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= 0405.0008.p (144 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B1YG51.1 B1YG51_EXIS2 Transcriptional regulator, MarR family 129 7e-29 P42103.1 YXAD_BACSU Uncharacterized HTH-type transcriptional reg... 122 9e-27 Q2BDA1.1 Q2BDA1_9BACI Putative uncharacterized protein 119 1e-25 A7Z0W8.1 A7Z0W8_BACA2 YxaD 117 4e-25 B1DML5.1 B1DML5_9BACL Transcriptional regulator, MarR family 102 1e-20 >B1YG51.1 B1YG51_EXIS2 Transcriptional regulator, MarR family Length = 147 Score = 129 bits (325), Expect = 7e-29, Method: Compositional matrix adjust. Identities = 67/139 (48%), Positives = 94/139 (67%), Gaps = 2/139 (1%) Query: 2 NNTVDVIELEMAILVRRLVSMTTYKKIGNLDRSAYLLLYQIDSHGSAGVKALSDEFHLDI 61 N +++ IELE+AIL+RRL + T + NLDR++YLLL Q+ G GVK L+ E LD+ Sbjct: 10 NKSLETIELELAILIRRLTTATADNR--NLDRASYLLLRQLLHSGQVGVKTLARELQLDV 67 Query: 62 STVSRQAAALEQKGYVRRIPDPVDGRAYSLEMTEAGLEVLNENKKARQDSIGKMLSSWSD 121 STVSRQAAAL+QK V +I DP DGRA+ +T+ G + L + AR SI ++L++W D Sbjct: 68 STVSRQAAALDQKKLVEKIKDPTDGRAFFYNITDYGQQELEIYRTARLTSIERLLTNWPD 127 Query: 122 GERVIFGELLRKFNMAILE 140 + FG LL++FN A+ E Sbjct: 128 EDTESFGRLLKQFNQALRE 146 >P42103.1 YXAD_BACSU Uncharacterized HTH-type transcriptional regulator yxaD Length = 143 Score = 122 bits (307), Expect = 9e-27, Method: Compositional matrix adjust. Identities = 62/140 (44%), Positives = 91/140 (65%), Gaps = 1/140 (0%) Query: 2 NNTVDVIELEMAILVRRLVSM-TTYKKIGNLDRSAYLLLYQIDSHGSAGVKALSDEFHLD 60 N V++IE E+ +RR V + + K+ GNL+RS+YLLL Q+D G A VK L++ F LD Sbjct: 4 QNPVELIEYELTTFIRRAVYLDQSEKRTGNLERSSYLLLRQLDEFGPARVKELAESFKLD 63 Query: 61 ISTVSRQAAALEQKGYVRRIPDPVDGRAYSLEMTEAGLEVLNENKKARQDSIGKMLSSWS 120 IST+SRQAAALE K + R DP DGR +T+ G ++L +++ R + +ML WS Sbjct: 64 ISTLSRQAAALEAKELIYRFSDPSDGRVSLFTITKLGKQLLKADQQKRLERYEQMLKEWS 123 Query: 121 DGERVIFGELLRKFNMAILE 140 E+ +FGELL++ N A ++ Sbjct: 124 TQEKEMFGELLQRMNKAFID 143 >Q2BDA1.1 Q2BDA1_9BACI Putative uncharacterized protein Length = 145 Score = 119 bits (297), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 62/140 (44%), Positives = 90/140 (64%), Gaps = 1/140 (0%) Query: 2 NNTVDVIELEMAILVRRLVSM-TTYKKIGNLDRSAYLLLYQIDSHGSAGVKALSDEFHLD 60 N V++IE E+A +R+ V + + KKIG L+RSAYLLL Q+D G A VK L++ F LD Sbjct: 6 QNDVELIEYELATFIRKAVYLEQSEKKIGQLERSAYLLLRQLDEFGPARVKELAEAFKLD 65 Query: 61 ISTVSRQAAALEQKGYVRRIPDPVDGRAYSLEMTEAGLEVLNENKKARQDSIGKMLSSWS 120 IST+SRQAA+LE K ++R DP DGR +T+ G E L + R+ K+L+ W+ Sbjct: 66 ISTLSRQAASLESKDLIKRCSDPKDGRVSVFSITDLGKEKLEADIANRRAHYFKVLNDWT 125 Query: 121 DGERVIFGELLRKFNMAILE 140 + E+ IFG+L+ + N + E Sbjct: 126 EEEKEIFGKLVVRLNTSFFE 145 >A7Z0W8.1 A7Z0W8_BACA2 YxaD Length = 143 Score = 117 bits (292), Expect = 4e-25, Method: Compositional matrix adjust. Identities = 62/140 (44%), Positives = 88/140 (62%), Gaps = 1/140 (0%) Query: 2 NNTVDVIELEMAILVRRLVSM-TTYKKIGNLDRSAYLLLYQIDSHGSAGVKALSDEFHLD 60 + +++IE E+ +RR V + + +KIG+L+R+AYLLL Q+D G A VK L++ F LD Sbjct: 4 QDPIELIEYELTTFIRRAVYLDNSDRKIGHLERAAYLLLRQLDEFGPARVKELAESFKLD 63 Query: 61 ISTVSRQAAALEQKGYVRRIPDPVDGRAYSLEMTEAGLEVLNENKKARQDSIGKMLSSWS 120 IST+SRQAAALE K ++R DP DGR +T+ G + L +KK R D ML WS Sbjct: 64 ISTLSRQAAALESKELIQRFSDPSDGRVSLFAITKLGKQRLKADKKMRLDRYRHMLDDWS 123 Query: 121 DGERVIFGELLRKFNMAILE 140 E+ FG LL + N A ++ Sbjct: 124 GDEKEKFGRLLLRLNEAFID 143 >B1DML5.1 B1DML5_9BACL Transcriptional regulator, MarR family Length = 151 Score = 102 bits (254), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 55/130 (42%), Positives = 80/130 (61%), Gaps = 1/130 (0%) Query: 7 VIELEMAILVRRLVSMTTYKKIGN-LDRSAYLLLYQIDSHGSAGVKALSDEFHLDISTVS 65 +IE +++I +RR + +G +DRS+YL+L ++ G G+K LS F LDISTVS Sbjct: 11 MIESQISIFIRRAEAARLSSIMGKEMDRSSYLILQHLEKAGPTGIKTLSTTFQLDISTVS 70 Query: 66 RQAAALEQKGYVRRIPDPVDGRAYSLEMTEAGLEVLNENKKARQDSIGKMLSSWSDGERV 125 RQ AALE KG + R+ DP D R L++TE +L E +++R+ +L+ WS+ E Sbjct: 71 RQIAALEAKGLISRLTDPNDARISLLQLTEDAPSLLAEVRESREAFFKDLLNDWSEEEIR 130 Query: 126 IFGELLRKFN 135 FG LL KFN Sbjct: 131 TFGNLLLKFN 140 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 0.317 0.133 0.359 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: 770,018,770 Number of extensions: 27201996 Number of successful extensions: 87191 Number of sequences better than 1.0e-05: 145 Number of HSP's gapped: 87333 Number of HSP's successfully gapped: 145 Length of query: 144 Length of database: 3,060,696,203 Length adjustment: 107 Effective length of query: 37 Effective length of database: 2,052,647,598 Effective search space: 75947961126 Effective search space used: 75947961126 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 (21.6 bits) S2: 125 (52.8 bits)