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= 0210.0003.p (300 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B3KHU9.1 B3KHU9_9BACI AraC protein arabinose-binding/dimerisation 142 4e-32 B3KCS7.1 B3KCS7_9BACI Helix-turn-helix-domain containing protein... 139 2e-31 C1PUY1.1 C1PUY1_ALIAC DNA-binding domain-containing protein, Ara... 139 2e-31 B7DQ49.1 B7DQ49_9BACL Transcriptional regulator, AraC family 138 5e-31 A8S9Z6.1 A8S9Z6_9FIRM Putative uncharacterized protein 138 5e-31 >B3KHU9.1 B3KHU9_9BACI AraC protein arabinose-binding/dimerisation Length = 297 Score = 142 bits (358), Expect = 4e-32, Method: Compositional matrix adjust. Identities = 84/270 (31%), Positives = 139/270 (51%), Gaps = 6/270 (2%) Query: 24 FPINVFHICFPDRSIIPPHWHDHLEWILITKGSFRVQVGPHSRELMQGELAFVSRPQIHA 83 FP +VFHI P + ++ HWHD LE I +G+ +G + + G+L FV++ IH Sbjct: 18 FPFDVFHIIPPGKEVLHLHWHDDLELIYFIRGNATFYIGSETVKPEPGDLMFVNKGMIHT 77 Query: 84 AYPTEDGS-ELYAVVYNEALLNG-MRDLTELQHIRPLLSGEIRLPAFYDTDQPVTRQIRG 141 + ++ E YA+V++ L + + +Q P SG+ P I G Sbjct: 78 GFADDEHQVEYYALVFHSVLAESRVAGSSHVQITNPYASGKRFFPILLPVTDAYNSLIAG 137 Query: 142 CIEQIIYSYQSKSPGYELCIKGGLFSSLGLAYPLAEFTAPPSKRDRQETGI----QPLLI 197 ++Q+I Y+ ++ GY++ I+ L L P D + + L+ Sbjct: 138 IVKQMIAEYEQQAIGYQVAIQSMLHLLLVHLSRHHHLHGPTGSADTVGAELTDRFKELIA 197 Query: 198 HLSNHFHEPLTVEEAARICCVTPNYFCHLFKKNTGKTLIEYVNMLRVHEASRLLQLRRYS 257 + H+ E LTV++AA I ++ +FC FKK TGKT +EYVN+LR++ A +LL Sbjct: 198 FVERHYPEKLTVQQAAGIVNLSEYHFCRTFKKVTGKTFVEYVNLLRINAAEQLLIHSSDP 257 Query: 258 IQEVAFRVGFTGLTYFGRIFKQHTSMTPSE 287 I E+AF+VGF + YF ++F+Q+ +PS+ Sbjct: 258 ITEIAFKVGFGSVNYFSQMFRQYKRHSPSQ 287 >B3KCS7.1 B3KCS7_9BACI Helix-turn-helix-domain containing protein AraC type Length = 295 Score = 139 bits (351), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 88/287 (30%), Positives = 142/287 (49%), Gaps = 18/287 (6%) Query: 15 EHTEIPEGLFPINVFHICFP----DRSIIPPHWHDHLEWILITKGSFRVQVGPHSRELMQ 70 E+T + + +P+ VFH P I+ HWH+H E + + +G + ++ Sbjct: 9 ENTRLGDKAYPVQVFHNLCPGAKTKDCILYLHWHEHFEILCMRQGRAVFHIDTTPYDVKA 68 Query: 71 GELAFVSRPQIHAAYPTEDGSELY-AVVYNEALLN-GMRDLTELQHIRPLLSGEIRLPAF 128 GE + +H Y EDG + VV N +L N + D +++ P + G +R P Sbjct: 69 GEFIIIPGGSLHVGYALEDGDVRFDCVVVNASLFNDSLHDPVHSRYVAPYMEGRLRFPVK 128 Query: 129 YDTDQPVTRQIRGCIEQIIYSYQSKSPGYELCIKGGLFSSLGLA------YPLAEFTAPP 