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= 0504.0030.p (287 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value Q5WCV1.1 Q5WCV1_BACSK AraC/XylS family transcriptional regulator 132 4e-29 B1D6B5.1 B1D6B5_9BACL Transcriptional regulator, AraC family 99 5e-19 C2BAQ0.1 C2BAQ0_9ENTR Putative uncharacterized protein 98 9e-19 A4WEG5.1 A4WEG5_ENT38 Transcriptional regulator, AraC family 97 2e-18 A8APR4.1 A8APR4_CITK8 Putative uncharacterized protein 93 3e-17 >Q5WCV1.1 Q5WCV1_BACSK AraC/XylS family transcriptional regulator Length = 293 Score = 132 bits (331), Expect = 4e-29, Method: Compositional matrix adjust. Identities = 73/204 (35%), Positives = 112/204 (54%), Gaps = 4/204 (1%) Query: 24 KSLIWDYQ-IYTDDHYKGYYHWHQCCEVMYVHSGQGNVVVNQQMYDIRSGMLFFFQPYQL 82 ++L W ++ ++ Y GYYHWHQ CE++ V G G+VVVNQQM I+ GMLFFFQP+QL Sbjct: 15 EALDWHHKKLFYPTDYNGYYHWHQGCELLIVFDGAGSVVVNQQMSPIKKGMLFFFQPFQL 74 Query: 83 HRIYSEVSRECPFVRTIFYIDPHTAENLLSGFAKRKAIFSALWQGRNTYCGFDLSSSAGA 142 H + + P+ R + DP AE L+ + F L G N D S Sbjct: 75 HHV--APASAAPYERATLHFDPLHAEKRLTAYPAMAQFFRQLKNGYNQDPFIDFSEDYFY 132 Query: 143 VDWIYKNYN-LCRNSTMEEDSEDITIMLLQLLSCLGTGENSLIQPEERRNLRYSEQIMSW 201 + + ++ + +++ E +E ++L+QLLS + ++ R++ Y+E+IM W Sbjct: 133 IRSLCDMHDKMAEAASINERAEREELLLIQLLSYMQHQLKGRPPTKKLRHIHYAERIMGW 192 Query: 202 IEEHYQEEVNLEQLAAETHLSKSY 225 IE+H E NL LA + +LSKSY Sbjct: 193 IEDHLTEPFNLSLLAQDLYLSKSY 216 >B1D6B5.1 B1D6B5_9BACL Transcriptional regulator, AraC family Length = 279 Score = 99.0 bits (245), Expect = 5e-19, Method: Compositional matrix adjust. Identities = 55/199 (27%), Positives = 101/199 (50%), Gaps = 8/199 (4%) Query: 28 WDYQIYTDDHYKGYYHWHQCCEVMYVHSGQGNVVVNQQMYDIRSGMLFFFQPYQLHRIYS 87 ++Y+ + D+++ +H H E+ YVH G+G ++++ + Y I L F P+Q+HRI Sbjct: 10 YEYRRTSRDYFREVFHAHSQMELTYVHEGRGLLIIDGKSYSIEPNTLLVFPPFQMHRIQI 69 Query: 88 EVSRECPFVRTIFYIDPHTAENLLSGFAKRKAIFSALWQGRNTYCGFDLSSSAGAVDWIY 147 +V+ PF+R++ +P L+ F K+ F L + + + Sbjct: 70 QVTEAEPFIRSVLLFEPAVLHGYLNDFPSLKSFFQRLMLQQANVHPVNAMPENEPFVALL 129 Query: 148 KNYNLCRNSTMEED-SEDITIMLLQLLSCLGT---GENSLIQPEERRNLRYSEQIMSWIE 203 + +++ E D E++ + LL L+ L GE++ ++ + NL + E+I+ WIE Sbjct: 130 RQFSITMGGKREADFEENMGVFLLSLVHQLKQSPDGESAYLK---KHNL-HVEEIIGWIE 185 Query: 204 EHYQEEVNLEQLAAETHLS 222 +HY + LE LA E HLS Sbjct: 186 KHYMDPFRLEDLAGELHLS 204 >C2BAQ0.1 C2BAQ0_9ENTR Putative uncharacterized protein Length = 283 Score = 97.8 bits (242), Expect = 9e-19, Method: Compositional matrix adjust. Identities = 57/185 (30%), Positives = 92/185 (49%), Gaps = 5/185 (2%) Query: 41 YYHWHQCCEVMYVHSGQGNVVVNQQMYDIRSGMLFFFQPYQLHRIYSEVSRECPFVRTIF 100 Y+HWHQC EV+YV G G V V+ + + +R G +FFF P+ LH+I+ + + RTI Sbjct: 32 YHHWHQCLEVLYVEEGFGVVTVDHKQFTMRPGRMFFFPPFTLHKIWVDEQARDGYRRTII 91 Query: 