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= 0541.0016.p (154 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B8I5X7.1 B8I5X7_CLOCE Transcriptional regulator, MarR family 103 5e-21 B3K7U0.1 B3K7U0_9BACI Regulatory protein MarR 103 6e-21 B1D555.1 B1D555_9BACL Transcriptional regulator, MarR family 100 4e-20 B0TBK0.1 B0TBK0_HELMI Transcriptional regulator, marr family 99 9e-20 B1D7K5.1 B1D7K5_9BACL Transcriptional regulator, MarR family 91 3e-17 >B8I5X7.1 B8I5X7_CLOCE Transcriptional regulator, MarR family Length = 152 Score = 103 bits (257), Expect = 5e-21, Method: Compositional matrix adjust. Identities = 61/150 (40%), Positives = 88/150 (58%), Gaps = 3/150 (2%) Query: 1 MNEDRYDKIDELMEAFQQFSKINWQKNNPSLLKPSEIRVLITI-RLGTEKSGKPVLTVSD 59 MNE I +E F++ ++ +K + LK SE+RVL+ I +L E K ++TVS+ Sbjct: 1 MNEQPNIDIRRFVETFEKLARAERRKQSLFGLKQSEVRVLLCIEQLSHE--NKQIITVSE 58 Query: 60 ISKMHKVTSPTITQMVNSLLAQGYVVRTSDAQDKRVSGIALTDKGVRLXXXXXXXXXXTF 119 ISK VTSPT+T+++ SL GY+ R D QDKRVS I LTDKG ++ F Sbjct: 59 ISKKMLVTSPTVTELIKSLSTNGYIERCVDPQDKRVSDIKLTDKGEKIVQKLITYFTSLF 118 Query: 120 KGMIDYLGKERSRALIELLNGVYHYFEEIN 149 G+I+ +G E+S L++LL+ V Y E N Sbjct: 119 SGLIEKIGVEQSETLLDLLDQVCLYLNETN 148 >B3K7U0.1 B3K7U0_9BACI Regulatory protein MarR Length = 186 Score = 103 bits (256), Expect = 6e-21, Method: Compositional matrix adjust. Identities = 55/136 (40%), Positives = 82/136 (60%), Gaps = 1/136 (0%) Query: 12 LMEAFQQFSKINWQKNNPSLLKPSEIRVLITIRLGTEKSGKPVLTVSDISKMHKVTSPTI 71 L+ + + F K W ++ S P EIRVL+ ++ E +G P + VS+IS M VTSPTI Sbjct: 40 LLYSIRMFHKQEWDQHLISGYTPGEIRVLMGLKHHIEPAG-PGMKVSEISSMMNVTSPTI 98 Query: 72 TQMVNSLLAQGYVVRTSDAQDKRVSGIALTDKGVRLXXXXXXXXXXTFKGMIDYLGKERS 131 TQ +N+L ++G V R DAQD+R + LT++G R+ +F ++D+LG+E S Sbjct: 99 TQFINALESKGLVERVMDAQDRRAVRVQLTEEGNRVVQQTYQNVKNSFNELVDFLGEEDS 158 Query: 132 RALIELLNGVYHYFEE 147 L ELL VYH+ E+ Sbjct: 159 VKLTELLTKVYHFHEQ 174 >B1D555.1 B1D555_9BACL Transcriptional regulator, MarR family Length = 149 Score = 100 bits (250), Expect = 4e-20, Method: Compositional matrix adjust. Identities = 55/148 (37%), Positives = 87/148 (58%), Gaps = 2/148 (1%) Query: 1 MNEDRY-DKIDELMEAFQQFSKINWQKNNPSLLKPSEIRVLITIRLGTEKSGKPVLTVSD 59 MN+D + + I L E+F +F+K W++ + + L SE+R+L I + T+ P + VS+ Sbjct: 1 MNKDNHQETIQRLRESFTRFAKAEWRQRSVNGLNKSELRILFCIMMNTDVDN-PKIRVSE 59 Query: 60 ISKMHKVTSPTITQMVNSLLAQGYVVRTSDAQDKRVSGIALTDKGVRLXXXXXXXXXXTF 119 IS VT+PT+TQ++ L+A G V RT D D+R GI LT KG ++ Sbjct: 60 ISNKLLVTTPTVTQLLKKLIADGLVERTVDPDDRRSVGIELTPKGEQIAKEADEQLNQHL 119 Query: 120 KGMIDYLGKERSRALIELLNGVYHYFEE 147 G++++LG+E++ L ELL Y+YF E Sbjct: 120 SGLVEHLGEEQTLMLSELLTKAYNYFNE 147 >B0TBK0.1 B0TBK0_HELMI Transcriptional regulator, marr family Length = 162 Score = 99.4 bits (246), Expect = 9e-20, Method: Compositional matrix adjust. Identities = 51/135 (37%), Positives = 80/135 (59%), Gaps = 1/135 (0%) Query: 11 ELMEAFQQFSKINWQKNNPSLLKPSEIRVLITIRLGTEKSGKPVLTVSDISKMHKVTSPT 70 +L++AF QF +I W + + KPSEI+VL I+ G K G + S+IS++ +V PT Sbjct: 10 KLLQAFMQFKRIEWHQRSILGYKPSEIKVLFCIKKG-RKPGSRGIKASEISQLLRVRPPT 68 Query: 71 ITQMVNSLLAQGYVVRTSDAQDKRVSGIALTDKGVRLXXXXXXXXXXTFKGMIDYLGKER 130 +TQ++ L A+G V R D D+R + I LT KG ++ F G++++LG+ + Sbjct: 69 VTQLIKDLEARGLVERAIDRDDRRAALIGLTQKGEKVTKAAADEFVSAFDGLVNHLGEVK 128 Query: 131 SRALIELLNGVYHYF 145 S+ L ELLN + YF Sbjct: 129 SQQLAELLNEAFLYF 143 >B1D7K5.1 B1D7K5_9BACL Transcriptional regulator, MarR family Length = 162 Score = 90.9 bits (224), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 55/141 (39%), Positives = 80/141 (56%), Gaps = 6/141 (4%) Query: 12 LMEAFQQFSKINWQKNNPSL-LKPSEIRVLITI-RLGT-EKSGKPVLTVSDISKMHKVTS 68 L+E F F+K+NW L K SE+R+L+ I R+G E G + VSD+SK KVTS Sbjct: 13 LIEVFMLFNKMNWNHQPMDLKQKHSELRLLVVIKRMGNGEDEG---VKVSDLSKFLKVTS 69 Query: 69 PTITQMVNSLLAQGYVVRTSDAQDKRVSGIALTDKGVRLXXXXXXXXXXTFKGMIDYLGK 128 PT+TQ++N L G VVR D +D+R ++LT++G G++D+LG Sbjct: 70 PTVTQLLNRLEEMGLVVRKEDPRDRRAVRVSLTEEGELTAKKALQGFMQRMNGLVDFLGD 129 Query: 129 ERSRALIELLNGVYHYFEEIN 149 + + LI LL YFE++N Sbjct: 130 DDTEQLIRLLRKTTTYFEQMN 150 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 0.316 0.134 0.368 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: 775,752,936 Number of extensions: 25675333 Number of successful extensions: 79242 Number of sequences better than 1.0e-05: 26 Number of HSP's gapped: 79384 Number of HSP's successfully gapped: 26 Length of query: 154 Length of database: 3,060,696,203 Length adjustment: 116 Effective length of query: 38 Effective length of database: 1,967,858,463 Effective search space: 74778621594 Effective search space used: 74778621594 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)