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= 0569.0004.p (206 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value C2YTG0.1 C2YTG0_BACCE Transcriptional regulator, TetR 149 2e-34 C3G4S4.1 C3G4S4_BACTU Transcriptional regulator, TetR 148 3e-34 C3F3G5.1 C3F3G5_BACTU Transcriptional regulator, TetR 148 3e-34 B3YN71.1 B3YN71_BACCE Transcriptional regulator, TetR family 148 3e-34 Q735L6.1 Q735L6_BACC1 Transcriptional regulator, TetR family 147 5e-34 >C2YTG0.1 C2YTG0_BACCE Transcriptional regulator, TetR Length = 205 Score = 149 bits (375), Expect = 2e-34, Method: Compositional matrix adjust. Identities = 76/195 (38%), Positives = 112/195 (57%), Gaps = 4/195 (2%) Query: 6 DLRVIRTKKLIDEAFLSLVEEKGLEGVNVRSLTSKAGINRGTFYLHYQDIYDLMEKMEDQ 65 DLRV+RTK I AF+ L+EEKG + + V+ +T+KA INRGTFY HYQD +DLM K ++ Sbjct: 7 DLRVVRTKTAIRNAFVELIEEKGFDAITVKDITTKANINRGTFYAHYQDKFDLMTKCQED 66 Query: 66 IIEEMNALPARTIPEQL--LGSG-SVEEPFPSIVEFIRFMNGRHRFFAIFFAQEGT-SFG 121 I+ E +++ R PE + LGS S PF I + F+N F + +G SF Sbjct: 67 IMYEFSSIAKRKFPEVIADLGSNPSPTMPFILITSILEFLNENSDFMKAVLSPKGDLSFQ 126 Query: 122 KRLRTLIHSRMYEKLPRQAFNPDALAVPDDYIVAYFSSAHFGVIRHWFESGRTLPPEQVA 181 +L+ + ++E N + L VP Y+ +Y +SAH GVI+ W +G+ PE++A Sbjct: 127 TKLKDFMWKTLFEDTNGALINKENLLVPSQYLASYMASAHIGVIQQWLNNGQKETPEEIA 186 Query: 182 LILTRLVRDGPLLTA 196 IL+ + GP A Sbjct: 187 RILSTIAVHGPFYAA 201 >C3G4S4.1 C3G4S4_BACTU Transcriptional regulator, TetR Length = 211 Score = 148 bits (374), Expect = 3e-34, Method: Compositional matrix adjust. Identities = 76/195 (38%), Positives = 112/195 (57%), Gaps = 4/195 (2%) Query: 6 DLRVIRTKKLIDEAFLSLVEEKGLEGVNVRSLTSKAGINRGTFYLHYQDIYDLMEKMEDQ 65 DLRV+RTK I AF+ L+EEKG + + V+ +T+KA INRGTFY HYQD +DLM K + + Sbjct: 13 DLRVVRTKTAIRNAFVELIEEKGFDAITVKDITTKANINRGTFYAHYQDKFDLMTKCQKE 72 Query: 66 IIEEMNALPARTIPEQL--LGSG-SVEEPFPSIVEFIRFMNGRHRFFAIFFAQEGT-SFG 121 I+ E +++ + PE + LGS S PF I + F+N F + +G SF Sbjct: 73 IMYEFSSIAKQKFPEVIADLGSNPSPTMPFLLITSILEFLNENSDFMKAVLSPKGDLSFQ 132 Query: 122 KRLRTLIHSRMYEKLPRQAFNPDALAVPDDYIVAYFSSAHFGVIRHWFESGRTLPPEQVA 181 +L+ + ++E N + L VP Y+ +Y +SAH GVI+ W SG+ PE++A Sbjct: 133 TKLKDFMWKTLFEDTNGALINKENLLVPSQYLTSYMASAHIGVIQQWLNSGQKETPEEIA 192 Query: 182 LILTRLVRDGPLLTA 196 IL+ + GP A Sbjct: 193 RILSTIAVHGPFYAA 207 >C3F3G5.1 C3F3G5_BACTU Transcriptional regulator, TetR Length = 211 Score = 148 bits (374), Expect = 3e-34, Method: Compositional matrix adjust. Identities = 76/195 (38%), Positives = 112/195 (57%), Gaps = 4/195 (2%) Query: 6 DLRVIRTKKLIDEAFLSLVEEKGLEGVNVRSLTSKAGINRGTFYLHYQDIYDLMEKMEDQ 65 DLRV+RTK I AF+ L+EEKG + + V+ +T+KA INRGTFY HYQD +DLM K + + Sbjct: 13 DLRVVRTKTAIRNAFVELIEEKGFDAITVKDITTKANINRGTFYAHYQDKFDLMTKCQKE 72 Query: 66 IIEEMNALPARTIPEQL--LGSG-SVEEPFPSIVEFIRFMNGRHRFFAIFFAQEGT-SFG 121 I+ E +++ + PE + LGS S PF