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= 0094.0003.p (295 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B3K5L4.1 B3K5L4_9BACI Regulatory protein TetR 145 5e-33 P94423.2 YCNC_BACSU Uncharacterized HTH-type transcriptional reg... 144 8e-33 C3IXB1.1 C3IXB1_9BACI Transcriptional regulator, TetR family 134 1e-29 Q5KWT3.1 Q5KWT3_GEOKA Transcriptional regulator (TetR/AcrR family) 132 3e-29 B7Y5X9.1 B7Y5X9_9BACI Transcriptional regulator, TetR family 131 7e-29 >B3K5L4.1 B3K5L4_9BACI Regulatory protein TetR Length = 295 Score = 145 bits (365), Expect = 5e-33, Method: Compositional matrix adjust. Identities = 91/295 (30%), Positives = 159/295 (53%), Gaps = 2/295 (0%) Query: 1 MIVTREEVVQSATRLFKERGFLSTTIQDIADDCGIAKGSVYKYFPSKEDLFSEVFNQCHN 60 M + +E+++QSA R F E+G+ +T+IQDIADDC IAKGS+YKY+ SKE+L+ + + Sbjct: 1 MSLLKEKIMQSAIRSFAEKGYQATSIQDIADDCSIAKGSIYKYYGSKEELYIRILEKRQQ 60 Query: 61 NYFDQVDELTRLPGLSPEEQFVQQIVLRFRYFMEYK-HILVEFTELPIQQDPKFQPLRHK 119 + D V+++ R LS E F+++I +F +F+E+ +I + ELP K + H+ Sbjct: 61 DMIDAVEKI-RNKSLSRRETFIEEIAYQFDFFIEHGYYISRDHNELPPANSDKIGSVIHQ 119 Query: 120 VRGRLIRWHRECLLHVYGEEIQPFLWDLVAIYRAILKEYLFWIVYEERSLSLEETAKFIL 179 ++ + R++++ LL YG I + WD AI+ +++EY F +++ + L +E A FI Sbjct: 120 LQLNMFRYYQDILLRHYGNSIAEWKWDATAIFNGLIREYTFHVLFGFKPLIQKELAVFIA 179 Query: 180 DKLHVLVKHMMTSDLKSMLNQTSFERYLNWGLEDRQGEKGQILSELFREMDTAINTIPAG 239 +++ LV + D + +L + Y LE + + L +++ I + Sbjct: 180 ERMDDLVLGLEKRDPRPLLTDELMKEYSMIDLEALTHTQEIRRTALMDTIESIIPDMSTT 239 Query: 240 AVHRSEIRELYRFIQTEVSKEAANHPLIQASLFYLEREKELKSLVVQLRNIIFSG 294 ++++ E+ ++ E S E LIQA L L E EL QL +I G Sbjct: 240 NSRKNDLSEVTAMLREEFSAERPRPFLIQALLKDLSSENELTFYTNQLLQLIREG 294 >P94423.2 YCNC_BACSU Uncharacterized HTH-type transcriptional regulator ycnC Length = 292 Score = 144 bits (364), Expect = 8e-33, Method: Compositional matrix adjust. Identities = 86/298 (28%), Positives = 154/298 (51%), Gaps = 11/298 (3%) Query: 1 MIVTREEVVQSATRLFKERGFLSTTIQDIADDCGIAKGSVYKYFPSKEDLFSEVFNQCHN 60 M+ + +++ +A +LF E+ F S ++Q IA++C ++K S+YK F SKEDL E+ + Sbjct: 1 MLDKKTDILLAARKLFSEKDFTSVSMQAIAEECKMSKASIYKLFQSKEDLLLELLSFNQK 60 Query: 61 NYFDQVDELTRLPGLSPEEQFVQQIVLRFRYFMEYKHILVEFTELPIQQDPKFQPLR--- 117 L L+PEE+ Q++ + F + +F + +PK R Sbjct: 61 QMVAAASRLQENTALTPEERLTQKVKMELEGFRRNQ----QFFNMLTYGNPKLHNDRVKQ 116 Query: 118 --HKVRGRLIRWHRECLLHVYGEEIQPFLWDLVAIYRAILKEYLFWIVYEERSLSLEETA 175 H+ R +I WHR+ L+ YGE I PF+WDLV I +++E+L I EE+ L L+ A Sbjct: 117 HIHQTRSTIICWHRDSLIQAYGETILPFVWDLVIILHGMMREFLMLIKIEEKPLELDPIA 176 Query: 176 KFILDKLHVLVKHMMTSDLKSMLNQTSFERYLNWGLEDRQGEKGQILSELFREMDTAINT 235 +FI+ L+ ++K+ T +S+L + E Y++ + +K +LSE +E+ I++ Sbjct: 177 EFIISTLNQIIKNRETR--QSLLPPEAIELYIHSASSYKPKDKSVLLSESLKELHKGISS 234 Query: 236 IPAGAVHRSEIRELYRFIQTEVSKEAANHPLIQASLFYLEREKELKSLVVQLRNIIFS 293 + A E+ ++ E KE L+++ + YLE+ L V L+ ++ + Sbjct: 235 LSAADYDVDELTSAAAMLEEEAKKEEPRAFLLKSLIGYLEQTGVLTQPVSMLKTLLIT 292 >C3IXB1.1 C3IXB1_9BACI Transcriptional regulator, TetR family Length = 286 Score = 134 bits (337), Expect = 1e-29, Method: Compositional matrix adjust. Identities = 76/274 (27%), Positives = 153/274 (55%), Gaps = 11/274 (4%) Query: 5 REEVVQSATRLFKERGFLSTTIQDIADDCGIAKGSVYKYFPSKEDLFSEVFNQCHNNYFD 64 +E+++++A +LF E+G+ +T++Q+IA+ G+AKGS+Y YF SKE+L + +F + F Sbjct: 4 KEDIIETAMKLFAEKGYHATSMQEIAERSGVAKGSIYNYFKSKEELAASIFCYHYEVLFH 63 Query: 65 QVDELTRLPGLSPEEQFVQQIVLRFRYFMEYKHIL-VEFTELPIQQDPKFQPLRHKVRGR 123 Q+ ++ P L+ E+F +Q+ ++ + F E+K ++ ++ E ++ + Q L ++R Sbjct: 64 QLKQIEADPSLTARERFCRQLTVQIQLFDEHKELVQMQLGEQAVKVSHEVQHLVFRIRAH 123 Query: 124 LIRWHRECLLHVYGEEIQPFLWDLVAIYRAILKEYLFWIVYEERSLSLEETAKFILDKLH 183 + W+R + +YGE+++P +D + +LKEYL ++ + + L E+ A F+LD+L Sbjct: 124 TLHWYRRAIEDIYGEQVRPVSFDCATMLNGMLKEYLIYLAVDRKPLLPEKLAPFLLDRLD 183 Query: 184 VLVKHMMTSDLKSMLNQTSFERYLNWGLEDRQGEKGQILSELFREMDTAINTIPAGAVHR 243 +V ++ +L++T Y+ ++R K + +S L R + A Sbjct: 184 AIVASLLDGK-TGLLDETMMADYIAAATQERSQWKERAISCLER--------MAAMRPVE 234 Query: 244 SEIRELYRFIQTEVSK-EAANHPLIQASLFYLER 276 +I R ++ E+ K E A +++A L YL + Sbjct: 235 DDILRSLRLLKEELEKGETARRFMVEALLLYLAK 268 >Q5KWT3.1 Q5KWT3_GEOKA Transcriptional regulator (TetR/AcrR family) Length = 286 Score = 132 bits (333), Expect = 3e-29, Method: Compositional matrix adjust. Identities = 76/274 (27%), Positives = 153/274 (55%), Gaps = 11/274 (4%) Query: 5 REEVVQSATRLFKERGFLSTTIQDIADDCGIAKGSVYKYFPSKEDLFSEVFNQCHNNYFD 64 +E+++++A +LF E+G+ +T++Q+IA+ G+AKGS+Y YF SKE+L +F + F Sbjct: 4 KEDIIETAMKLFAEKGYHATSMQEIAERSGVAKGSIYNYFKSKEELAVSIFRYHYEVLFR 63 Query: 65 QVDELTRLPGLSPEEQFVQQIVLRFRYFMEYKHIL-VEFTELPIQQDPKFQPLRHKVRGR 123 Q+ ++ P L+ E+F +Q+ ++ + F E+K ++ ++ E ++ + Q L ++R Sbjct: 64 QLKQIEADPALTARERFCRQLTVQIQLFDEHKELVQMQLGEQAVKVSHEVQHLVFRIRAH 