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= 0567.0038.p (262 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B5Z4Z0.1 B5Z4Z0_BACCE AraC protein, arabinose-binding/dimerisation 315 3e-84 A6LYV9.1 A6LYV9_CLOB8 AraC protein, arabinose-binding/dimerisation 314 6e-84 B3KEF7.1 B3KEF7_9BACI AraC protein arabinose-binding/dimerisation 307 6e-82 B1DB30.1 B1DB30_9BACL Transcriptional regulator, AraC family 301 4e-80 A3IA68.1 A3IA68_9BACI Transcriptional regulator, AraC/XylS famil... 295 4e-78 >B5Z4Z0.1 B5Z4Z0_BACCE AraC protein, arabinose-binding/dimerisation Length = 258 Score = 315 bits (806), Expect = 3e-84, Method: Compositional matrix adjust. Identities = 147/258 (56%), Positives = 198/258 (76%), Gaps = 1/258 (0%) Query: 6 VEKFNYAKSADILSLSASFTDFTYKKHCHEEYAVGVTLRGIQQYNLEGSFQASHKNGVML 65 ++KF Y KSA I +LSAS TDFTYK+H H+EYA+GVTLRGIQ YNLEGS SH+NG+ML Sbjct: 1 MDKFIYKKSAGITALSASITDFTYKRHSHKEYAIGVTLRGIQHYNLEGSLHLSHQNGIML 60 Query: 66 FNREQYHDGSSYDREGIDYVMLYIKPDLFAEILGGQEL-RFTSPIVYDADLASCILSLNQ 124 FN EQ HDG ++ + G+DYVMLYIKP+L E++ E+ RF++PIVYD L I+SL Sbjct: 61 FNPEQVHDGMAHTKTGLDYVMLYIKPELLLEVMEKTEIVRFSNPIVYDHRLEQRIVSLAN 120 Query: 125 SIRNGTDEAWSSELLFRLGGLLSETEIAAPRRKNNAFVQKAKEMMNSHIDQVLKLDDLCQ 184 +I N DEA SELL L L ET+ + +K+N ++KAK+M+++ D++ KLD++C+ Sbjct: 121 AILNEKDEALCSELLLSLTDNLIETDFSTNCKKDNTLIKKAKDMLHTDWDKIPKLDEICK 180 Query: 185 EFGLSKYQFIREFKSHAGISPYQFFLNCKVERAKQAIERSRDIYAAVADYGFADLTHLNR 244 E LSK++FIR FK+H GISPYQ+FLNCK+E AKQ IE++RDI++ VA+ F DLTHLN+ Sbjct: 181 ELDLSKFKFIRLFKAHTGISPYQYFLNCKIEHAKQLIEKNRDIHSVVAECDFVDLTHLNK 240 Query: 245 HFKSMFGITAYEYMSQLS 262 HFKS++G TA+EY+S L+ Sbjct: 241 HFKSVYGTTAFEYISYLN 258 >A6LYV9.1 A6LYV9_CLOB8 AraC protein, arabinose-binding/dimerisation Length = 258 Score = 314 bits (804), Expect = 6e-84, Method: Compositional matrix adjust. Identities = 145/258 (56%), Positives = 202/258 (78%), Gaps = 1/258 (0%) Query: 6 VEKFNYAKSADILSLSASFTDFTYKKHCHEEYAVGVTLRGIQQYNLEGSFQASHKNGVML 65 ++KF Y KSA I++LSASF DF YKKH H+EYA+GVTLRGIQQYNL+GS Q S++NGVML Sbjct: 1 MDKFVYKKSAGIIALSASFADFKYKKHSHKEYAIGVTLRGIQQYNLDGSLQLSYQNGVML 60 Query: 66 FNREQYHDGSSYDREGIDYVMLYIKPDLFAEILGGQEL-RFTSPIVYDADLASCILSLNQ 124 FN EQ HDG ++D G+DY+MLYI+P LF E + +++ RF+SPI+Y+ L IL+L+ Sbjct: 61 FNPEQPHDGMAHDETGLDYIMLYIEPKLFLESIEKKDIVRFSSPIIYNYRLEQQILNLSN 