182 P ++++I + P YEL K L++ L LAE T P Sbjct: 129 PAESDPAGADCYPLLDEVIEELAVRRPAYELIAKSKLYTLFVLLARTFMPVQLAEKTHEP 188 Query: 183 --SKRDRQETGIQPLLIHLSNHFHEPLTVEEAARICCVTPNYFCHLFKKNTGKTLIEYVN 240 + R+R + IQ H+ N+ E L VE AA + P +FC +FK+ TG+T ++YVN Sbjct: 189 YFANRERYKKLIQ----HIENNIGEKLPVEAAAAEVGLNPFHFCKMFKRLTGRTFVDYVN 244 Query: 241 MLRVHEASRLLQLRRYSIQEVAFRVGFTGLTYFGRIFKQHTSMTPSE 287 + R++EA RLL+ R +I E+A VG + YF +++KQ+ MTPS+ Sbjct: 245 LTRMNEAERLLRERTLTITEIAGIVGCSNPNYFTKLYKQYKGMTPSQ 291 >C1PUY1.1 C1PUY1_ALIAC DNA-binding domain-containing protein, AraC-type Length = 300 Score = 139 bits (351), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 84/282 (29%), Positives = 144/282 (51%), Gaps = 8/282 (2%) Query: 15 EHTEIPEGLFPINVFHICF---PDRSIIPPHWHDHLEWILITKGSFRVQVGPHSRELMQG 71 EH + + F I +H+ P + + HWH E+I++T+GS +QVG L G Sbjct: 8 EHRQHGDATFHIQAYHVVLTPGPHQQTVNLHWHSEAEFIVVTRGSVCLQVGSQRHVLADG 67 Query: 72 ELAFVSRPQIHA-AYPTEDGSELYAVVYNEALLNG-MRDLTELQHIRPLLSGEIRLPAFY 129 +A +S ++H+ A P + SE A+V+ LL G D + ++ PL SG++RLP Sbjct: 68 GVALLSGGELHSMASPGKGPSECKAIVFGLDLLEGPSGDRVQQSYLSPLASGKLRLPGAI 127 Query: 130 DTDQPVTRQIRGCIEQIIYSYQSKSPGYELCIKGGLFSSLG---LAYPLAEFTAPPSKRD 186 D PV + + +I + + + GYEL +KG L+ L A L E + D Sbjct: 128 AHDHPVRPHLAARLCEIAEALEEQPVGYELAVKGCLYDVLAQLFRAKLLVEDSPRREMDD 187 Query: 187 RQETGIQPLLIHLSNHFHEPLTVEEAARICCVTPNYFCHLFKKNTGKTLIEYVNMLRVHE 246 R+ ++ +L ++ H + L + + AR+ ++ +FC FK+ T + ++YVN RV Sbjct: 188 RRADTLKAVLTYIDEHLSDKLRLADLARVANMSEGHFCRFFKEMTHRKPMQYVNERRVAR 247 Query: 247 ASRLLQLRRYSIQEVAFRVGFTGLTYFGRIFKQHTSMTPSEY 288 A+ LL+ SI + +GF ++YF ++F+ + TP Y Sbjct: 248 AADLLKDPNRSITAIGMDLGFHDVSYFIKVFRSYKHCTPLAY 289 >B7DQ49.1 B7DQ49_9BACL Transcriptional regulator, AraC family Length = 344 Score = 138 bits (348), Expect = 5e-31, Method: Compositional matrix adjust. Identities = 83/282 (29%), Positives = 146/282 (51%), Gaps = 8/282 (2%) Query: 15 EHTEIPEGLFPINVFHICF---PDRSIIPPHWHDHLEWILITKGSFRVQVGPHSRELMQG 71 EH + + F I +H+ P + + HWH E+I++T+GS +QVG L G Sbjct: 52 EHRQHGDTTFHIRAYHVVLTPGPYQQTVNLHWHSEAEFIVVTRGSVCLQVGSERHVLADG 111 Query: 72 ELAFVSRPQIHA-AYPTEDGSELYAVVYNEALLNG-MRDLTELQHIRPLLSGEIRLPAFY 129 ++A +S ++H+ A P + SE A+V+ LL G D + ++ PL SG++ LP Sbjct: 112 DVALLSGGELHSMAAPGKGPSECKAIVFGLDLLEGPSSDRVQQSYLSPLASGKLLLPGAI 171 Query: 