123 Query: 124 LIRWHRECLLHVYGEEIQPFLWDLVAIYRAILKEYLFWIVYEERSLSLEETAKFILDKLH 183 + W+R + +YGE+++P +D + +LKEYL ++ + + L E+ A F+LD+L Sbjct: 124 TLHWYRRAIEDIYGEQVRPVSFDCATMLNGMLKEYLIYLAVDRKPLLPEKLAPFLLDRLD 183 Query: 184 VLVKHMMTSDLKSMLNQTSFERYLNWGLEDRQGEKGQILSELFREMDTAINTIPAGAVHR 243 +V ++ +L++T Y+ ++R K + +S L E A+ + Sbjct: 184 AIVASLLDGK-TGLLDETVMADYIAAATQERSQWKERAISCL--ERMAALRPV------E 234 Query: 244 SEIRELYRFIQTEVSK-EAANHPLIQASLFYLER 276 +I R ++ E+ K E A +++A L YL + Sbjct: 235 DDILRSLRLLKEELEKGETARRFMVEALLLYLAK 268 >B7Y5X9.1 B7Y5X9_9BACI Transcriptional regulator, TetR family Length = 286 Score = 131 bits (330), Expect = 7e-29, Method: Compositional matrix adjust. Identities = 76/274 (27%), Positives = 151/274 (55%), Gaps = 11/274 (4%) Query: 5 REEVVQSATRLFKERGFLSTTIQDIADDCGIAKGSVYKYFPSKEDLFSEVFNQCHNNYFD 64 +E+++++A +LF E+G+ +T++Q+IA+ G+AKGS+Y YF SKE+L + +F + F Sbjct: 4 KEDIIETAMKLFAEKGYHATSMQEIAERSGVAKGSIYNYFKSKEELAASIFCYHYEVLFH 63 Query: 65 QVDELTRLPGLSPEEQFVQQIVLRFRYFMEYKHIL-VEFTELPIQQDPKFQPLRHKVRGR 123 Q+ ++ P L+ E+F +Q+ ++ + F E+K ++ ++ E + Q L ++R Sbjct: 64 QLKQIEADPSLTARERFCRQLTVQIQLFDEHKELVQMQLGEQXXXXXXEVQHLVFRIRAH 123 Query: 124 LIRWHRECLLHVYGEEIQPFLWDLVAIYRAILKEYLFWIVYEERSLSLEETAKFILDKLH 183 + W+R + +YGE+++P +D + +LKEYL ++ + + L E+ A F+LD+L Sbjct: 124 TLHWYRRAIEDIYGEQVRPVSFDCATMLNGMLKEYLIYLAVDRKPLLPEKLAPFLLDRLD 183 Query: 184 VLVKHMMTSDLKSMLNQTSFERYLNWGLEDRQGEKGQILSELFREMDTAINTIPAGAVHR 243 +V ++ +L++T Y+ ++R K + +S L R + A Sbjct: 184 AIVASLLDGK-TGLLDETMMADYIAAATQERSQWKERAISCLER--------MAAMRPVE 234 Query: 244 SEIRELYRFIQTEVSK-EAANHPLIQASLFYLER 276 +I R ++ E+ K E A +++A L YL + Sbjct: 235 DDILRSLRLLKEELEKGETARRFMVEALLLYLAK 268 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 0.409 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: 1,618,424,234 Number of extensions: 65220258 Number of successful extensions: 230306 Number of sequences better than 1.0e-05: 394 Number of HSP's gapped: 230460 Number of HSP's successfully gapped: 394 Length of query: 295 Length of database: 3,060,696,203 Length adjustment: 134 Effective length of query: 161 Effective length of database: 1,798,280,193 Effective search space: 289523111073 Effective search space used: 289523111073 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 (21.5 bits) S2: 131 (55.1 bits)