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= 0599.0022.p (227 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_267670.1| transcription regulator [Lactococcus lactis sub... 99 5e-20 ref|NP_814532.1| transcriptional regulator, TetR family [Enteroc... 89 1e-16 gb|AAS17729.1| tetracycline repressor protein [Escherichia coli] 82 1e-14 ref|NP_058294.1| tetracycline repressor protein [Salmonella typh... 80 4e-14 ref|NP_052930.1| repressor of tet operon [Plasmid R100] >gi|3247... 80 5e-14 >ref|NP_267670.1| transcription regulator [Lactococcus lactis subsp. lactis] pir||B86814 transcription regulator [imported] - Lactococcus lactis subsp. lactis (strain IL1403) gb|AAK05612.1| transcriptional regulator [Lactococcus lactis subsp. lactis] Length = 208 Score = 99.4 bits (246), Expect = 5e-20, Method: Compositional matrix adjust. Identities = 68/221 (30%), Positives = 118/221 (53%), Gaps = 23/221 (10%) Query: 8 QISEDRILEASWELLGEEDIEKFSMRRLADRLGIQAPSLYWYFKSKQNLYQRLANQVS-K 66 Q ++D+I+ +SWELL E + +FSMR+LA RLG+ SLY++F SK+ L+ L ++ S + Sbjct: 4 QPTKDKIISSSWELLEELTLTEFSMRKLASRLGMTVSSLYYHFSSKEALFAELIDKASLE 63 Query: 67 IILEEFHSEGDWKEQLTGLAVTVRSVLSRYPCSTQLMMMTLPHEPDIIRFTNRMLLCVES 126 II +E W+++L + +VL YP QLMM P + +R +++L+ V+ Sbjct: 64 IIFPA--NEKTWQDRLFVYGKNIYTVLESYPNLAQLMMDYPPESENYLRLFDKLLMIVDD 121 Query: 127 TPLEQAQKMQVVTTLVNYVFYFVLDD----YQHERNVSAILKEQGAAPGEEVIRLLDSMS 182 L K + +N+++ +D QHE+ +S + P ++ LD Sbjct: 122 LKLSDDHKFYTINLFLNFIYTSKIDSDRLVEQHEKPLSTV-----KIPLVQLAPFLDKYW 176 Query: 183 DTDAGLFRRLFTNGLFELMGTDGAFEFGLKLILLGIEQVIK 223 T++ +G+ +FEFGL+LI+ GIE+++K Sbjct: 177 RTES-----------LTSLGSSESFEFGLQLIISGIEKMLK 206 >ref|NP_814532.1| transcriptional regulator, TetR family [Enterococcus faecalis V583] gb|AAO80602.1| transcriptional regulator, TetR family [Enterococcus faecalis V583] Length = 220 Score = 88.6 bits (218), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 53/185 (28%), Positives = 98/185 (52%), Gaps = 11/185 (5%) Query: 6 QPQISEDRILEASWELLGEE-DIEKFSMRRLADRLGIQAPSLYWYFKSKQNLYQRLANQV 64 +P++S+D I+ A++ LL + +E+ SMR++A +LG+QAP++YWYFK+KQ L Q +A + Sbjct: 2 EPKLSKDTIIAAAFSLLEKSPTLEQLSMRKVAKQLGVQAPAIYWYFKNKQALLQSMAEAI 61 Query: 65 SKIILEEFHSE----GDWKEQLTGLAVTVRSVLSRYPCSTQLMMMTLPHEPDIIRFTNRM 120 EE E G+W L + ++PC+ + + T+P P +R N+M Sbjct: 62 -----EEHFQEPALCGEWYSDLLAFMENYYDLYQQFPCAVAIEIQTVPAYPQRLRHLNQM 116 Query: 121 LLCVESTPLEQAQKMQVVTTLVNYVFYFVLDDYQHERNVSAILKEQGAAPGEEVIRLLDS 180 + + VT+L + +F ++D + ++ VS +L E+V+ + Sbjct: 117 MGILREAGFSPEMTHLAVTSLQHLLFGMIMDATEEKQLVSQVLNGDDYL-KEQVLHMKQY 175 