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= 0405.0009.p (157 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 109 7e-23 B1D7K5.1 B1D7K5_9BACL Transcriptional regulator, MarR family 101 2e-20 B0TBK0.1 B0TBK0_HELMI Transcriptional regulator, marr family 101 2e-20 B3K7U0.1 B3K7U0_9BACI Regulatory protein MarR 98 3e-19 B1D555.1 B1D555_9BACL Transcriptional regulator, MarR family 98 3e-19 >B8I5X7.1 B8I5X7_CLOCE Transcriptional regulator, MarR family Length = 152 Score = 109 bits (273), Expect = 7e-23, Method: Compositional matrix adjust. Identities = 59/149 (39%), Positives = 95/149 (63%), Gaps = 3/149 (2%) Query: 5 MDDYENIDA--LIEAFQQFSRLNWRRNSISSLKPSELRMLVSIRQGNEREGRKGQTVSDL 62 M++ NID +E F++ +R R+ S+ LK SE+R+L+ I Q + E ++ TVS++ Sbjct: 1 MNEQPNIDIRRFVETFEKLARAERRKQSLFGLKQSEVRVLLCIEQLS-HENKQIITVSEI 59 Query: 63 SKQLKVTSPTVTQMVNSLISQGYAIRTTDAQDRRISEITLTDRGERLAELVTVRTHETFK 122 SK++ VTSPTVT+++ SL + GY R D QD+R+S+I LTD+GE++ + + F Sbjct: 60 SKKMLVTSPTVTELIKSLSTNGYIERCVDPQDKRVSDIKLTDKGEKIVQKLITYFTSLFS 119 Query: 123 GMIDYLGKEPSDTLRQLLNGVYEYFEQLN 151 G+I+ +G E S+TL LL+ V Y + N Sbjct: 120 GLIEKIGVEQSETLLDLLDQVCLYLNETN 148 >B1D7K5.1 B1D7K5_9BACL Transcriptional regulator, MarR family Length = 162 Score = 101 bits (252), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 63/141 (44%), Positives = 85/141 (60%), Gaps = 6/141 (4%) Query: 14 LIEAFQQFSRLNWRRNSIS-SLKPSELRMLVSI-RQGN-EREGRKGQTVSDLSKQLKVTS 70 LIE F F+++NW + K SELR+LV I R GN E EG K VSDLSK LKVTS Sbjct: 13 LIEVFMLFNKMNWNHQPMDLKQKHSELRLLVVIKRMGNGEDEGVK---VSDLSKFLKVTS 69 Query: 71 PTVTQMVNSLISQGYAIRTTDAQDRRISEITLTDRGERLAELVTVRTHETFKGMIDYLGK 130 PTVTQ++N L G +R D +DRR ++LT+ GE A+ + G++D+LG Sbjct: 70 PTVTQLLNRLEEMGLVVRKEDPRDRRAVRVSLTEEGELTAKKALQGFMQRMNGLVDFLGD 129 Query: 131 EPSDTLRQLLNGVYEYFEQLN 151 + ++ L +LL YFEQ+N Sbjct: 130 DDTEQLIRLLRKTTTYFEQMN 150 >B0TBK0.1 B0TBK0_HELMI Transcriptional regulator, marr family Length = 162 Score = 101 bits (252), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 50/134 (37%), Positives = 81/134 (60%), Gaps = 1/134 (0%) Query: 14 LIEAFQQFSRLNWRRNSISSLKPSELRMLVSIRQGNEREGRKGQTVSDLSKQLKVTSPTV 73 L++AF QF R+ W + SI KPSE+++L I++G + G +G S++S+ L+V PTV Sbjct: 11 LLQAFMQFKRIEWHQRSILGYKPSEIKVLFCIKKGR-KPGSRGIKASEISQLLRVRPPTV 69 Query: 74 TQMVNSLISQGYAIRTTDAQDRRISEITLTDRGERLAELVTVRTHETFKGMIDYLGKEPS 133 TQ++ L ++G R D DRR + I LT +GE++ + F G++++LG+ S Sbjct: 70 TQLIKDLEARGLVERAIDRDDRRAALIGLTQKGEKVTKAAADEFVSAFDGLVNHLGEVKS 129 Query: 134 DTLRQLLNGVYEYF 147 L +LLN + YF Sbjct: 130 QQLAELLNEAFLYF 143 >B3K7U0.1 B3K7U0_9BACI Regulatory protein MarR Length = 186 Score = 97.8 bits (242), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 50/136 (36%), Positives = 79/136 (58%), Gaps = 1/136 (0%) Query: 14 LIEAFQQFSRLNWRRNSISSLKPSELRMLVSIRQGNEREGRKGQTVSDLSKQLKVTSPTV 73 L+ + + F + W ++ IS P E+R+L+ ++ E G G VS++S + VTSPT+ Sbjct: 40 LLYSIRMFHKQEWDQHLISGYTPGEIRVLMGLKHHIEPAG-PGMKVSEISSMMNVTSPTI 98 Query: 74 TQMVNSLISQGYAIRTTDAQDRRISEITLTDRGERLAELVTVRTHETFKGMIDYLGKEPS 133 TQ +N+L S+G R DAQDRR + LT+ G R+ + +F ++D+LG+E S Sbjct: 99 TQFINALESKGLVERVMDAQDRRAVRVQLTEEGNRVVQQTYQNVKNSFNELVDFLGEEDS 158 Query: 134 DTLRQLLNGVYEYFEQ 149 L +LL VY + EQ Sbjct: 159 VKLTELLTKVYHFHEQ 174 >B1D555.1 B1D555_9BACL Transcriptional regulator, MarR family Length = 149 Score = 97.8 bits (242), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 53/141 (37%), Positives = 86/141 (60%), Gaps = 1/141 (0%) Query: 9 ENIDALIEAFQQFSRLNWRRNSISSLKPSELRMLVSIRQGNEREGRKGQTVSDLSKQLKV 68 E I L E+F +F++ WR+ S++ L SELR+L I + + K + VS++S +L V Sbjct: 8 ETIQRLRESFTRFAKAEWRQRSVNGLNKSELRILFCIMMNTDVDNPKIR-VSEISNKLLV 66 Query: 69 TSPTVTQMVNSLISQGYAIRTTDAQDRRISEITLTDRGERLAELVTVRTHETFKGMIDYL 128 T+PTVTQ++ LI+ G RT D DRR I LT +GE++A+ + ++ G++++L Sbjct: 67 TTPTVTQLLKKLIADGLVERTVDPDDRRSVGIELTPKGEQIAKEADEQLNQHLSGLVEHL 126 Query: 129 GKEPSDTLRQLLNGVYEYFEQ 149 G+E + L +LL Y YF + Sbjct: 127 GEEQTLMLSELLTKAYNYFNE 147 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 0.315 0.131 0.355 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: 802,087,602 Number of extensions: 27133484 Number of successful extensions: 106194 Number of sequences better than 1.0e-05: 81 Number of HSP's gapped: 106414 Number of HSP's successfully gapped: 81 Length of query: 157 Length of database: 3,060,696,203 Length adjustment: 118 Effective length of query: 39 Effective length of database: 1,949,016,433 Effective search space: 76011640887 Effective search space used: 76011640887 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)