120 Query: 125 SIRNGTDEAWSSELLFRLGGLLSETEIAAPRRKNNAFVQKAKEMMNSHIDQVLKLDDLCQ 184 +I G DEA SE L ++T++ +K NA ++K+K+M+ +++ VL+LDD+C+ Sbjct: 121 AILRGKDEALCSEFFLSLADSFTQTDLCISYKKENALIKKSKDMIYYNLENVLRLDDICR 180 Query: 185 EFGLSKYQFIREFKSHAGISPYQFFLNCKVERAKQAIERSRDIYAAVADYGFADLTHLNR 244 E +SK+QFIR FK++ GISPYQ+FLNCKVE AK+ IE++RD+Y+AVA+ GF DLTHLN+ Sbjct: 181 ELNMSKFQFIRLFKANTGISPYQYFLNCKVEMAKKLIEKNRDVYSAVAECGFVDLTHLNK 240 Query: 245 HFKSMFGITAYEYMSQLS 262 HFKS++GITA+EY+S L+ Sbjct: 241 HFKSIYGITAFEYLSYLN 258 >B3KEF7.1 B3KEF7_9BACI AraC protein arabinose-binding/dimerisation Length = 259 Score = 307 bits (787), Expect = 6e-82, Method: Compositional matrix adjust. Identities = 150/257 (58%), Positives = 194/257 (75%), Gaps = 1/257 (0%) Query: 6 VEKFNYAKSADILSLSASFTDFTYKKHCHEEYAVGVTLRGIQQYNLEGSFQASHKNGVML 65 +E+F Y K+ I +LSAS TDF YKKH HEEYA+GVTLRGIQ+Y+L+GS QAS+++GVML Sbjct: 1 MEQFIYKKAVGITALSASLTDFKYKKHYHEEYALGVTLRGIQKYSLDGSQQASYQSGVML 60 Query: 66 FNREQYHDGSSYDREGIDYVMLYIKPDLFAEILGGQEL-RFTSPIVYDADLASCILSLNQ 124 F+ EQ HDG S +R GIDYVM+YI P+LF E+ +++ RF SPIVY A L IL++ + Sbjct: 61 FHPEQNHDGWSQERTGIDYVMIYIHPELFLELTQKKDIVRFQSPIVYHAGLRQSILNVTR 120 Query: 125 SIRNGTDEAWSSELLFRLGGLLSETEIAAPRRKNNAFVQKAKEMMNSHIDQVLKLDDLCQ 184 SI G EA SSELL L G +E + RK++ F +KAK+MM H++ VL+LD+L Sbjct: 121 SIFTGQPEAKSSELLLGLAGHFNEDILNPDSRKDSVFTRKAKDMMQDHLEHVLRLDELSG 180 Query: 185 EFGLSKYQFIREFKSHAGISPYQFFLNCKVERAKQAIERSRDIYAAVADYGFADLTHLNR 244 EFG+SKYQFIR FK++ G+SPYQ++LNCKVERAK IE SRD+Y AV GF DL HLNR Sbjct: 181 EFGMSKYQFIRTFKANTGLSPYQYYLNCKVERAKHLIEDSRDVYQAVTQCGFTDLAHLNR 240 Query: 245 HFKSMFGITAYEYMSQL 261 HFK+++G TA++YMS L Sbjct: 241 HFKNVYGTTAFDYMSHL 257 >B1DB30.1 B1DB30_9BACL Transcriptional regulator, AraC family Length = 259 Score = 301 bits (771), Expect = 4e-80, Method: Compositional matrix adjust. Identities = 142/257 (55%), Positives = 198/257 (77%), Gaps = 2/257 (0%) Query: 6 VEKFNYAKSADILSLSASFTDFTYKKHCHEEYAVGVTLRGIQQYNLEGSFQASHKNGVML 65 +E+F Y KSA I +LSA+ T+F YKKH H+EYA+GVTLRGIQ+YNL+GS Q SHK+G+ML Sbjct: 1 MERFIYKKSAGITALSATMTEFKYKKHAHQEYAIGVTLRGIQRYNLDGSLQLSHKSGIML 60 Query: 66 FNREQYHDGSSYDREGIDYVMLYIKPDLFAEILGGQE-LRFTSPIVYDADLASCILSLNQ 124 F+ EQ HDG ++D G+DYVMLYI+P L E++ +E +RF++PIVYD +L +L+L Sbjct: 61 FHPEQTHDGMAHDEAGLDYVMLYIEPQLLLEVMEKKEIMRFSNPIVYDPELEHRVLNLTN 