130 DTDQPVTRQIRGCIEQIIYSYQSKSPGYELCIKGGLFSSLG---LAYPLAEFTAPPSKRD 186 D PV + + + +I+ + + + GYEL +KG L+ L A L E + D Sbjct: 172 AHDHPVRQYLAARLCEIVEALEEQPVGYELAVKGCLYDVLAQLFRAELLVEHSPRREMDD 231 Query: 187 RQETGIQPLLIHLSNHFHEPLTVEEAARICCVTPNYFCHLFKKNTGKTLIEYVNMLRVHE 246 R+ ++ +L ++ H + L + + AR+ ++ +FC FK+ T + ++YVN RV Sbjct: 232 RRADTLKAVLTYIDAHLSDKLRLADLARVANMSEGHFCRFFKEMTHRKPMQYVNERRVAR 291 Query: 247 ASRLLQLRRYSIQEVAFRVGFTGLTYFGRIFKQHTSMTPSEY 288 A+ LL+ SI + +GF ++YF ++F+ + TP Y Sbjct: 292 AADLLKDPNRSITAIGMDLGFHDVSYFIKVFRSYKHCTPLAY 333 >A8S9Z6.1 A8S9Z6_9FIRM Putative uncharacterized protein Length = 285 Score = 138 bits (348), Expect = 5e-31, Method: Compositional matrix adjust. Identities = 80/267 (29%), Positives = 133/267 (49%), Gaps = 4/267 (1%) Query: 24 FPINVFHICFP-DRSIIPPHWHDHLEWILITKGSFRVQVGPHSRELMQGELAFVSRPQIH 82 FP N++ P D + HWH+ +E + + +G VQVG + +G++ + +H Sbjct: 18 FPFNLYPCTIPGDFQQVALHWHESMELVFVKQGMGLVQVGVVTYPAYRGDIFIFAPGTLH 77 Query: 83 AAYPTEDGSELYA-VVYNEALLNGMRDLTELQHIRPLLSGEIRLPAFYDTDQPVTRQIRG 141 A E Y +++ LL G DL +++ PL SG + LP + Q Sbjct: 78 ALRQAEGQRMEYENIIFEPELLGGAEDLCAEKYLLPLQSGRLSLPVRLTPNDLCYLQAAA 137 Query: 142 CIEQIIYSYQSKSPGYELCIKGGLFSSLGLAYPLAEFTAPPSKRDRQETGIQPLLIHLSN 201 C+ ++ + ++K PGYEL +KG L L L D Q ++ +L LS Sbjct: 138 CLRELEDANRAKRPGYELLVKGALLRFLALLIAQGRQCLSTETADTQR--LKTVLQWLSA 195 Query: 202 HFHEPLTVEEAARICCVTPNYFCHLFKKNTGKTLIEYVNMLRVHEASRLLQLRRYSIQEV 261 H+ EPL V +AA +C + ++F F++ TG++ I ++N R++ A+ L+ ++ + Sbjct: 196 HYAEPLRVADAAGVCSFSASHFMRWFRQMTGQSFIAFLNEYRLNTAAEALRTTDETVLTI 255 Query: 262 AFRVGFTGLTYFGRIFKQHTSMTPSEY 288 A R GF L+YF R FK H MTP +Y Sbjct: 256 ASRCGFENLSYFNRAFKAHFGMTPRDY 282 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 0.139 0.432 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: 1,874,013,497 Number of extensions: 76666665 Number of successful extensions: 156293 Number of sequences better than 1.0e-05: 3556 Number of HSP's gapped: 155835 Number of HSP's successfully gapped: 3556 Length of query: 300 Length of database: 3,060,696,203 Length adjustment: 135 Effective length of query: 165 Effective length of database: 1,788,859,178 Effective search space: 295161764370 Effective search space used: 295161764370 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: 131 (55.1 bits)