Query: 181 MSDTD 185 +SD + Sbjct: 176 VSDNE 180 >gb|AAS17729.1| tetracycline repressor protein [Escherichia coli] Length = 208 Score = 81.6 bits (200), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 62/223 (27%), Positives = 113/223 (50%), Gaps = 30/223 (13%) Query: 8 QISEDRILEASWELLGEEDIEKFSMRRLADRLGIQAPSLYWYFKSKQNLYQRLANQVSKI 67 ++ + +++ ++ ELL E IE R+LA +LG++ P+LYW+ K+K+ L LA + Sbjct: 4 RLDKSKVINSALELLNEVGIEGLKTRKLAQKLGVEQPTLYWHVKNKRALLDALAIE---- 59 Query: 68 ILEEFHS-----EGD-WKEQLTGLAVTVRSVLSRYPCSTQLMMMTLPHEPDIIRFTNRM- 120 +L+ H+ EG+ W++ L A + R L + ++ + T P E N++ Sbjct: 60 MLDRHHTHFCPLEGESWQDFLRNNAKSFRCALLSHRDGAKVHLGTRPTEKQYETLENQLA 119 Query: 121 LLCVESTPLEQAQKMQVVTTLVNYVFYFVLDDYQHERNVSAILKEQGAAPGEEVIRLLDS 180 LC + LE A + ++ + ++ VL+D +H+ + KE+ P Sbjct: 120 FLCQQGFSLENA--LYALSAVGHFTLGCVLEDQEHQ-----VAKEERETP---------- 162 Query: 181 MSDTDAGLFRRLFTNGLFELMGTDGAFEFGLKLILLGIEQVIK 223 +D+ L R+ LFE G + AF FGL+LI+ G+E+ +K Sbjct: 163 TTDSMPALLRQAIE--LFEHQGAEPAFLFGLELIICGLEKQLK 203 >ref|NP_058294.1| tetracycline repressor protein [Salmonella typhi] ref|NP_569430.1| tetracycline repressor protein [Salmonella enterica subsp. enterica serovar Typhi] gb|AAC32395.1| tetracycline repressor protein [Expression vector pSKAP/S] gb|AAD50246.1| TetR [Shigella flexneri] gb|AAF68935.1| tetracycline repressor protein [Salmonella typhi] gb|AAF69919.1| tetracycline repressor protein [Salmonella typhi] emb|CAD09823.1| tetracycline repressor protein [Salmonella enterica subsp. enterica serovar Typhi] gb|AAN77729.1| TetR [Salmonella typhi] Length = 208 Score = 79.7 bits (195), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 61/223 (27%), Positives = 114/223 (51%), Gaps = 30/223 (13%) Query: 8 QISEDRILEASWELLGEEDIEKFSMRRLADRLGIQAPSLYWYFKSKQNLYQRLANQVSKI 67 ++ + +++ ++ ELL E IE + R+LA +LG++ P+LYW+ K+K+ L LA + Sbjct: 4 RLDKSKVINSALELLNEVGIEGLTTRKLAQKLGVEQPTLYWHVKNKRALLDALAIE---- 59 Query: 68 ILEEFHS-----EGD-WKEQLTGLAVTVRSVLSRYPCSTQLMMMTLPHEPDIIRFTNRM- 120 +L+ H+ EG+ W++ L A + R L + ++ + T P E N++ Sbjct: 60 MLDRHHTHFCPLEGESWQDFLRNNAKSFRCALLSHRDGAKVHLGTRPTEKQYETLENQLA 119 Query: 121 LLCVESTPLEQAQKMQVVTTLVNYVFYFVLDDYQHERNVSAILKEQGAAPGEEVIRLLDS 180 LC + LE A + ++ + ++ VL+D +H+ + KE+ P Sbjct: 120 FLCQQGFSLENA--LYALSAVGHFTLGCVLEDQEHQ-----VAKEERETP---------- 162 Query: 181 MSDTDAGLFRRLFTNGLFELMGTDGAFEFGLKLILLGIEQVIK 223 +D+ L R+ LF+ G + AF FGL+LI+ G+E+ +K Sbjct: 163 TTDSMPPLLRQAIE--LFDHQGAEPAFLFGLELIICGLEKQLK 203 >ref|NP_052930.1| repressor of tet operon [Plasmid R100] ref|NP_863369.1| tetR [Salmonella