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= 0349.0016.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 B8I3L9.1 B8I3L9_CLOCE Transcriptional regulator, AraC family 201 8e-50 C5EH52.1 C5EH52_9FIRM Transcriptional regulator 145 6e-33 Q71W99.1 Q71W99_LISMF Transcriptional regulator, AraC family 140 1e-31 C1KZM6.1 C1KZM6_LISMC Putative transcription regulator 140 1e-31 Q4EJQ0.1 Q4EJQ0_LISMO Transcriptional regulator, AraC family 140 1e-31 >B8I3L9.1 B8I3L9_CLOCE Transcriptional regulator, AraC family Length = 279 Score = 201 bits (511), Expect = 8e-50, Method: Compositional matrix adjust. Identities = 106/292 (36%), Positives = 163/292 (55%), Gaps = 19/292 (6%) Query: 13 MYDLSELYYPITANP----AGASEILPCRALRPYIRCFWGSAALQQAGAFEPGTPLVGQV 68 M+ L+ +Y PITA P +EI PC AL+PYI CFWG+ P Sbjct: 1 MFKLNNIYRPITAQPFLNDESYTEIQPCEALKPYICCFWGTQK-----------PYSSFT 49 Query: 69 SLTQEPEVIIPDTCMDIIWEWDXXXXXXXXVFCGINDAPFETGQAGQPTGKLYFAIRFHF 128 S + +++IPDTCMDI++ + F G++D F + FAIRF+ Sbjct: 50 STEIKDKLVIPDTCMDIVFNTNMDKNELDGFFAGVSDTTFIDKTKNVTSSTSCFAIRFYC 109 Query: 129 WAVHLFADEHLRDVLNVHVPVEHYFGSFREELGHRLQASRTFTDCIAAAENYLLKRLDRR 188 WAV LF+DE +++VLN V VE YF +F+ +L L +++ F + + + YL+ +++ Sbjct: 110 WAVPLFSDESMKNVLNSFVVVEDYFKNFKRDLYDILISNQLFLNRVDKVQQYLINKINLD 169 Query: 189 TRGGPDSMMNAVYSILRHRGVVNARELENSAGVSSRQLERLFREYIGLTPKKTADLVRFQ 248 + ++MN+VY IL+ +G VN EL VS RQLERLF EY+G++PKK + LVR+Q Sbjct: 170 KQNA--NIMNSVYKILKSKGTVNISELAGFTAVSQRQLERLFLEYVGVSPKKLSGLVRYQ 227 Query: 249 NVWLDLYLSPPPRKAMLDMVYDYRYTHQSHMINSFKKFAGKTPLEALAYARR 300 +W D+ + + D V Y YT QSH++ FKK+ + ++A +A + Sbjct: 228 YLWQDILYNTNLN--IHDSVCKYGYTDQSHLLKDFKKYHTLSTVDARIFAYK 277 >C5EH52.1 C5EH52_9FIRM Transcriptional regulator Length = 273 Score = 145 bits (365), Expect = 6e-33, Method: Compositional matrix adjust. Identities = 102/289 (35%), Positives = 141/289 (48%), Gaps = 46/289 (15%) Query: 20 YYPITANP----AGASEILPCRALRPYIRCFWGSAALQQAGAFEPGTPLVGQVSLTQEPE 75 Y P+T+ P +E PC ALRPYI CFW + GA Sbjct: 9 YRPLTSRPFLRDDSYTEYAPCPALRPYIACFWAMEGNGKGGAVR---------------- 52 Query: 76 VIIPDTCMDIIWEWDXXXXXXXXVFCGINDAPFETGQAGQPTGK--LYFAIRFHFWAVHL 133 +IPDTCMDII E + CG+ D + + + TG FA+RF+FWA L Sbjct: 53 -VIPDTCMDIIIEINHSRQTVKTRLCGLQD--YSVFKPHRVTGDEVTSFAVRFYFWAARL 