVNKPEFLVAGYELK 151 Query: 151 VDVNDNMANQTANRLGVAFFYKDRPRIINPVNKD----IYIGYTTVPEPFQGYTWYQPSV 206 + +Q + KD I P KD + +G T G Y + Sbjct: 152 TTSKEGKNHQDIPAFWQEYLQKDLGTTI-PNRKDTSQWVELGLCTDFNLETGDFTYIIGM 210 Query: 207 EINQSSIVPPDMSVKHVAPHRYGVFTYMGPHRPEEINSKSLSTIWRYIFETWMPTVQFDL 266 E+ VP +++ + Y VFT P P E S+ W +F W P ++ Sbjct: 211 EVTDFENVPNEIAKRTFPAATYAVFT--TPKVPHEEMVSSIHQTWNAVFSEWFPHSGYEH 268 Query: 267 KEKFSFELINYARCNK---QYCECNLYYPISQ 295 FEL + RC++ ++ + L+ P+ + Sbjct: 269 CGVTEFELYD-ERCHEDKSEFAQVELWIPVKK 299 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 0.323 0.138 0.430 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: 1,718,706,385 Number of extensions: 70277454 Number of successful extensions: 133733 Number of sequences better than 1.0e-05: 157 Number of HSP's gapped: 133815 Number of HSP's successfully gapped: 157 Length of query: 296 Length of database: 3,060,696,203 Length adjustment: 135 Effective length of query: 161 Effective length of database: 1,788,859,178 Effective search space: 288006327658 Effective search space used: 288006327658 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.5 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (22.0 bits) S2: 130 (54.7 bits)