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= 0301.0006.p (179 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B2TL55.1 B2TL55_CLOBB Transcriptional regulator, AraC/XylS family 196 5e-49 Q5WGK8.1 Q5WGK8_BACSK AraC/XylS family transcriptional regulator 193 5e-48 Q97LX8.1 Q97LX8_CLOAB Transcriptional regulator (HTH_ARAC-domain) 156 9e-37 Q2BEJ9.1 Q2BEJ9_9BACI Transcriptional regulator, AraC/XylS famil... 140 3e-32 B1HRP5.1 B1HRP5_LYSSC Transcriptional regulator, AraC/XylS family 137 5e-31 >B2TL55.1 B2TL55_CLOBB Transcriptional regulator, AraC/XylS family Length = 282 Score = 196 bits (499), Expect = 5e-49, Method: Compositional matrix adjust. Identities = 88/177 (49%), Positives = 121/177 (68%), Gaps = 2/177 (1%) Query: 2 QLKAFPRLTFHLSLKGDQEMEYKIVEKPAFTVIGKSMEVTTRDGENLRRIPEFWNECNAD 61 LKA+P+L+FH+S+KGD++M YKIVEK +F V+GK +T DGEN ++PEFWN C D Sbjct: 108 NLKAYPKLSFHISIKGDKDMNYKIVEKESFRVVGKQTRITMVDGENFEQVPEFWNNCMKD 167 Query: 62 GTSDELIEIGKGKDWLGICMSMDMEKELLSYWIGVEGTPETDPQGYETAVVPAASWAVFT 121 G+ + + LGIC D K+ +Y IGVE ++ P+GY +A +PAA+WA+F Sbjct: 168 GSYNWICSKVGKLGVLGICK--DFGKDEFNYMIGVEEIKDSIPKGYVSATIPAATWAIFE 225 Query: 122 SAGPMPHAIQKVWQRIFQEWFPGTGYEHTGGPEFELYPPGDTGAEDYVCEVWIPVQK 178 S+G +P AIQ + +RIF EW P TGYEH PE E+YP GD + DY CE+WIP++K Sbjct: 226 SSGALPDAIQDLTRRIFTEWLPSTGYEHACAPELEIYPEGDIYSSDYKCEIWIPIKK 282 >Q5WGK8.1 Q5WGK8_BACSK AraC/XylS family transcriptional regulator Length = 280 Score = 193 bits (491), Expect = 5e-48, Method: Compositional matrix adjust. Identities = 91/177 (51%), Positives = 122/177 (68%), Gaps = 1/177 (0%) Query: 3 LKAFPRLTFHLSLKGDQEMEYKIVEKPAFTVIGKSMEVTTRDGENLRRIPEFWNECNADG 62 LKA+P+++F + LKGD EM+YKIVEK AFTV+GKS+ TT GEN R+I FWNE N +G Sbjct: 104 LKAYPKISFQIQLKGDVEMDYKIVEKDAFTVVGKSIRTTTIGGENNRKIAAFWNESNRNG 163 Query: 63 TSDELIEIGKGKDWLGICMSMDMEKELLSYWIGVEGTPETDPQGYETAVVPAASWAVFTS 122 S +L + LGIC+ D ++E L+Y I E + P +ET +PAA+WA+F Sbjct: 164 LSKQLAKNCGPLGLLGICIDFDKQQENLTYLIAAEKNSDQIPVDWETRQIPAATWAIFPV 223 Query: 123 AGPMPHAIQKVWQRIFQEWFPGTGYEHTGGPEFELY-PPGDTGAEDYVCEVWIPVQK 178 G MP+A+ KVW+RIF EWFP TGYEH+GGPE E+Y D ++DY E+W+PV+K Sbjct: 224 HGAMPNAMPKVWERIFSEWFPATGYEHSGGPEMEVYVSDADPYSKDYYSEIWVPVKK 280 >Q97LX8.1 Q97LX8_CLOAB Transcriptional regulator (HTH_ARAC-domain) Length = 288 Score = 156 bits (394), Expect = 9e-37, Method: Compositional matrix adjust. Identities = 79/179 (44%), Positives = 106/179 (59%), Gaps = 2/179 (1%) Query: 2 QLKAFPRLTFHLSLKGDQEMEYKIVEKPAFTVIGKSMEVTTRDGENLRRIPEFWNECNAD 61 LKA P L+F + +KG++ M YKI K +F + G S ++T++G N + IPEFW+E Sbjct: 109 NLKAIPPLSFQVIVKGEENMNYKIETKKSFKIAGVSKRISTKEGNNFKIIPEFWDEVKKS 168 Query: 62 GTSDELIEIGKGK-DWLGICMSMDMEKELLSYWIGVEGTPETDPQGYETAVVPAASWAVF 