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= 0391.0035.p (231 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|NP_350268.1| Transcriptional regulator, AcrR family [Clostri... 114 1e-24 ref|NP_720607.1| putative transcriptional regulator (TetR/AcrR f... 82 8e-15 ref|NP_771630.1| transcriptional regulatory protein [Bradyrhizob... 70 4e-11 ref|NP_213195.1| transcriptional regulator (TetR/AcrR family) [A... 68 2e-10 ref|NP_963225.1| hypothetical protein MAP4291c [Mycobacterium av... 66 5e-10 >ref|NP_350268.1| Transcriptional regulator, AcrR family [Clostridium acetobutylicum] pir||E97352 transcription regulator, AcrR family [imported] - Clostridium acetobutylicum gb|AAK81608.1| Transcriptional regulator, AcrR family [Clostridium acetobutylicum] Length = 196 Score = 114 bits (286), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 71/198 (35%), Positives = 117/198 (59%), Gaps = 6/198 (3%) Query: 34 IRTPRQERSIRTREAIVQAAMKQFSDKGFHQTNTKQIAAAAGVSTGSFYSYFVDKRAVFI 93 +R P+Q R +T+ I+ AA + FS+KG+ T++ +IA+ A V+ GSFYSYF DK+ +FI Sbjct: 1 MRNPKQTRGKQTKSKIINAAFELFSEKGYTGTSSNEIASRAEVAIGSFYSYFKDKKQLFI 60 Query: 94 EVLKNYGTDLLARIDASMSEINFLTIDRSELIMHLVDTLLISHEAFIGYHRELTIMYHSD 153 EVLK+Y D +++I S S IN + + + + L +HE +HRE+ IM +D Sbjct: 61 EVLKDY-YDNISKI--SFSNINGTISNLDDFLYESIKIALKAHEYHPEFHREVNIMELAD 117 Query: 154 EEIKQLMDAQYEAGRIRTLEYL-QMGQDELKTEDMEAASVIVFETVSAIVDVISFS-QQR 211 ++IK+L+ YE + + + L + ++E K + A +++ T+ V VI+FS Sbjct: 118 DDIKKLI-VGYEKVKFDSFKKLVEPYKNEFKNLNFNEALFLIYTTIENTVHVITFSTDTN 176 Query: 212 IATERLKSELVHMIVSYL 229 + E L EL+ MI SY+ Sbjct: 177 LNKETLIKELISMIKSYI 194 >ref|NP_720607.1| putative transcriptional regulator (TetR/AcrR family) [Streptococcus mutans UA159] gb|AAN57913.1| putative transcriptional regulator (TetR/AcrR family) [Streptococcus mutans UA159] Length = 217 Score = 82.4 bits (202), Expect = 8e-15, Method: Compositional matrix adjust. Identities = 53/178 (29%), Positives = 90/178 (50%), Gaps = 9/178 (5%) Query: 31 EDKIRTPRQERSIRTREAIVQAAMKQFSDKGFHQTNTKQIAAAAGVSTGSFYSYFVDKRA 90 E IR P+QERSI R I+Q A FSDK + T +IA A VS G+ Y+YF K Sbjct: 13 EKNIRKPKQERSIEKRNKILQVAKDLFSDKTYFNVTTNEIAKKADVSVGTLYAYFASKED 72 Query: 91 VFIEVLKNYGTDLLARIDASMSEINFLTIDR-----SELIMHLVDTLLISHEAFIGYHRE 145 + +LK Y L I A ++ + ++DR E + L++ LL + + +H + Sbjct: 73 ILTALLKRYNDFFLTTIFADINSQD--SLDRFKKNPKEWLNVLINQLLAAEDKI--FHAQ 128 Query: 146 LTIMYHSDEEIKQLMDAQYEAGRIRTLEYLQMGQDELKTEDMEAASVIVFETVSAIVD 203 + ++ ++ + K L++ + T + L D+ + S++VF+ +SA+VD Sbjct: 129 IEMLAYAIPQAKALLEEHNNNLKNLTYKCLLYYSDQAANPSFKTLSLVVFDFISALVD 186 >ref|NP_771630.1| transcriptional regulatory protein [Bradyrhizobium japonicum] dbj|BAC50255.1| transcriptional regulatory protein [Bradyrhizobium japonicum USDA 110] Length = 223 Score = 70.1 bits (170), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 57/217 (26%), Positives = 102/217 (47%), Gaps = 16/217 (7%) Query: 24 QSDMSDMEDKIRT-PR----QERSIRTREAIVQAAMKQFSDKGFHQTNTKQIAAAAGVST 78 SD M K T PR Q+RS T +A+V+A + +GF + +T +IA AGVS Sbjct: 11 HSDRWPMARKPPTKPRKNASQKRSRATVDALVEATARILVREGFEKASTNRIAEVAGVSV 70 Query: 79 GSFYSYFVDKRAVFIEVLKNYGTDLLARIDASMSEINFLTIDRSELIMHLVDTLLISHEA 138 GS Y YF K A+ V+ + +++ + ++++E+ + I+++ + LV + +H Sbjct: 71 GSLYQYFPGKEALVAAVIDRHNEEIMGIVRSALTEVADMPIEKA--VRKLVSVAIEAHRI 128 Query: 139 FIGYHRELTIMYHSDEEIKQLMDAQYEAGRIRTL--EYLQMGQDELKTEDMEAASVIVFE 196 HR ++ QL D + + TL YL+ ++E++ D A+ I Sbjct: 129 DPKLHR---VLAEQIPRTGQLKDVEAFNREVHTLVRAYLESRRNEMRKIDPALATFICVS 185 Query: 197 TVSAIVDVISFSQQRIATER----LKSELVHMIVSYL 229 + A+ + + +E+ L E M+V YL Sbjct: 186 AIEAVAHNTVLNHAEMLSEKTVRTLVDETTRMVVGYL 222 >ref|NP_213195.1| transcriptional regulator (TetR/AcrR family) [Aquifex aeolicus] pir||G70325 transcription regulator TetR/AcrR family - Aquifex aeolicus gb|AAC06593.1| transcriptional regulator (TetR/AcrR family) [Aquifex aeolicus VF5] Length = 179 Score = 67.8 bits (164), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 32/68 (47%), Positives = 44/68 (64%) Query: 42 SIRTREAIVQAAMKQFSDKGFHQTNTKQIAAAAGVSTGSFYSYFVDKRAVFIEVLKNYGT 101 S++TRE I++AA K+F++KGF+ T I +AGV+ G+FY YF K VF E+LK Sbjct: 5 SVQTRERIIKAAAKEFAEKGFYNTQISHIVESAGVARGTFYIYFKSKEEVFEEILKKVVE 64 Query: 102 DLLARIDA 109 DL RI Sbjct: 65 DLKERIKP 72 >ref|NP_963225.1| hypothetical protein MAP4291c [Mycobacterium avium subsp. paratuberculosis str. k10] gb|AAS06841.1| hypothetical protein MAP4291c [Mycobacterium avium subsp. paratuberculosis str. k10] Length = 202 Score = 66.2 bits (160), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 40/104 (38%), Positives = 62/104 (59%), Gaps = 3/104 (2%) Query: 30 MEDKIRTPRQERSIRTREAIVQAAMKQFSDKGFHQTNTKQIAAAAGVSTGSFYSYFVDKR 89 ME K RT ++ERS TR+A++ AA K + +G+ + T +IAAAAGV+ G+ Y F DK Sbjct: 1 MESKRRT-QEERSAATRDALIAAARKLWGLRGYTEVGTPEIAAAAGVTRGAMYHQFADKA 59 Query: 90 AVFIEVLKNYGTDLLARIDASMSEINFLTIDRSELIMHLVDTLL 133 A+F V++ D++AR+ ++E T ++ I VD L Sbjct: 60 ALFRAVVEAVEQDVMARMAVVVAESGASTP--TDAIRAAVDAWL 101 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 0.319 0.131 0.349 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: 279,348,936 Number of extensions: 9890894 Number of successful extensions: 32805 Number of sequences better than 1.0e-05: 57 Number of HSP's gapped: 32850 Number of HSP's successfully gapped: 57 Length of query: 231 Length of database: 757,237,578 Length adjustment: 122 Effective length of query: 109 Effective length of database: 425,995,500 Effective search space: 46433509500 Effective search space used: 46433509500 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 (21.8 bits) S2: 124 (52.4 bits)