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= 0448.0003.p (180 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_347359.1| Transcriptional regulator, AcrR family [Clostri... 74 2e-12 ref|NP_346641.1| transcriptional regulator, TetR family [Strepto... 67 2e-10 ref|NP_347360.1| Transcriptional regulator, AcrR family [Clostri... 62 6e-09 ref|NP_267037.1| transcription regulator [Lactococcus lactis sub... 61 1e-08 ref|ZP_00046025.1| COG1309: Transcriptional regulator [Lactobaci... 61 1e-08 >ref|NP_347359.1| Transcriptional regulator, AcrR family [Clostridium acetobutylicum] pir||H96988 transcription regulator, AcrR family [imported] - Clostridium acetobutylicum gb|AAK78699.1| Transcriptional regulator, AcrR family [Clostridium acetobutylicum] Length = 185 Score = 73.6 bits (179), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 49/159 (30%), Positives = 82/159 (51%), Gaps = 14/159 (8%) Query: 24 LTNTLLVLLRDKPISDISISELCEGAGVGRVSFYRNYTEKEDILKAYIDLLFQSFMDEYH 83 +T +L LL +KP I+I+E+ A +GR +FYRN+ KED+L YI + +DEY Sbjct: 18 ITEAMLKLLAEKPYEKITITEIAYTAQLGRRTFYRNFASKEDVLDMYI----KGLIDEYI 73 Query: 84 NYSEGIERPLSDLIRALFTHIEDHLDFYRLLNERGLVYLLK---DVVVEICGLKPESSKI 140 N + + + + FT HLDF L+ + L++LL + + + + +KI Sbjct: 74 NLLKNEYLTIHNGAKVYFTFWSKHLDFLILMEKNNLLHLLLQRFNQYLPMIHKEVNENKI 133 Query: 141 EAYSKAFVAYTLY----GWVEV---WFQRGMKESATEMA 172 E ++ + Y L+ G+ + W Q G KE+ +MA Sbjct: 134 EKFNDRMLEYVLFFSAGGFWNILVKWLQDGAKETPDDMA 172 >ref|NP_346641.1| transcriptional regulator, TetR family [Streptococcus pneumoniae TIGR4] ref|NP_359631.1| Conserved hypothetical protein [Streptococcus pneumoniae R6] pir||H95260 transcription regulator, TetR family [imported] - Streptococcus pneumoniae (strain TIGR4) pir||E98126 conserved hypothetical protein spr2040 [imported] - Streptococcus pneumoniae (strain R6) gb|AAK76281.1| transcriptional regulator, TetR family [Streptococcus pneumoniae TIGR4] gb|AAL00842.1| Conserved hypothetical protein [Streptococcus pneumoniae R6] Length = 180 Score = 66.6 bits (161), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 48/182 (26%), Positives = 83/182 (45%), Gaps = 18/182 (9%) Query: 11 MSNQGRNAYVTERLTNTLLVLLRDKPISDISISELCEGAGVGRVSFYRNYTEKEDILKAY 70 M + + N ++ LL ++P IS +L E AG+ R SFY +Y +K D+++ Y Sbjct: 1 MQESNKRLKTKRTIENAMVQLLMEQPFDKISTVKLVEKAGISRSSFYTHYKDKYDMIEHY 60 Query: 71 IDLLFQSFMDEYHNYSEGIERPLSDLIRALFTHIEDHLDFYRLLNERGL----------- 119 LF +F + ++ D I +F ++E LL+E G Sbjct: 61 QSKLFHTFEYIFQKHAHHKR----DAILEVFEYLESEPLLAALLSENGTKEIQNFLRNKL 116 Query: 120 -VYLLKDVVVEICGLKPESSKIEAYSKAFVAYTLYGWVEVWFQRGMKESATEMAD-MFKN 177 + L D+ L ++++E YS ++ + L+G + W G KES+ E+ D + K Sbjct: 117 HIMLSTDLQKRFMQLNLNTTELE-YSSIYLTHALFGVCQTWIAHGKKESSQEITDFLMKM 175 Query: 178 LG 179 LG Sbjct: 176 LG 177 >ref|NP_347360.1| Transcriptional regulator, AcrR family [Clostridium acetobutylicum] pir||A96989 transcription regulator, AcrR family [imported] - Clostridium acetobutylicum gb|AAK78700.1| Transcriptional regulator, AcrR