120 G E+IE GK +G+C + D E + Y I VEG Y VP S+AVF Sbjct: 169 GQC-EIIEKNAGKLGVMGVCTNFDCEYQEFDYLIAVEGDKIEGLDNYVVIEVPELSFAVF 227 Query: 121 TSAGPMPHAIQKVWQRIFQEWFPGTGYEHTGGPEFELYPPGDTGAEDYVCEVWIPVQKK 179 S GPMP A+Q V +RIF EWFP T YE GPE E+Y PG+ +DY E+W+PV +K Sbjct: 228 ESIGPMPDALQDVTRRIFSEWFPATKYEEAEGPEIEVYLPGNPQDKDYRAEIWVPVVEK 286 >Q2BEJ9.1 Q2BEJ9_9BACI Transcriptional regulator, AraC/XylS family protein Length = 283 Score = 140 bits (354), Expect = 3e-32, Method: Compositional matrix adjust. Identities = 72/178 (40%), Positives = 102/178 (57%), Gaps = 5/178 (2%) Query: 2 QLKAFPRLTFHLSLKGDQEMEYKIVEKPAFTVIGKSMEVTTRDGENLRRIPEFWNECNAD 61 QL A+ RL ++LKG + M+YKI+EK +FT G E + +GEN + IP+ W + + D Sbjct: 109 QLNAYNRLVIQVTLKGAEPMKYKIIEKESFTAAGIRKEFSMENGENFKGIPKMWKQVHED 168 Query: 62 GTSDELIEIGKGKDWLGICMSMDME--KELLSYWIGVEGTPETDPQGYETAVVPAASWAV 119 G + L + + LGIC+ E + + YWI E P+G E ++PA+ WAV Sbjct: 169 GINKILFTLNE--HVLGICVDKRGETGEPKMDYWIAAE-CKGGKPEGLEELIIPASKWAV 225 Query: 120 FTSAGPMPHAIQKVWQRIFQEWFPGTGYEHTGGPEFELYPPGDTGAEDYVCEVWIPVQ 177 F G MP A+Q W++IF EWFP YEH G PE E+Y D + D E+WIPV+ Sbjct: 226 FEVHGEMPDAMQNTWKQIFSEWFPSNPYEHAGTPELEVYNDDDPYSPDCYSEIWIPVK 283 >B1HRP5.1 B1HRP5_LYSSC Transcriptional regulator, AraC/XylS family Length = 287 Score = 137 bits (344), Expect = 5e-31, Method: Compositional matrix adjust. Identities = 70/179 (39%), Positives = 98/179 (54%), Gaps = 5/179 (2%) Query: 3 LKAFPRLTFHLSLKGDQEMEYKIVEKPAFTVIGKSMEVTTRDGENLRRIPEFWNECNADG 62 LK++ RL +SLKG + M+YKIVEK F V+G +DGEN R IP FW E N G Sbjct: 110 LKSYNRLVIQVSLKGAEPMKYKIVEKDKFQVVGVKRTYNCQDGENTREIPLFWQEINESG 169 Query: 63 TSDELIEIGKGK--DWLGICM--SMDMEKELLSYWIGVEGTPETDPQGYETAVVPAASWA 118 +L ++ G LG+C+ + ++ + YWI + + T VPA+ W Sbjct: 170 FDHQLYQLNNGNINGVLGVCVPNTNQGQQGFIDYWIATNHVGDVG-EDLLTMEVPASKWV 228 Query: 119 VFTSAGPMPHAIQKVWQRIFQEWFPGTGYEHTGGPEFELYPPGDTGAEDYVCEVWIPVQ 177 VF GPMP A+Q W++I+ EWFP YE G E E+YP D + D E+WIP++ Sbjct: 229 VFEVHGPMPDAMQNTWKQIYSEWFPSNPYEPAGTAELEVYPEEDAYSPDSYSEIWIPIK 287 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 0.317 0.137 0.442 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: 1,340,499,992 Number of extensions: 60402159 Number of successful extensions: 104741 Number of sequences better than 1.0e-05: 405 Number of HSP's gapped: 104174 Number of HSP's successfully gapped: 405 Length of query: 179 Length of database: 3,060,696,203 Length adjustment: 127 Effective length of query: 52 Effective length of database: 1,864,227,298 Effective search space: 96939819496 Effective search space used: 96939819496 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.6 bits) S2: 126 (53.1 bits)