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= 0462.0006.p (201 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_00098809.1| COG1309: Transcriptional regulator [Desulfito... 85 1e-15 ref|NP_390733.1| similar to transcriptional regulator (TetR/AcrR... 70 3e-11 ref|NP_658552.1| tetR, Bacterial regulatory proteins, tetR famil... 69 8e-11 ref|NP_834233.1| Transcriptional regulator, TetR family [Bacillu... 69 8e-11 pdb|1VI0|A Chain A, Crystal Structure Of A Transcriptional Regul... 68 1e-10 >ref|ZP_00098809.1| COG1309: Transcriptional regulator [Desulfitobacterium hafniense] Length = 186 Score = 84.7 bits (208), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 56/184 (30%), Positives = 92/184 (50%), Gaps = 14/184 (7%) Query: 12 ILDAAYELFGSGGFYETKISEVAERAGIAKGTVYLYFKNKEELFMAVTRRDCEGFLQQLE 71 +LDAA E F G++ ++S++A AG+A GT+YLYFKNKE++ + + F+Q + Sbjct: 1 MLDAAIEAFAEVGYHSCQVSKIARIAGVADGTIYLYFKNKEDILIRLFTERMGDFIQLIR 60 Query: 72 AKLQACSSLTGKLSVIAEHHLFYYYERK---QHTKLFFRAPNNNPELVAYMALFMEEYMK 128 +++++C +L I HL + + T++ R PN+N L + +A+ + EY + Sbjct: 61 SRMESCQDTRSRLRAIVHTHLTHMENNRALATVTQVELRQPNSN--LYSAIAVPLREYFR 118 Query: 129 AVVMVLLEGGASE---PEL----MAQSYIGMLDRLKMDILFDPFFTEEEAHKRAKFAASL 181 V V+ EG + P L Q G +DR D +F +E K A L Sbjct: 119 LVEEVIEEGIKQQEIIPSLNIHVARQMIFGTIDRATTDWVFAR--SERSLSKEADCMLEL 176 Query: 182 FIGG 185 F G Sbjct: 177 FSGA 180 >ref|NP_390733.1| similar to transcriptional regulator (TetR/AcrR family) [Bacillus subtilis] pir||F69985 transcription regulator TetR/AcrR family homolog ysiA - Bacillus subtilis emb|CAA99572.1| hypothetical protein [Bacillus subtilis] emb|CAB14815.1| ysiA [Bacillus subtilis subsp. subtilis str. 168] Length = 194 Score = 70.1 bits (170), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 27/84 (32%), Positives = 59/84 (70%) Query: 8 KHTAILDAAYELFGSGGFYETKISEVAERAGIAKGTVYLYFKNKEELFMAVTRRDCEGFL 67 K+ I+DAA E+ G++++++S++A++AG+A GT+YLYFKNKE++ +++ + F+ Sbjct: 7 KYMQIIDAAVEVIAENGYHQSQVSKIAKQAGVADGTIYLYFKNKEDILISLFKEKMGQFI 66 Query: 68 QQLEAKLQACSSLTGKLSVIAEHH 91 +++E ++ ++ KL+++ H Sbjct: 67 ERMEEDIKEKATAKEKLALVISKH 90 >ref|NP_658552.1| tetR, Bacterial regulatory proteins, tetR family [Bacillus anthracis A2012] ref|NP_846968.1| transcriptional regulator, TetR family [Bacillus anthracis str. Ames] gb|AAP28454.1| transcriptional regulator, TetR family [Bacillus anthracis str. Ames] Length = 195 Score = 68.6 bits (166), Expect = 8e-11, Method: Compositional matrix adjust. Identities = 41/145 (28%), Positives = 75/145 (51%), Gaps = 12/145 (8%) Query: 8 KHTAILDAAYELFGSGGFYETKISEVAERAGIAKGTVYLYFKNKEELFMAVTRRDCEGFL 67 K+ I+DAA + G+++ ++S++A++AG+A GT+YLYFKNKE++ +++ + F+ Sbjct: 7 KYNQIIDAAVIVIAENGYHQAQVSKIAKQAGVADGTIYLYFKNKEDILISLFQEKMGEFV 66 Query: 68 QQLEAKLQACSSLTGKLSVIAEHHLFYYYERKQH---TKLFFRAPNNNPELVAYMALFME 124 + + K S KL ++ E H + T+L R N + + L + Sbjct: 67 ETIRQKTAGIESAVSKLFMLVETHFLLLSQNDPLAIVTQLELRQSNQD------LRLKIN 120 Query: 125 EYMKAVVMV---LLEGGASEPELMA 146 E +K + V +LE G + E A Sbjct: 121 EVLKGYLQVIDEILETGIKQGEFQA 145 >ref|NP_834233.1| Transcriptional regulator, TetR family [Bacillus cereus ATCC 14579] gb|AAP11434.1| Transcriptional regulator, TetR family [Bacillus cereus ATCC 14579] Length = 195 Score = 68.6 bits (166), Expect = 8e-11, Method: Compositional matrix adjust. Identities = 41/145 (28%), Positives = 75/145 (51%), Gaps = 12/145 (8%) Query: 8 KHTAILDAAYELFGSGGFYETKISEVAERAGIAKGTVYLYFKNKEELFMAVTRRDCEGFL 67 K+ I+DAA + G+++ ++S++A++AG+A GT+YLYFKNKE++ +++ + F+ Sbjct: 7 KYNQIIDAAVIVIAENGYHQAQVSKIAKQAGVADGTIYLYFKNKEDILISLFQEKMGEFV 66 Query: 68 QQLEAKLQACSSLTGKLSVIAEHHLFYYYERKQH---TKLFFRAPNNNPELVAYMALFME 124 + + K S KL ++ E H + T+L R N + + L + Sbjct: 67 ETIRQKTAGIESAVSKLFMLVETHFLLLSQNDPLAIVTQLELRQSNQD------LRLKIN 120 Query: 125 EYMKAVVMV---LLEGGASEPELMA 146 E +K + V +LE G + E A Sbjct: 121 EVLKGYLQVMDEILETGIKQGEFQA 145 >pdb|1VI0|A Chain A, Crystal Structure Of A Transcriptional Regulator pdb|1VI0|B Chain B, Crystal Structure Of A Transcriptional Regulator Length = 206 Score = 68.2 bits (165), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 43/157 (27%), Positives = 85/157 (54%), Gaps = 12/157 (7%) Query: 8 KHTAILDAAYELFGSGGFYETKISEVAERAGIAKGTVYLYFKNKEELFMAVTRRDCEGFL 67 K+ I+DAA E+ G++++++S++A++AG+A GT+YLYFKNKE++ +++ + F+ Sbjct: 9 KYXQIIDAAVEVIAENGYHQSQVSKIAKQAGVADGTIYLYFKNKEDILISLFKEKXGQFI 68 Query: 68 QQLEAKLQACSSLTGKLSVIAEHH---LFYYYERKQHTKLFFRAPNNNPELVAYMALFME 124 ++ E ++ ++ KL+++ H L + T+L R +N EL + ++ Sbjct: 69 ERXEEDIKEKATAKEKLALVISKHFSLLAGDHNLAIVTQLELR--QSNLELRQKINEILK 126 Query: 125 EYMKAVVMVLLEGGAS-------EPELMAQSYIGMLD 154 Y+ + +L EG S + L Q G +D Sbjct: 127 GYLNILDGILTEGIQSGEIKEGLDVRLARQXIFGTID 163 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 0.321 0.135 0.387 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: 278,488,163 Number of extensions: 10049958 Number of successful extensions: 26511 Number of sequences better than 1.0e-05: 106 Number of HSP's gapped: 26559 Number of HSP's successfully gapped: 106 Length of query: 201 Length of database: 757,237,578 Length adjustment: 120 Effective length of query: 81 Effective length of database: 431,425,698 Effective search space: 34945481538 Effective search space used: 34945481538 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 (21.9 bits) S2: 123 (52.0 bits)