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= 0544.0053.p (191 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B4AF31.1 B4AF31_BACPU Transcriptional regulator, TetR family 298 2e-79 C0ZDW8.1 C0ZDW8_BREBN Putative transcriptional regulator 250 6e-65 B1DF82.1 B1DF82_9BACL Transcriptional regulator, TetR family 195 2e-48 Q134G2.1 Q134G2_RHOPS Transcriptional regulator, TetR family 129 2e-28 A4YSQ8.1 A4YSQ8_BRASO Putative transcriptional regulator, TetR f... 128 3e-28 >B4AF31.1 B4AF31_BACPU Transcriptional regulator, TetR family Length = 188 Score = 298 bits (762), Expect = 2e-79, Method: Compositional matrix adjust. Identities = 137/187 (73%), Positives = 164/187 (87%) Query: 1 LPYPEGHKLKVRKHIITSAAKAFRTKGVRNISLPYIMKGAGLTHGGFYSHFENKEQLVIE 60 +PYP+GHK KVR+ II SAA+AFRT GVRNISLP+IMKGAGLTHGGFY+HF+NK+QLVIE Sbjct: 1 MPYPKGHKSKVREQIIASAARAFRTNGVRNISLPFIMKGAGLTHGGFYAHFKNKDQLVIE 60 Query: 61 AFHFAIDDTIELLQKVADKNEDQPQIQSVIEFYLSSVHRDQTEIGCILPTLSGEISQLSE 120 AFHFAI DTI+LLQ VADK DQ +IQ++IEFYLSSVHRDQTE+GCILP L+GEISQLS+ Sbjct: 61 AFHFAITDTIKLLQSVADKKADQSRIQTIIEFYLSSVHRDQTEVGCILPALAGEISQLSQ 120 Query: 121 EVRQAYTRELQRFMKFISDMAGVDASTGYALVNSMVGTVALARAVSDPKLSDDLLLAGKN 180 EVR+AYT EL+RFM FI+D +D S YALV+SM+GT+ALARAV+D + SD LLLAG+ Sbjct: 121 EVRKAYTDELKRFMMFIADAENIDLSKSYALVSSMIGTIALARAVNDSQFSDQLLLAGRT 180 Query: 181 QAKRIIE 187 QAK I++ Sbjct: 181 QAKYILK 187 >C0ZDW8.1 C0ZDW8_BREBN Putative transcriptional regulator Length = 190 Score = 250 bits (638), Expect = 6e-65, Method: Compositional matrix adjust. Identities = 124/189 (65%), Positives = 154/189 (81%) Query: 1 LPYPEGHKLKVRKHIITSAAKAFRTKGVRNISLPYIMKGAGLTHGGFYSHFENKEQLVIE 60 +PYPEGHK+KVR II SAAKAFRT G+R+IS+P+IMKG GLTHGGFYSHF+NKEQLV E Sbjct: 1 MPYPEGHKIKVRGRIIESAAKAFRTNGIRDISVPFIMKGVGLTHGGFYSHFDNKEQLVSE 60 Query: 61 AFHFAIDDTIELLQKVADKNEDQPQIQSVIEFYLSSVHRDQTEIGCILPTLSGEISQLSE 120 +AI DTI LLQK A+K E +P+I +VI++YLS+ HRDQTE+GCILP LS EIS+ SE Sbjct: 61 TCQYAISDTISLLQKAAEKEEGKPKIDTVIDYYLSTYHRDQTEVGCILPALSSEISRSSE 120 Query: 121 EVRQAYTRELQRFMKFISDMAGVDASTGYALVNSMVGTVALARAVSDPKLSDDLLLAGKN 180 EVRQ +TRELQR + FIS +A ++ STG A+++ MVGT+ LAR+V+D KLSD LL GK Sbjct: 121 EVRQVFTRELQRMIDFISTLAQINKSTGSAVLSMMVGTLVLARSVNDSKLSDSLLETGKQ 180 Query: 181 QAKRIIEAS 189 QAK II+ + Sbjct: 181 QAKGIIKTN 189 >B1DF82.1 B1DF82_9BACL Transcriptional regulator, TetR family Length = 189 Score = 195 bits (495), Expect = 2e-48, Method: Compositional matrix adjust. Identities = 100/185 (54%), Positives = 137/185 (74%) Query: 1 LPYPEGHKLKVRKHIITSAAKAFRTKGVRNISLPYIMKGAGLTHGGFYSHFENKEQLVIE 60 +PY + HKL +R+ I+ +AA FR KG++ +S+P IMKGAGLTHGGFY+HF NK+QLV E Sbjct: 1 MPYTKAHKLNIREKIVQNAANEFRQKGIKEVSVPQIMKGAGLTHGGFYAHFANKDQLVAE 60 Query: 61 AFHFAIDDTIELLQKVADKNEDQPQIQSVIEFYLSSVHRDQTEIGCILPTLSGEISQLSE 120 A AI++TI LLQ + ED ++Q+VI++YLS+ HRDQ EI CILPTLS EIS+ SE Sbjct: 61 ACRKAIEETINLLQGATVRKEDAAKLQTVIDYYLSTTHRDQREISCILPTLSSEISRSSE 120 Query: 121 EVRQAYTRELQRFMKFISDMAGVDASTGYALVNSMVGTVALARAVSDPKLSDDLLLAGKN 180 E+R+A+T E+ RF FI+ M G + A+V+SMVG + LAR+V+DP+LS ++L A K Sbjct: 121 EIREAFTLEVTRFFSFIAGMIGKNNEKSMAIVSSMVGALLLARSVNDPELSRNILDASKR 180 Query: 181 QAKRI 185 AK + Sbjct: 181 YAKEM 185 >Q134G2.1 Q134G2_RHOPS Transcriptional regulator, TetR family Length = 221 Score = 129 bits (323), Expect = 2e-28, Method: Compositional matrix adjust. Identities = 70/185 (37%), Positives = 110/185 (59%), Gaps = 9/185 (4%) Query: 3 YPEGHKLKVRKHIITSAAKAFRTKGVRNISLPYIMKGAGLTHGGFYSHFENKEQLVIEAF 62 Y + HKL+ I+ A+ R KG I + +MK AGLTHGGFY+HF ++EQLVIEAF Sbjct: 3 YSKEHKLETHDRIVRKASVRLREKGAHGIGVADLMKDAGLTHGGFYAHFSSREQLVIEAF 62 Query: 63 HFAIDDTIELLQKVADKNEDQPQIQSVIEFYLSSVHRDQTEIGCILPTLSGEISQLSEEV 122 +A+D + E +K+A + Q ++ ++ YLS+ HRD GC +P L EI++ S + Sbjct: 63 AYAMDRSDERWRKLAAETPPQERMALIVNSYLSATHRDDPGRGCAVPALGAEIARESPKT 122 Query: 123 RQAYTRELQRFMKFI-SDMAGVDAST------GYALVNSMVGTVALARAVSDPKLSDDLL 175 R+A+ +L+R ++ I +D VDA A + M+G++ +AR +LSD +L Sbjct: 123 RRAFAAKLERMIETIATDF--VDAPPKAARKQAMATLAIMMGSLLMARIAGGGELSDAIL 180 Query: 176 LAGKN 180 AG++ Sbjct: 181 QAGRD 185 >A4YSQ8.1 A4YSQ8_BRASO Putative transcriptional regulator, TetR family Length = 218 Score = 128 bits (321), Expect = 3e-28, Method: Compositional matrix adjust. Identities = 67/185 (36%), Positives = 109/185 (58%), Gaps = 5/185 (2%) Query: 3 YPEGHKLKVRKHIITSAAKAFRTKGVRNISLPYIMKGAGLTHGGFYSHFENKEQLVIEAF 62 Y HK + I+ A+ R KG + + +MK AGLTHGGFY+HFE++E LV+EAF Sbjct: 3 YSPEHKAETHARIVRKASVRLREKGAHGVGVADLMKEAGLTHGGFYAHFESREALVVEAF 62 Query: 63 HFAIDDTIELLQKVADKNEDQPQIQSVIEFYLSSVHRDQTEIGCILPTLSGEISQLSEEV 122 +AID ++E +KV D Q +I ++++ YLS HRD GC +P L EI++ S + Sbjct: 63 GYAIDRSLERWRKVLDGLPPQKRIAAIVDGYLSPEHRDDPGHGCAVPALGAEIARESAKT 122 Query: 123 RQAYTRELQR----FMKFISDMAGVDA-STGYALVNSMVGTVALARAVSDPKLSDDLLLA 177 R+A+ +L+ F +I D+ A A++ +++GT+ +AR +LS+++L + Sbjct: 123 RKAFACKLEELIDLFADYIVDVPRKTARKRASAMLATLMGTIVMARITGSGELSEEILSS 182 Query: 178 GKNQA 182 G+ A Sbjct: 183 GREVA 187 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 0.318 0.134 0.371 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: 1,019,510,493 Number of extensions: 37086116 Number of successful extensions: 117521 Number of sequences better than 1.0e-05: 307 Number of HSP's gapped: 117690 Number of HSP's successfully gapped: 307 Length of query: 191 Length of database: 3,060,696,203 Length adjustment: 128 Effective length of query: 63 Effective length of database: 1,854,806,283 Effective search space: 116852795829 Effective search space used: 116852795829 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 (21.7 bits) S2: 127 (53.5 bits)