I + F+N F + +G SF Sbjct: 73 IMYEFSSIAKQKFPEVIADLGSNPSPTMPFLLITSILEFLNENSDFMKAVLSPKGDLSFQ 132 Query: 122 KRLRTLIHSRMYEKLPRQAFNPDALAVPDDYIVAYFSSAHFGVIRHWFESGRTLPPEQVA 181 +L+ + ++E N + L VP Y+ +Y +SAH GVI+ W SG+ PE++A Sbjct: 133 TKLKDFMWKTLFEDTNGALINKENLLVPSQYLTSYMASAHIGVIQQWLNSGQKETPEEIA 192 Query: 182 LILTRLVRDGPLLTA 196 IL+ + GP A Sbjct: 193 RILSTIAVHGPFYAA 207 >B3YN71.1 B3YN71_BACCE Transcriptional regulator, TetR family Length = 205 Score = 148 bits (374), Expect = 3e-34, Method: Compositional matrix adjust. Identities = 76/195 (38%), Positives = 112/195 (57%), Gaps = 4/195 (2%) Query: 6 DLRVIRTKKLIDEAFLSLVEEKGLEGVNVRSLTSKAGINRGTFYLHYQDIYDLMEKMEDQ 65 DLRV+RTK I AF+ L+EEKG + + V+ +T+KA INRGTFY HYQD +DLM K + + Sbjct: 7 DLRVVRTKTAIRNAFVELIEEKGFDAITVKDITTKANINRGTFYAHYQDKFDLMTKCQKE 66 Query: 66 IIEEMNALPARTIPEQL--LGSG-SVEEPFPSIVEFIRFMNGRHRFFAIFFAQEGT-SFG 121 I+ E +++ + PE + LGS S PF I + F+N F + +G SF Sbjct: 67 IMYEFSSIAKQKFPEVIADLGSNPSPTMPFLLITSILEFLNENSDFMKAVLSPKGDLSFQ 126 Query: 122 KRLRTLIHSRMYEKLPRQAFNPDALAVPDDYIVAYFSSAHFGVIRHWFESGRTLPPEQVA 181 +L+ + ++E N + L VP Y+ +Y +SAH GVI+ W SG+ PE++A Sbjct: 127 TKLKDFMWKTLFEDTNGALINKENLLVPSQYLTSYMASAHIGVIQQWLNSGQKETPEEIA 186 Query: 182 LILTRLVRDGPLLTA 196 IL+ + GP A Sbjct: 187 RILSTIAVHGPFYAA 201 >Q735L6.1 Q735L6_BACC1 Transcriptional regulator, TetR family Length = 205 Score = 147 bits (371), Expect = 5e-34, Method: Compositional matrix adjust. Identities = 74/195 (37%), Positives = 114/195 (58%), Gaps = 4/195 (2%) Query: 6 DLRVIRTKKLIDEAFLSLVEEKGLEGVNVRSLTSKAGINRGTFYLHYQDIYDLMEKMEDQ 65 DLRV+RTK I AF+ L+EEKG + + V+ +T+KA INRGTFY HYQD +DLM K +++ Sbjct: 7 DLRVVRTKTAIRNAFVELIEEKGFDAITVKDITTKANINRGTFYAHYQDKFDLMTKCQEE 66 Query: 66 IIEEMNALPARTIPEQL--LGSG-SVEEPFPSIVEFIRFMNGRHRFFAIFFAQEGT-SFG 121 I+ + +++ + +PE + LGS S PF I + F+N F + +G SF Sbjct: 67 IMYKFSSIAKQKLPEVIADLGSSPSPTMPFIPITSILEFLNENSDFMKAVLSPKGDLSFQ 126 Query: 122 KRLRTLIHSRMYEKLPRQAFNPDALAVPDDYIVAYFSSAHFGVIRHWFESGRTLPPEQVA 181 +L+ + ++E N + L VP Y+ +Y +SAH GVI+ W +G+ PE++A Sbjct: 127 TKLKDFMWKTIFEDTNGALINKENLLVPSQYLASYMASAHIGVIQQWLNNGQKETPEEIA 186 Query: 182 LILTRLVRDGPLLTA 196 IL+ + GP A Sbjct: 187 RILSTIAVHGPFYAA 201 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 0.139 0.403 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: 1,227,688,105 Number of extensions: 51101063 Number of successful extensions: 130259 Number of sequences better than 1.0e-05: 674 Number of HSP's gapped: 129949 Number of HSP's successfully gapped: 674 Length of query: 206 Length of database: 3,060,696,203 Length adjustment: 129 Effective length of query: 77 Effective length of database: 1,845,385,268 Effective search space: 142094665636 Effective search space used: 142094665636 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)