120 Query: 125 SIRNGTDEAWSSELLFRLGGLLSETEIAA-PRRKNNAFVQKAKEMMNSHIDQVLKLDDLC 183 +I + DEA SELL L L+++ ++ +R ++A ++KAK+ ++ ++D VLKLDD+ Sbjct: 121 AILSEKDEALCSELLLALTDRLADSSLSQYGKRTDHALIRKAKDRIHDNLDHVLKLDDIS 180 Query: 184 QEFGLSKYQFIREFKSHAGISPYQFFLNCKVERAKQAIERSRDIYAAVADYGFADLTHLN 243 +E LSK+QFIR FK+H GISPYQ+FLN K+ERAKQ IE S+DIY+AVA GF DLTHLN Sbjct: 181 RELDLSKFQFIRLFKAHTGISPYQYFLNSKIERAKQLIESSKDIYSAVAACGFVDLTHLN 240 Query: 244 RHFKSMFGITAYEYMSQ 260 +HFKS++G T ++Y+S Sbjct: 241 KHFKSVYGTTPHDYISH 257 >A3IA68.1 A3IA68_9BACI Transcriptional regulator, AraC/XylS family protein Length = 262 Score = 295 bits (754), Expect = 4e-78, Method: Compositional matrix adjust. Identities = 135/258 (52%), Positives = 187/258 (72%), Gaps = 1/258 (0%) Query: 3 VSSVEKFNYAKSADILSLSASFTDFTYKKHCHEEYAVGVTLRGIQQYNLEGSFQASHKNG 62 + +++F Y K I +L ASFTDF YKKH H+EYA GVTL+GIQ Y+L+G Q SH+NG Sbjct: 1 MKGMQQFTYKKMDGITALKASFTDFKYKKHAHQEYAFGVTLKGIQHYHLDGCLQLSHQNG 60 Query: 63 VMLFNREQYHDGSSYDREGIDYVMLYIKPDLFAEILGGQEL-RFTSPIVYDADLASCILS 121 VMLFN EQ HDG +Y+REG++YVMLY++P LF E + +E+ F PI+Y+ + + IL Sbjct: 61 VMLFNPEQVHDGMAYNREGLEYVMLYVEPSLFLEAIQKREIISFDKPIIYNNSIKNHILK 120 Query: 122 LNQSIRNGTDEAWSSELLFRLGGLLSETEIAAPRRKNNAFVQKAKEMMNSHIDQVLKLDD 181 L+Q+I + A EL L L E + + + ++ ++KAKE+++SH++ +LK++D Sbjct: 121 LSQAILTEENSALCHELFLHLSDGLVEQDFSLTMKMDSMMIKKAKEIIHSHVENILKIED 180 Query: 182 LCQEFGLSKYQFIREFKSHAGISPYQFFLNCKVERAKQAIERSRDIYAAVADYGFADLTH 241 +CQE L+ +QFIR FK H GI+PYQ+FLNCKVERAK IE++ DIYA VA GF DL H Sbjct: 181 ICQELQLTTFQFIRLFKKHTGITPYQYFLNCKVERAKSIIEQTGDIYAGVAQCGFVDLPH 240 Query: 242 LNRHFKSMFGITAYEYMS 259 LN+HFKS+FGITA+EY+S Sbjct: 241 LNKHFKSIFGITAFEYLS 258 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 0.135 0.389 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: 1,479,956,374 Number of extensions: 58701299 Number of successful extensions: 147611 Number of sequences better than 1.0e-05: 898 Number of HSP's gapped: 149519 Number of HSP's successfully gapped: 898 Length of query: 262 Length of database: 3,060,696,203 Length adjustment: 133 Effective length of query: 129 Effective length of database: 1,807,701,208 Effective search space: 233193455832 Effective search space used: 233193455832 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)