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= 0557.0039.p (217 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value Q4H4G4.1 Q4H4G4_BACCI Possible transcriptional regulator 284 4e-75 Q8GCB5.1 Q8GCB5_BACCI BtrW protein 283 1e-74 B3K5K8.1 B3K5K8_9BACI Regulatory protein TetR 77 1e-12 Q9KE70.1 Q9KE70_BACHD Transcriptional regulator (TetR/AcrR family) 77 1e-12 Q9K3P4.1 Q9K3P4_STRCO Putative tetR-family transcriptional regul... 77 1e-12 >Q4H4G4.1 Q4H4G4_BACCI Possible transcriptional regulator Length = 217 Score = 284 bits (726), Expect = 4e-75, Method: Compositional matrix adjust. Identities = 135/216 (62%), Positives = 162/216 (75%) Query: 1 MSPRTKKQNELIREQRKQEILQAAIHVYVTKGYAATTLGDIAVQAGLAHGLVYYYFKNKK 60 MSPRTK+QNE IR QRK+E+LQAA+ VYV KGYAA +GDIA +AGLAHGLVYYYFKNKK Sbjct: 1 MSPRTKEQNEAIRNQRKREVLQAAVQVYVEKGYAAAEMGDIADRAGLAHGLVYYYFKNKK 60 Query: 61 QLFRELYEYMMEQSLRYTTAYFEQDLPVMAQFKNYATIVCERVIKDPQTQRFYMRISLDL 120 LFRELYE MME+S +T +YFEQ V F++YA +VCERV +P RFYMRISLD+ Sbjct: 61 ALFRELYETMMEESKCFTKSYFEQKGSVSDLFESYARVVCERVRVNPAIPRFYMRISLDV 120 Query: 121 HHLYEPGELSPFDWMKSFVKPMAQAIDRGIRQGVIRQGDANLMAMQFWGAISQGMNYLDQ 180 HHLY P E SPF W+KSF++ M QAI++GI +G IR G+ +LMA QFWGA+SQGMNYLDQ Sbjct: 121 HHLYTPEEFSPFSWVKSFLQEMTQAIEKGIGEGTIRPGNPDLMARQFWGAVSQGMNYLDQ 180 Query: 181 LLQELAAQGLTETEANGAVNDKFNQVAESAISFFKL 216 QE A G+ ETE QV ES++S +L Sbjct: 181 AQQEWMANGMPETEKKEQWEKALTQVVESSVSILRL 216 >Q8GCB5.1 Q8GCB5_BACCI BtrW protein Length = 217 Score = 283 bits (723), Expect = 1e-74, Method: Compositional matrix adjust. Identities = 135/216 (62%), Positives = 161/216 (74%) Query: 1 MSPRTKKQNELIREQRKQEILQAAIHVYVTKGYAATTLGDIAVQAGLAHGLVYYYFKNKK 60 MSPRTK+QNE IR QRK+E+LQAA+ VYV KGYAA +GDIA +AGLAHGLVYYYFKNKK Sbjct: 1 MSPRTKEQNEAIRNQRKREVLQAAVQVYVEKGYAAAEMGDIADRAGLAHGLVYYYFKNKK 60 Query: 61 QLFRELYEYMMEQSLRYTTAYFEQDLPVMAQFKNYATIVCERVIKDPQTQRFYMRISLDL 120 LFRELYE MME S +T +YFEQ V F++YA +VCERV +P RFYMRISLD+ Sbjct: 61 ALFRELYETMMEGSKCFTKSYFEQKGSVSDLFESYARVVCERVRVNPAIPRFYMRISLDV 120 Query: 121 HHLYEPGELSPFDWMKSFVKPMAQAIDRGIRQGVIRQGDANLMAMQFWGAISQGMNYLDQ 180 HHLY P E SPF W+KSF++ M QAI++GI +G IR G+ +LMA QFWGA+SQGMNYLDQ Sbjct: 121 HHLYTPEEFSPFSWVKSFLQEMTQAIEKGIGEGTIRPGNPDLMARQFWGAVSQGMNYLDQ 180 Query: 181 LLQELAAQGLTETEANGAVNDKFNQVAESAISFFKL 216 QE A G+ ETE QV ES++S +L Sbjct: 181 AQQEWMANGMPETEKKEQWEKALTQVVESSVSILRL 216 >B3K5K8.1 B3K5K8_9BACI Regulatory protein TetR Length = 202 Score = 77.0 bits (188), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 51/179 (28%), Positives = 89/179 (49%), Gaps = 12/179 (6%) Query: 3 