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= 0405.0005.p (200 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value Q65NQ6.1 Q65NQ6_BACLD Transcriptional regulator 191 4e-47 B1D4X2.1 B1D4X2_9BACL Transcriptional regulator, TetR family 148 2e-34 A4IN44.1 A4IN44_GEOTN Transcriptional regulator TetR family 118 4e-25 B4BKA5.1 B4BKA5_9BACI Transcriptional regulator, TetR family 118 4e-25 C2W8H0.1 C2W8H0_BACCE Transcriptional regulator (TetR family) 94 9e-18 >Q65NQ6.1 Q65NQ6_BACLD Transcriptional regulator Length = 195 Score = 191 bits (484), Expect = 4e-47, Method: Compositional matrix adjust. Identities = 95/198 (47%), Positives = 136/198 (68%), Gaps = 6/198 (3%) Query: 1 MNGFEKRAALIKSKIMKTTMELLKTWEIKKLRIADIAKAAGVSQVTIYNYFGSKEALISE 60 MNGFEKRA LIK KI KT +++LKTWE K++RI DIAK A VSQVTIYNYFGSKEAL+ E Sbjct: 1 MNGFEKRALLIKEKIKKTALDMLKTWEPKRIRITDIAKEANVSQVTIYNYFGSKEALLKE 60 Query: 61 SFKDFVXXXXXXXXXXMRQQKTLKERITYFIFKDKETYS-TLDPALVKEIMFDDEAMYQY 119 FKD++ M + ++KE+I I + + + ++KE+M +D + Y Sbjct: 61 VFKDYIDQSISEFEEYMNKDISVKEKIELMILQKRAANNQKFALTVIKEVMIEDSEIMDY 120 Query: 120 IQQQYDDRVMPLMVQMVEEGKASGEISQKVSMEAVLVMIQMYIKSSGEMLDSVAKHEDKN 179 ++QQYD++++PLM+QM+EEG +GEIS K++ E+ L+ + M I+ S ++ K +KN Sbjct: 121 VKQQYDEKIIPLMLQMIEEGHRTGEISSKITAESFLIFMNMIIEHS----KTLGKAFEKN 176 Query: 180 Q-FLDELFHIFFYGLCGR 196 + F +E+ HIFFYGLCGR Sbjct: 177 RKFTEEMLHIFFYGLCGR 194 >B1D4X2.1 B1D4X2_9BACL Transcriptional regulator, TetR family Length = 200 Score = 148 bits (374), Expect = 2e-34, Method: Compositional matrix adjust. Identities = 84/199 (42%), Positives = 117/199 (58%) Query: 1 MNGFEKRAALIKSKIMKTTMELLKTWEIKKLRIADIAKAAGVSQVTIYNYFGSKEALISE 60 MNGFEKRA +K+KI + +L+ E K +RIADIA AGVSQVTIYNYFGSKE LI E Sbjct: 1 MNGFEKRAEQLKAKIRDAVLAMLQGCEPKYIRIADIAAEAGVSQVTIYNYFGSKEILIRE 60 Query: 61 SFKDFVXXXXXXXXXXMRQQKTLKERITYFIFKDKETYSTLDPALVKEIMFDDEAMYQYI 120 +FK +V M + T ++ + Y + D E + P ++++M D A YI Sbjct: 61 AFKHYVTEHVDDFEMFMSRGPTFQQFVEYVVKADTEAFRRFTPEFIQQMMSGDPAFADYI 120 Query: 121 QQQYDDRVMPLMVQMVEEGKASGEISQKVSMEAVLVMIQMYIKSSGEMLDSVAKHEDKNQ 180 + R MPLM +EE K G+IS KVS + +L + M++ S ++L+ + Q Sbjct: 121 DEVTQRRAMPLMHAFIEECKQRGQISDKVSTQMILTYVNMFVAQSQKLLEEAQQSGKGEQ 