109 Query: 134 FADEHLRDVLNVHVPVE----HYFGSFREELGHRLQASRTFTDCIAAAENYLLKRLDRRT 189 F D RD+ N +E Y F L +RL R IA E +LL++L Sbjct: 110 FLDLDFRDLYNQVWDLELVQPGYTAGFDIFLYYRLAGER-----IAWMERFLLEKLK--- 161 Query: 190 RGGPD----SMMNAVYSILRHRGVVNARELENSAGVSSRQLERLFREYIGLTPKKTADLV 245 PD ++ NA+ IL+ +G +EL V RQ+ERLF+ IG++ K+TA LV Sbjct: 162 ---PDQYNPNLYNAIDYILKTKGNAAVKELCGHTCVGQRQMERLFQRDIGISMKRTASLV 218 Query: 246 RFQNVWLDLYLSPPPRKAMLDMVYDYRYTHQSHMINSFKKFAGKTPLEA 294 R+QNVW ++ R + D VY Y Y+ QSH++N F++F G P +A Sbjct: 219 RYQNVWREIVGQKEFR--IQDAVYRYGYSDQSHLLNEFRRFHGVWPDQA 265 >Q71W99.1 Q71W99_LISMF Transcriptional regulator, AraC family Length = 268 Score = 140 bits (354), Expect = 1e-31, Method: Compositional matrix adjust. Identities = 95/279 (34%), Positives = 136/279 (48%), Gaps = 31/279 (11%) Query: 18 ELYYPITANP--AGASEILPCRALRPYIRCFWGSAALQQAGAFEPGTPLVGQVSLTQEPE 75 E +YPI A P AG E LP L YIRCFW + PG LV Sbjct: 5 ETFYPIVATPKRAGYKEYLPSAVLTGYIRCFW-----EADDKNFPGNNLV---------- 49 Query: 76 VIIPDTCMDIIWEWDXXX-XXXXXVFCGINDAPFETGQAGQPTGKLYFAIRFHFWAVHLF 134 +PD C DII+ D +F G++DAPFE+ FA+RF+ W++ LF Sbjct: 50 --VPDLCADIIFTIDSKTGLVTDAIFVGVSDAPFESDDESNTE---LFAVRFYAWSLFLF 104 Query: 135 ADEHLRDVLNVHVPVEHYFGSFREELGHRLQASRTFTDCIAAAENYLLKRLDRRTRGGPD 194 ++ L +N E F F R T + IA E +LL++L + Sbjct: 105 VEQDLTGSMNRVKEPEEMFAGFVSFFQERFAEMTTNMERIALLEEFLLRKLMMLGKQVHP 164 Query: 195 SMMNAVYSILRHRGVVNARELENSAGVSSRQLERLFREYIGLTPKKTADLVRFQNVWLDL 254 +N + +L+ N +L A VS RQLERLF++++GL PK+TA L+RFQ V L Sbjct: 165 DFLNGIDKLLQ-----NPNQLALGA-VSVRQLERLFQKHMGLAPKQTAKLIRFQKVLQAL 218 Query: 255 YLSPPPRKAMLDMVYDYRYTHQSHMINSFKKFAGKTPLE 293 Y +P A ++ Y + +T Q+H+I FK+++ TP E Sbjct: 219 YENPSVPGA--ELAYLHGFTDQAHLIKQFKRYSNHTPEE 255 >C1KZM6.1 C1KZM6_LISMC Putative transcription regulator Length = 268 Score = 140 bits (354), Expect = 1e-31, Method: Compositional matrix adjust. Identities = 95/279 (34%), Positives = 136/279 (48%), Gaps = 31/279 (11%) Query: 18 ELYYPITANP--AGASEILPCRALRPYIRCFWGSAALQQAGAFEPGTPLVGQVSLTQEPE 75 E +YPI A P AG E LP L YIRCFW + PG LV Sbjct: 5 ETFYPIVATPKRAGYKEYLPSAVLTGYIRCFW-----EADDKNFPGNNLV---------- 49 Query: 76 VIIPDTCMDIIWEWDXXX-XXXXXVFCGINDAPFETGQAGQPTGKLYFAIRFHFWAVHLF 134 +PD C DII+ D +F G++DAPFE+ FA+RF+ W++ LF Sbjct: 50 --VPDLCADIIFTIDSKTGLVTDAIFVGVSDAPFESDDESNTE---LFAVRFYAWSLFLF 104 Query: 135 ADEHLRDVLNVHVPVEHYFGSFREELGHRLQASRTFTDCIAAAENYLLKRLDRRTRGGPD 194 ++ L +N E F F R T + IA E +LL++L + Sbjct: 105 VEQDLTGSMNRVKEPEEMFAGFVSFFQERFAEMTTNMERIALLEEFLLRKLMMLGKQVHP 164 Query: 195 SMMNAVYSILRHRGVVNARELENSAGVSSRQLERLFREYIGLTPKKTADLVRFQNVWLDL 254 +N + +L+ N +L A VS RQLERLF++++GL PK+TA L+RFQ V L Sbjct: 165 DFLNGIDKLLQ-----NPNQLALGA-VSVRQLERLFQKHMGLAPKQTAKLIRFQKVLQAL 218 Query: 255 YLSPPPRKAMLDMVYDYRYTHQSHMINSFKKFAGKTPLE 293 Y +P A ++ Y + +T Q+H+I FK+++ TP E Sbjct: 219 YENPSVPGA--ELAYLHGFTDQAHLIKQFKRYSNHTPEE 255 >Q4EJQ0.1 Q4EJQ0_LISMO Transcriptional regulator, AraC family Length = 268 Score = 140 bits (354), Expect = 1e-31, Method: Compositional matrix adjust. Identities = 95/279 (34%), Positives = 136/279 (48%), Gaps = 31/279 (11%) Query: 18 ELYYPITANP--AGASEILPCRALRPYIRCFWGSAALQQAGAFEPGTPLVGQVSLTQEPE 75 E +YPI A P AG E LP L YIRCFW + PG LV Sbjct: 5 ETFYPIVATPKRAGYKEYLPSAVLTGYIRCFW-----EADDKNFPGNNLV---------- 49 Query: 76 VIIPDTCMDIIWEWDXXX-XXXXXVFCGINDAPFETGQAGQPTGKLYFAIRFHFWAVHLF 134 +PD C DII+ D +F G++DAPFE+ FA+RF+ W++ LF Sbjct: 50 --VPDLCADIIFTIDSKTGLVTDAIFVGVSDAPFESDDESNTE---LFAVRFYAWSLFLF 104 Query: 135 ADEHLRDVLNVHVPVEHYFGSFREELGHRLQASRTFTDCIAAAENYLLKRLDRRTRGGPD 194 ++ L +N E F F R T + IA E +LL++L + Sbjct: 105 VEQDLTGSMNRVKEPEEMFAGFVSFFQERFAEMTTNMERIALLEEFLLRKLMMLGKQVHP 164 Query: 195 SMMNAVYSILRHRGVVNARELENSAGVSSRQLERLFREYIGLTPKKTADLVRFQNVWLDL 254 +N + +L+ N +L A VS RQLERLF++++GL PK+TA L+RFQ V L Sbjct: 165 DFLNGIDKLLQ-----NPNQLALGA-VSVRQLERLFQKHMGLAPKQTAKLIRFQKVLQAL 218 Query: 255 YLSPPPRKAMLDMVYDYRYTHQSHMINSFKKFAGKTPLE 293 Y +P A ++ Y + +T Q+H+I FK+++ TP E Sbjct: 219 YENPSVPGA--ELAYLHGFTDQAHLIKQFKRYSNHTPEE 255 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 0.324 0.139 0.439 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: 1,852,017,085 Number of extensions: 75255697 Number of successful extensions: 185415 Number of sequences better than 1.0e-05: 101 Number of HSP's gapped: 185487 Number of HSP's successfully gapped: 101 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: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.6 bits) S2: 131 (55.1 bits)