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= 0405.0011.p (174 letters) Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF 2,715,099 sequences; 757,237,578 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value ref|ZP_00097449.1| COG1846: Transcriptional regulators [Desulfit... 77 1e-13 ref|NP_349877.1| Transcriptional regulator, MarR/EmrR family [Cl... 68 9e-11 ref|NP_464133.1| similar to transcription regulator MarR family ... 66 3e-10 ref|NP_469958.1| similar to transcription regulator MarR family ... 65 9e-10 gb|AAD34333.1| LaaB [Lactobacillus sakei] 54 1e-06 >ref|ZP_00097449.1| COG1846: Transcriptional regulators [Desulfitobacterium hafniense] Length = 152 Score = 77.4 bits (189), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 47/150 (31%), Positives = 79/150 (52%), Gaps = 10/150 (6%) Query: 4 QDSQERKLLIALENIKRLTTRTQLFASIPRAEFLXXXXFVINASMQKAEQEKETSPGVMI 63 Q+S+ +LL +++ ++L+ + IP E + M K + G+ I Sbjct: 2 QESKTVRLLESIKKFRQLSLNFRGNGEIPHREIM----------MLKLIKHHSGEGGITI 51 Query: 64 SKLSELLQISRPTASQMISSMEEKGYTRRVMSTSDRRVIYICLTEKGQAVLQMNLTRYSG 123 S LS L+IS+P SQMI+S+E+K Y R+ SDRR++Y+ LTE G+ L + Sbjct: 52 SSLSAHLEISKPAVSQMINSLEDKNYVERITPKSDRRMVYVRLTELGEEALGVAFHEMQK 111 Query: 124 VLNEIIEKVGRKEIDQLIFLCDRFQEVVNE 153 L +EK+G +++ LI L D+ ++ E Sbjct: 112 KLEIYLEKMGEEDMATLIALLDKLHRIMKE 141 >ref|NP_349877.1| Transcriptional regulator, MarR/EmrR family [Clostridium acetobutylicum] pir||F97303 transcription regulator, MarR/EmrR family [imported] - Clostridium acetobutylicum gb|AAK81217.1| Transcriptional regulator, MarR/EmrR family [Clostridium acetobutylicum] Length = 150 Score = 67.8 bits (164), Expect = 9e-11, Method: Compositional matrix adjust. Identities = 43/133 (32%), Positives = 73/133 (54%), Gaps = 12/133 (9%) Query: 5 DSQER----KLLIALENIKRLTTRTQLFASIPRAEFLXXXXFVINASMQKAEQEKETSPG 60 D++E+ KLL+AL I+++ + I AE + I S++ E G Sbjct: 2 DNKEKEIADKLLLALNQIRKIKFHPKHVDGITHAEMMLL--VCIQKSLEVEE------GG 53 Query: 61 VMISKLSELLQISRPTASQMISSMEEKGYTRRVMSTSDRRVIYICLTEKGQAVLQMNLTR 120 V +S+LS+ L+I+ PT +Q I+SME+ G+ R M +DRRV+ + +TEKG +L+ Sbjct: 54 VKVSQLSKRLKIASPTVTQQINSMEKNGFVERSMDLNDRRVVRVHITEKGDELLKKAEKN 113 Query: 121 YSGVLNEIIEKVG 133 + + +IE +G Sbjct: 114 FWKFIEGLIEYMG 126 >ref|NP_464133.1| similar to transcription regulator MarR family [Listeria monocytogenes EGD-e] pir||AF1150 transcription regulator MarR family homolog lmo0606 [imported] - Listeria monocytogenes (strain EGD-e) emb|CAC98684.1| lmo0606 [Listeria monocytogenes] Length = 153 Score = 66.2 bits (160), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 32/98 (32%), Positives = 57/98 (58%) Query: 55 KETSPGVMISKLSELLQISRPTASQMISSMEEKGYTRRVMSTSDRRVIYICLTEKGQAVL 114 K P + +S L +L+IS+P+ +QMI S+E KG +RV + D+R +Y+ LTE G V Sbjct: 48 KSRGPKIRVSDLGHMLRISKPSVTQMIQSLEGKGLIKRVQNPEDKRSMYVELTEVGAGVS 107 Query: 115 QMNLTRYSGVLNEIIEKVGRKEIDQLIFLCDRFQEVVN 152 + L + ++ E +G ++ +LI L ++ + +N Sbjct: 108 EKMLDEFQASFEDMQEFLGEDDMKKLITLLEKLTDYLN 145 >ref|NP_469958.1| similar to transcription regulator MarR family [Listeria innocua] pir||AG1509 transcription regulator MarR family homolog lin0615 [imported] - Listeria innocua (strain Clip11262) emb|CAC95847.1| lin0615 [Listeria innocua] Length = 153 Score = 64.7 bits (156), Expect = 9e-10, Method: Compositional matrix adjust. Identities = 31/98 (31%), Positives = 56/98 (57%) Query: 55 KETSPGVMISKLSELLQISRPTASQMISSMEEKGYTRRVMSTSDRRVIYICLTEKGQAVL 114 K P + +S L +L+IS+P+ +QMI S+E KG +RV + D+R +Y+ LTE G V Sbjct: 48 KSRGPKIRVSDLGHMLRISKPSVTQMIQSLEGKGLIKRVQNPEDKRSMYVELTEVGAGVS 107 Query: 115 QMNLTRYSGVLNEIIEKVGRKEIDQLIFLCDRFQEVVN 152 + + ++ E +G ++ +LI L ++ + +N Sbjct: 108 KKMFDEFQASFEDMQEFLGEDDMKKLITLLEKLTDYLN 145 >gb|AAD34333.1| LaaB [Lactobacillus sakei] Length = 180 Score = 53.9 bits (128), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 32/91 (35%), Positives = 53/91 (58%) Query: 57 TSPGVMISKLSELLQISRPTASQMISSMEEKGYTRRVMSTSDRRVIYICLTEKGQAVLQM 116 T+ + SKL++ + +SR S+ ++E GY SD+RV ++ LT++GQ VL Sbjct: 56 TNDDLTGSKLAKTMSVSRSAISRQCRLLKENGYVVEEHLQSDQRVKFLSLTKQGQDVLDR 115 Query: 117 NLTRYSGVLNEIIEKVGRKEIDQLIFLCDRF 147 ++RY EI ++GR++ID LI D+F Sbjct: 116 LVSRYVQKYQEIETQMGREKIDGLIQFIDQF 146 Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF Posted date: Mar 24, 2004 1:53 AM Number of letters in database: 757,237,578 Number of sequences in database: 2,715,099 Lambda K H 0.317 0.131 0.346 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 2715099 Number of Hits to DB: 195,873,969 Number of extensions: 6177829 Number of successful extensions: 21696 Number of sequences better than 1.0e-05: 16 Number of HSP's gapped: 21738 Number of HSP's successfully gapped: 16 Length of query: 174 Length of database: 757,237,578 Length adjustment: 117 Effective length of query: 57 Effective length of database: 439,570,995 Effective search space: 25055546715 Effective search space used: 25055546715 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 (21.7 bits) S2: 121 (51.2 bits)