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= 0217.0025.p (255 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B3KJD1.1 B3KJD1_9BACI Helix-turn-helix-domain containing protein... 264 6e-69 B3K413.1 B3K413_9BACI Helix-turn-helix-domain containing protein... 233 1e-59 Q2BEU0.1 Q2BEU0_9BACI Transcriptional regulator (AraC/XylS famil... 197 7e-49 Q9KEY8.1 Q9KEY8_BACHD Transcriptional regulator (AraC/XylS family) 195 3e-48 B7DSF7.1 B7DSF7_9BACL Transcriptional regulator, AraC family 190 9e-47 >B3KJD1.1 B3KJD1_9BACI Helix-turn-helix-domain containing protein AraC type Length = 295 Score = 264 bits (674), Expect = 6e-69, Method: Compositional matrix adjust. Identities = 123/211 (58%), Positives = 159/211 (75%) Query: 1 MTGGDSVYYYLLRLQTEGRSRTMVNGVLTTVESGDLMLFAPSDPYYLSIDKESYPVGKPR 60 M+ D YL+R QT+G+ R ++G L+ +E+GDL++F P PY L ID E +G+ Sbjct: 23 MSLADGFDTYLMRWQTDGKCRAKIDGKLSLIEAGDLLIFTPGQPYELRIDDEYNALGELT 82 Query: 61 IESGDYHIFCGGPWIEEWWTRKQRPLVLPMPLSDYFLGLFRQIVLEQRRLSNPSPEISAC 120 IESGDYHIF GPW + WW K+RP + +PL + +L LFRQI+LEQRR+S+P PEIS Sbjct: 83 IESGDYHIFFKGPWADAWWNSKKRPTKIRVPLEERYLSLFRQILLEQRRVSDPYPEISDY 142 Query: 121 YLQILCLEIDRLMSEQPAVSPKGYLAYRMKQYVEEHAAYPFRLEDVAGHVDISVSRAVHL 180 ++ILCLE+DRL+SEQP+ +PK YLAYRMK Y+EE+A+ F+LEDVA HV ISVSRAVHL Sbjct: 143 TVRILCLEVDRLLSEQPSTTPKTYLAYRMKNYIEENASSMFKLEDVAAHVGISVSRAVHL 202 Query: 181 FKEAFGTTIVKYVNDVRLDMARERITFSPMP 211 FKEAFGTTI++Y DVRL MA+ERI +P P Sbjct: 203 FKEAFGTTIMQYTMDVRLSMAKERIVSAPSP 233 >B3K413.1 B3K413_9BACI Helix-turn-helix-domain containing protein AraC type Length = 289 Score = 233 bits (595), Expect = 1e-59, Method: Compositional matrix adjust. Identities = 117/247 (47%), Positives = 165/247 (66%), Gaps = 10/247 (4%) Query: 10 YLLRLQTEGRSRTMVNGVLTTVESGDLMLFAPSDPYYLSIDKESYPVGKPRIESGDYHIF 69 YL RLQTEG NG+ V++GDL+L P D Y L + KE G R+ SGDY IF Sbjct: 42 YLFRLQTEGSCEIYCNGIEHHVQAGDLLLLKPGDEYELRV-KEDGEDG--RVSSGDYFIF 98 Query: 70 CGGPWIEEWWTRKQRPLVLPMPLSDYFLGLFRQIVLEQRR-LSNPSPEISACYLQILCLE 128 C G WI++WW R RP+V + L DY LGL+RQ++LE+RR L E++ L+ LCL Sbjct: 99 CDGSWIDDWWNRIPRPVVSHVGLDDYLLGLWRQMLLEKRRGLEGEIGELTDYLLRSLCLC 158 Query: 129 IDRLMSEQPAVSPKGYLAYRMKQYVEEHAAYPFRLEDVAGHVDISVSRAVHLFKEAFGTT 188 +DR ++E + A R+K++VEEHA F+LE+ A HV +S+SRAV LFKE +G T Sbjct: 159 LDRAITEIKPTDRLAFTALRLKRFVEEHATLTFKLEEAASHVGLSLSRAVKLFKEYYGKT 218 Query: 189 IVKYVNDVRLDMARERITFSPMPLEHVSETCGFANYTYFHRLFRSRFGMSPKQYRAYSRQ 248 +++Y ++RL+ A ERI +S M LE ++ETCGFA+Y+YFHR+FR+ +G+SP ++R Sbjct: 219 MIQYALEIRLNAAVERIKYSTMTLEEIAETCGFASYSYFHRVFRANYGVSPVKFR----- 273 Query: 249 AETASLP 255 ETA++P Sbjct: 274 -ETATVP 279 >Q2BEU0.1 Q2BEU0_9BACI Transcriptional regulator (AraC/XylS family) protein Length = 284 Score = 197 bits (501), Expect = 7e-49, Method: Compositional matrix adjust. Identities = 98/235 (41%), Positives = 140/235 (59%), Gaps = 4/235 (1%) Query: 10 YLLRLQTEGRSRTMVNGVLTTVESGDLMLFAPSDPYYLSIDKESYPVGKPRIESGDYHIF 69 YL+RLQTEG +V G +E GDL+L P D Y L +D + I SGDYH+ Sbjct: 41 YLIRLQTEGACEAIVRGNRRKLEKGDLLLIKPGDHYELMVDS---LLPDKAILSGDYHLI 97 Query: 70 CGGPWIEEWWTRKQRPLVLPMPLSDYFLGLFRQIVLEQRRLSNPS-PEISACYLQILCLE 128 C G WIE+WW R +P V + + L L+R +++E RR S E+S L+ LC+ Sbjct: 98 CEGKWIEDWWKRSNKPDVARIDADERLLSLWRHLIIELRRPSKEEFNELSDYLLRSLCIL 157 Query: 129 IDRLMSEQPAVSPKGYLAYRMKQYVEEHAAYPFRLEDVAGHVDISVSRAVHLFKEAFGTT 188 ++R + E + + Y RM +++EEHA F++E+ A H +SVSRAVHLFKE+ G T Sbjct: 158 LERSLKESSLSAHRPYAVTRMLRFIEEHALSSFKVEEAAAHAGLSVSRAVHLFKESTGKT 217 Query: 189 IVKYVNDVRLDMARERITFSPMPLEHVSETCGFANYTYFHRLFRSRFGMSPKQYR 243 I++Y ++RL A ER+ ++ M LE ++E CGF Y YFHR+F G +P YR Sbjct: 218 IMEYAMEIRLAAAEERMKYTTMTLEQIAEECGFGTYPYFHRVFSKMHGRAPGVYR 272 >Q9KEY8.1 Q9KEY8_BACHD Transcriptional regulator (AraC/XylS family) Length = 263 Score = 195 bits (496), Expect = 3e-48, Method: Compositional matrix adjust. Identities = 91/240 (37%), Positives = 147/240 (61%), Gaps = 9/240 (3%) Query: 10 YLLRLQTEGRSRTMVNGVLTTVESGDLMLFAPSDPYYLSIDKESYPVGKPRIESGDYHIF 69 YLLRLQTEG + +N +E GDL+L P D + L ++ SGDYH+ Sbjct: 26 YLLRLQTEGTCKVKLNEREFQLEKGDLLLTNPEDMFELIVEDGD--------NSGDYHLL 77 Query: 70 CGGPWIEEWWTRKQRPLVLPMPLSDYFLGLFRQIVLEQRR-LSNPSPEISACYLQILCLE 128 C G WI+ WW R ++P V + L + + ++R ++LE RR +S + EI +Q LCL Sbjct: 78 CEGDWIDAWWRRSEKPSVSTIDLDENIMAIWRCMILEDRRSVSEKNDEILHYLVQTLCLS 137 Query: 129 IDRLMSEQPAVSPKGYLAYRMKQYVEEHAAYPFRLEDVAGHVDISVSRAVHLFKEAFGTT 188 ++R E ++S + Y RM +Y+EE+A ++EDVA H +SVSR+ HLFK + G T Sbjct: 138 LERAAMETKSMSSRPYTVTRMMRYIEENAITGIKVEDVAKHAGLSVSRSAHLFKSSVGKT 197 Query: 189 IVKYVNDVRLDMARERITFSPMPLEHVSETCGFANYTYFHRLFRSRFGMSPKQYRAYSRQ 248 +++Y ++++L +A + + + LEH++E CGF +Y+YFHR+F+ +G+SP YR+ ++ Sbjct: 198 MIEYAHEIKLAVAIDFLKHTTYTLEHIAEDCGFGSYSYFHRVFKKHYGISPGDYRSSTKH 257 >B7DSF7.1 B7DSF7_9BACL Transcriptional regulator, AraC family Length = 274 Score = 190 bits (483), Expect = 9e-47, Method: Compositional matrix adjust. Identities = 91/234 (38%), Positives = 144/234 (61%), Gaps = 1/234 (0%) Query: 10 YLLRLQTEGRSRTMVNGVLTTVESGDLMLFAPSDPYYLSIDKESYPVGKPRIESGDYHIF 69 YL RLQ +G + +G V +GDL+LF +PY L I+ + + S D ++F Sbjct: 38 YLFRLQLDGHAVVTTSGASMVVGAGDLLLFPAGEPYELRIEPDEGERSGEHL-STDLYLF 96 Query: 70 CGGPWIEEWWTRKQRPLVLPMPLSDYFLGLFRQIVLEQRRLSNPSPEISACYLQILCLEI 129 C GPW+++WW + R L + L + + L+RQ++ E RR P E+ L+ LCL Sbjct: 97 CNGPWVDKWWNERPRKRHLRLALHENCVYLWRQLIEEYRRPGKPDEELCDYLLRALCLTF 156 Query: 130 DRLMSEQPAVSPKGYLAYRMKQYVEEHAAYPFRLEDVAGHVDISVSRAVHLFKEAFGTTI 189 D+ + +P A R++ Y+E HAA L D+A V +SVSR VH+FKEA+G T+ Sbjct: 157 DKYGYDPKRATPVPIAAERIRAYIERHAAEDLSLSDIADAVGLSVSRVVHIFKEAYGQTV 216 Query: 190 VKYVNDVRLDMARERITFSPMPLEHVSETCGFANYTYFHRLFRSRFGMSPKQYR 243 V+Y+ +VRL MA +R+ FS + LE +++ CGF +Y+YF+R+FR ++G+SP+++R Sbjct: 217 VQYLQNVRLQMACDRMRFSNLNLEEIADRCGFHSYSYFYRVFRQKYGISPREFR 270 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 0.425 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: 1,594,975,459 Number of extensions: 67502680 Number of successful extensions: 135649 Number of sequences better than 1.0e-05: 2260 Number of HSP's gapped: 137013 Number of HSP's successfully gapped: 2260 Length of query: 255 Length of database: 3,060,696,203 Length adjustment: 133 Effective length of query: 122 Effective length of database: 1,807,701,208 Effective search space: 220539547376 Effective search space used: 220539547376 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)