family [Clostridium acetobutylicum] Length = 185 Score = 62.0 bits (149), Expect = 6e-09, Method: Compositional matrix adjust. Identities = 47/177 (26%), Positives = 81/177 (45%), Gaps = 31/177 (17%) Query: 24 LTNTLLVLLRDKPISDISISELCEGAGVGRVSFYRNYTEKEDILKAYIDLLFQSFMDEYH 83 L LL L+R+KP S IS+ E+ + A + R +FYRN+ KED+L Y + LF+ Sbjct: 16 LVQALLDLMREKPYSSISVKEIADRAQLSRRTFYRNFKIKEDLLSEYFNYLFE------- 68 Query: 84 NYSEGIER----PLSDLIRALFTHIEDHLDFYRLLNERGLVYLLKDVVVEICGLKPESSK 139 +Y+E ++ ++D++ F H++ +LL + L YL ++ + P +K Sbjct: 69 DYTESLKELTVLSINDVLITYFEFWNKHINELKLLKQNHLFYL---IMEQANSFIPNINK 125 Query: 140 I-------------EAYSKAFVAYTLYGWVEVWFQRGMKESATEMADM----FKNLG 179 E Y + L+ + W R ++S EMA + F+N Sbjct: 126 FENVKWHDYDNHTEEEYIGLYSIGGLWNVLSNWIDRTDRQSPQEMAQIIIKAFRNFS 182 >ref|NP_267037.1| transcription regulator [Lactococcus lactis subsp. lactis] pir||A86735 transcription regulator [imported] - Lactococcus lactis subsp. lactis (strain IL1403) gb|AAK04979.1| transcriptional regulator [Lactococcus lactis subsp. lactis] gb|AAK08216.1| YjaD [Lactococcus lactis] Length = 177 Score = 61.2 bits (147), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 45/177 (25%), Positives = 86/177 (48%), Gaps = 19/177 (10%) Query: 11 MSNQGRNAYVTERLTNTLLVLLRDKPISDISISELCEGAGVGRVSFYRNYTEKEDILKAY 70 MSN R +L + ++ LL +K IS +EL + A V R SFY +Y +K D+++AY Sbjct: 1 MSNDSRKDRTKLQLRDAMIQLLGEKSFDQISTTELVKLAKVSRSSFYTHYQDKYDMIEAY 60 Query: 71 IDLLFQSFMDEYHNYSEGIERPLSDLIRALFTHIEDHLDFYRLLNERG-------LVYLL 123 LF++ + + I + + F ++ + + LL+E G ++ L Sbjct: 61 QRRLFETIQYVFEKNNGNIHATMLE----TFEFLKGNQIYAALLSENGSKEIHQFMLQKL 116 Query: 124 KDVVVEICGLKPESSKI------EAYSKAFVAYTLYGWVEVWFQRGMKESATEMADM 174 K+++ P+S + E Y+ + A ++G + W +R KE+ T++A++ Sbjct: 117 KELIQ--SSFFPQSKHLKLGKLGEIYATTYYANAIFGTTQSWIRRKQKETPTQIANL 171 >ref|ZP_00046025.1| COG1309: Transcriptional regulator [Lactobacillus gasseri] Length = 172 Score = 60.8 bits (146), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 32/100 (32%), Positives = 55/100 (55%), Gaps = 7/100 (7%) Query: 22 ERLTNTLLVLLRDKPISDISISELCEGAGVGRVSFYRNYTEKEDILKAYIDLLFQSFMDE 81 ++ N L LL++ P +SIS++ + AGV R++FYRNY +K+ IL ++ +Q+F+D+ Sbjct: 10 HQIENALFSLLKNHPYDSLSISQITKHAGVSRMAFYRNYEQKDQILITFLRSQYQNFIDD 69 Query: 82 --YHNYSEGIERPLSDLIRALFTHIEDHLDFYRLLNERGL 119 H ++ D + F +DH D +L GL Sbjct: 70 LSMHKLTD-----FKDQLAVYFKFFKDHPDLMKLFLNAGL 104 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 0.138 0.399 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: 257,700,787 Number of extensions: 10273742 Number of successful extensions: 28238 Number of sequences better than 1.0e-05: 15 Number of HSP's gapped: 28251 Number of HSP's successfully gapped: 15 Length of query: 180 Length of database: 757,237,578 Length adjustment: 118 Effective length of query: 62 Effective length of database: 436,855,896 Effective search space: 27085065552 Effective search space used: 27085065552 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: 122 (51.6 bits)