101 YIDPHTAENLLSGFAKRKAIFSALWQGRNTYCGFDLSSSAGAVDWIYKNYNLCRNSTMEE 160 ++D H +L F + L + D + VD+++ Y + Sbjct: 92 HLDQHAVLKVLRDFPHTQQHLQNLSARGSAAWVVDAADIHAHVDFLFSRYEKM-AAQKPL 150 Query: 161 DSEDITIMLLQLLSCLGTGENSLIQPEERRNLRYSEQIMSWIEEHYQEEVNLEQLAAETH 220 ++E + +L+ L S L ++ PE N + Q+M W++EHY + +L LA E Sbjct: 151 NTEQVACLLVNLFSLLPEDNGNM--PE--INSGIASQVMFWLDEHYTHKFSLAALAQELG 206 Query: 221 LSKSY 225 SKSY Sbjct: 207 KSKSY 211 >A4WEG5.1 A4WEG5_ENT38 Transcriptional regulator, AraC family Length = 279 Score = 97.1 bits (240), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 52/185 (28%), Positives = 93/185 (50%), Gaps = 10/185 (5%) Query: 41 YYHWHQCCEVMYVHSGQGNVVVNQQMYDIRSGMLFFFQPYQLHRIYSEVSRECPFVRTIF 100 Y+HWHQC E++YV G G +V+ + Y +R G LFFF P+ LH++ + E + RTI Sbjct: 32 YHHWHQCLEILYVEEGFGVAIVDNRHYTMRPGRLFFFPPFTLHKVMVDEQAEAIYRRTII 91 Query: 101 YIDPHTAENLLSGFAKRKAIFSALWQGRNTYCGFDLSSSAGAVDWIYKNYNLCRNSTMEE 160 ++D H +L F + + L + D++ + ++ Y+ Sbjct: 92 HLDHHAVLKVLRDFPQTQQRLQKLSRRGGEAWVADMADCHPHIHHLFSGYHPPLT----- 146 Query: 161 DSEDITIMLLQLLSCLGTGENSLIQPEERRNLRYSEQIMSWIEEHYQEEVNLEQLAAETH 220 SE + +++ L + L ++ P + + Q+M W++EHYQ++ +L+ LA E Sbjct: 147 -SESVASLIISLFAMLPDDKDG--APGSSHGI--ASQVMFWLDEHYQQKFSLDALAGELG 201 Query: 221 LSKSY 225 S+SY Sbjct: 202 KSRSY 206 >A8APR4.1 A8APR4_CITK8 Putative uncharacterized protein Length = 283 Score = 93.2 bits (230), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 61/190 (32%), Positives = 97/190 (51%), Gaps = 15/190 (7%) Query: 41 YYHWHQCCEVMYVHSGQGNVVVNQQMYDIRSGMLFFFQPYQLHRIYSEVSRECPFVRTIF 100 Y+HWHQC EV+YV G G V+V+ Q Y +R G LFFF P+ LH+I + + + RTI Sbjct: 32 YHHWHQCLEVLYVEEGFGVVIVDHQQYTMRPGRLFFFPPFTLHKIMVDEQAQDHYRRTII 91 Query: 101 YIDPHTAENLLSGFAKRKAIFSALWQGRNTYCGFDLSSSAGAVDWIYKNYNLCRNSTMEE 160 ++D H +L F + +L FD++ VD+++ Y + Sbjct: 92 HLDQHAVLKVLRDFPLNQQRLQSLTVRGGEARVFDVADIHPHVDFLFSRYEKM-AALKPL 150 Query: 161 DSEDITIMLLQLLSCLGTGENSLIQPEERRNLR-----YSEQIMSWIEEHYQEEVNLEQL 215 ++E I+ +LL L S PE+ N+ + Q+M W++E+Y + +L +L Sbjct: 151 NAEQISCLLLSLFSL---------LPEDNVNMTEIGTGIASQVMFWLDENYTRKFSLSEL 201 Query: 216 AAETHLSKSY 225 A E+ SKSY Sbjct: 202 AEESGKSKSY 211 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 0.136 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: 1,531,366,808 Number of extensions: 61782938 Number of successful extensions: 133553 Number of sequences better than 1.0e-05: 18 Number of HSP's gapped: 133563 Number of HSP's successfully gapped: 18 Length of query: 287 Length of database: 3,060,696,203 Length adjustment: 134 Effective length of query: 153 Effective length of database: 1,798,280,193 Effective search space: 275136869529 Effective search space used: 275136869529 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)