PRTKKQNELIREQRKQEILQAAIHVYVTKGYAATTLGDIAVQAGLAHGLVYYYFKNKKQL 62 PRTK+Q E +R +Q+I A + ++V KG+ +T + DIA AG++ GL+Y ++K K L Sbjct: 2 PRTKEQYEEMRNATRQKIQSAGMRLFVQKGFGSTNVQDIADAAGISIGLLYRHYKTKDSL 61 Query: 63 FRELYEYMMEQSLRYTTAYFEQDLPVMAQFKNYATIVCERVIKDPQTQRFYMRISLDLHH 122 F EL E+ + + + + D P K T + + D Q + + ++ Sbjct: 62 FNELVEFALNGLTQIIQTFEDADSP-----KKLMTQFVDEIYHDMQEGEELANLLILMNQ 116 Query: 123 LYEPGELSP------FDWMKSFVKPMAQAIDRGIRQGVIRQGDANLMAMQFWGAISQGM 175 L+ G+ + + ++ A I +G G R GDA+ MA+ F+ A+ QG+ Sbjct: 117 LFFSGDGANRKQAEVLEVNGRLLRSTAALIKKGQESGDFRSGDAHEMAVLFYSAL-QGL 174 >Q9KE70.1 Q9KE70_BACHD Transcriptional regulator (TetR/AcrR family) Length = 203 Score = 77.0 bits (188), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 51/184 (27%), Positives = 97/184 (52%), Gaps = 7/184 (3%) Query: 4 RTKKQNELIREQRKQEILQAAIHVYVTKGYAATTLGDIAVQAGLAHGLVYYYFKNKKQLF 63 RTK+QNE + +++I +AA+ ++ KG+A TT+ DI+ +A ++ GLVY +F +K++LF Sbjct: 3 RTKEQNERMSMATREKIYKAALSLFAHKGFALTTIKDISREAHISTGLVYRHFHSKEELF 62 Query: 64 RELYEYMMEQSLRYTTAYFEQDLPVMAQFKNYATIVCERVIKDPQTQRFYMRISLDLHH- 122 L E + + + T + E D + T + + + +++ ++ L Sbjct: 63 GRLIEKAIGE-MTSVTKFLETDTSPKELVSEFVTKMIAGIQSSEEVSHYFLLVARSLLED 121 Query: 123 --LYEPGELSPFDWMKSFVKPMAQAIDRGIRQGVIRQGDANLMAMQFWGAISQGMNYLDQ 180 L + G+L D + + MA+ I RG RQG ++GD+ +++ + I QGM + Sbjct: 122 EVLPKIGDLKKTDL--ALFQQMAELIARGQRQGEFKEGDSYKLSLLLFSII-QGMANMKM 178 Query: 181 LLQE 184 + E Sbjct: 179 FMGE 182 >Q9K3P4.1 Q9K3P4_STRCO Putative tetR-family transcriptional regulatory protein Length = 233 Score = 76.6 bits (187), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 36/75 (48%), Positives = 50/75 (66%) Query: 1 MSPRTKKQNELIREQRKQEILQAAIHVYVTKGYAATTLGDIAVQAGLAHGLVYYYFKNKK 60 MSPR+ NE +R + K+ +LQAA+ + +GY ATTLGDIA +AG A GLV YYF K+ Sbjct: 1 MSPRSASVNEELRRRSKERLLQAAVELVGERGYEATTLGDIADRAGSARGLVSYYFPGKR 60 Query: 61 QLFRELYEYMMEQSL 75 QL + +M ++L Sbjct: 61 QLVQSAVHRLMHRTL 75 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 0.322 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: 1,184,137,362 Number of extensions: 44867683 Number of successful extensions: 135500 Number of sequences better than 1.0e-05: 601 Number of HSP's gapped: 135761 Number of HSP's successfully gapped: 601 Length of query: 217 Length of database: 3,060,696,203 Length adjustment: 130 Effective length of query: 87 Effective length of database: 1,835,964,253 Effective search space: 159728890011 Effective search space used: 159728890011 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 (21.9 bits) S2: 128 (53.9 bits)