typhimurium] ref|NP_941292.1| Tetracycline repressor protein class B from transposon tn10 [Serratia marcescens] sp|P04483|TER2_ECOLI Tetracycline repressor protein class B from transposon Tn10 pir||RPECTN repressor tetR - Escherichia coli transposon Tn10 emb|CAA25291.1| unnamed protein product [Escherichia coli] gb|AAB59093.1| tetracycline repressor protein [Transposon Tn10] dbj|BAA78834.1| repressor of tet operon [Plasmid R100] emb|CAB46265.1| tetracyclin resistance repressor protein [Cloning vector pYanni5] gb|AAD51643.1| tetracycline repressor [Cloning vector pST98-AS] gb|AAF75608.1| Tn10 tetracycline repressor protein TetR [Filamentous phage cloning vector fd-tet] emb|CAC44637.1| tet repressor protein [Pasteurella aerogenes] gb|AAK96245.1| tetracycline repressor [Expression vector pSTKST] dbj|BAB91577.1| tetR [Salmonella typhimurium] gb|AAM73893.1| Tn10 tetracycline repressor protein TetR [Filamentous phage display vector f8-5] emb|CAE51748.1| Tetracycline repressor protein class B from transposon tn10 [Serratia marcescens] Length = 207 Score = 79.7 bits (195), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 61/223 (27%), Positives = 114/223 (51%), Gaps = 30/223 (13%) Query: 8 QISEDRILEASWELLGEEDIEKFSMRRLADRLGIQAPSLYWYFKSKQNLYQRLANQVSKI 67 ++ + +++ ++ ELL E IE + R+LA +LG++ P+LYW+ K+K+ L LA + Sbjct: 3 RLDKSKVINSALELLNEVGIEGLTTRKLAQKLGVEQPTLYWHVKNKRALLDALAIE---- 58 Query: 68 ILEEFHS-----EGD-WKEQLTGLAVTVRSVLSRYPCSTQLMMMTLPHEPDIIRFTNRM- 120 +L+ H+ EG+ W++ L A + R L + ++ + T P E N++ Sbjct: 59 MLDRHHTHFCPLEGESWQDFLRNNAKSFRCALLSHRDGAKVHLGTRPTEKQYETLENQLA 118 Query: 121 LLCVESTPLEQAQKMQVVTTLVNYVFYFVLDDYQHERNVSAILKEQGAAPGEEVIRLLDS 180 LC + LE A + ++ + ++ VL+D +H+ + KE+ P Sbjct: 119 FLCQQGFSLENA--LYALSAVGHFTLGCVLEDQEHQ-----VAKEERETP---------- 161 Query: 181 MSDTDAGLFRRLFTNGLFELMGTDGAFEFGLKLILLGIEQVIK 223 +D+ L R+ LF+ G + AF FGL+LI+ G+E+ +K Sbjct: 162 TTDSMPPLLRQAIE--LFDHQGAEPAFLFGLELIICGLEKQLK 202 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 0.136 0.391 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: 315,919,446 Number of extensions: 12041196 Number of successful extensions: 40012 Number of sequences better than 1.0e-05: 65 Number of HSP's gapped: 39995 Number of HSP's successfully gapped: 65 Length of query: 227 Length of database: 757,237,578 Length adjustment: 121 Effective length of query: 106 Effective length of database: 428,710,599 Effective search space: 45443323494 Effective search space used: 45443323494 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: 124 (52.4 bits)