180 Query: 181 FLDELFHIFFYGLCGREPE 199 F +E H+FFYG+CG EPE Sbjct: 181 FFEEFLHLFFYGVCGIEPE 199 >A4IN44.1 A4IN44_GEOTN Transcriptional regulator TetR family Length = 195 Score = 118 bits (295), Expect = 4e-25, Method: Compositional matrix adjust. Identities = 62/195 (31%), Positives = 113/195 (57%), Gaps = 4/195 (2%) Query: 1 MNGFEKRAALIKSKIMKTTMELLKTWEIKKLRIADIAKAAGVSQVTIYNYFGSKEALISE 60 MNGF KR K I +T +ELL+T + + + I IAK A VS VTIYNYFGSKE L+ E Sbjct: 1 MNGFAKRTEQKKQAIKQTVLELLRTSDPRGMTIQMIAKQANVSPVTIYNYFGSKEHLVRE 60 Query: 61 SFKDFVXXXXXXXXXXMRQQKTLKERITYFIFKDKETYSTLDPALVKEIMFDDEAMYQYI 120 + D++ +++ ++ E++ Y IF+ K+ + + ++ +D+ + + Sbjct: 61 TLIDYMIRQVEEYEAFLKEDRSFAEKVKYIIFQKKKVLGEIQVDFIHRLIKEDDEFRRSV 120 Query: 121 QQQYDDRVMPLMVQMVEEGKASGEISQKVSMEAVLVMIQMYIKSSGEMLDSVAKHEDKNQ 180 Y+ RV+PL+++M+ E + +GEI+ +S++ +L+ + ++ S ++ S+ + Sbjct: 121 DVLYETRVLPLVIEMIREAQENGEIAPYLSIDTLLLYLNLWRDVSEKIPVSLYSE----R 176 Query: 181 FLDELFHIFFYGLCG 195 +DEL +FFYG+ G Sbjct: 177 LIDELLLLFFYGVKG 191 >B4BKA5.1 B4BKA5_9BACI Transcriptional regulator, TetR family Length = 195 Score = 118 bits (295), Expect = 4e-25, Method: Compositional matrix adjust. Identities = 62/195 (31%), Positives = 113/195 (57%), Gaps = 4/195 (2%) Query: 1 MNGFEKRAALIKSKIMKTTMELLKTWEIKKLRIADIAKAAGVSQVTIYNYFGSKEALISE 60 MNGF KR K I +T +ELL+T + + + I IAK A VS VTIYNYFGSKE L+ E Sbjct: 1 MNGFAKRTEQKKQAIKQTVLELLRTSDPRGMTIQMIAKQANVSPVTIYNYFGSKEHLVRE 60 Query: 61 SFKDFVXXXXXXXXXXMRQQKTLKERITYFIFKDKETYSTLDPALVKEIMFDDEAMYQYI 120 + D++ +++ ++ E++ Y IF+ K+ + + ++ +D+ + + Sbjct: 61 TLIDYMIRQVEEYEAFLKEDRSFAEKVKYIIFQKKKVLGEIQVDFIHRLIKEDDEFRRSV 120 Query: 121 QQQYDDRVMPLMVQMVEEGKASGEISQKVSMEAVLVMIQMYIKSSGEMLDSVAKHEDKNQ 180 Y+ RV+PL+++M+ E + +GEI+ +S++ +L+ + ++ S ++ S+ + Sbjct: 121 DVLYETRVLPLVIEMIREAQENGEIAPYLSIDTLLLYLNLWRDVSEKIPVSLYSE----R 176 Query: 181 FLDELFHIFFYGLCG 195 +DEL +FFYG+ G Sbjct: 177 LIDELLLLFFYGVKG 191 >C2W8H0.1 C2W8H0_BACCE Transcriptional regulator (TetR family) Length = 196 Score = 93.6 bits (231), Expect = 9e-18, Method: Compositional matrix adjust. Identities = 59/200 (29%), Positives = 97/200 (48%), Gaps = 4/200 (2%) Query: 1 MNGFEKRAALIKSKIMKTTMELLKTWEIKKLRIADIAKAAGVSQVTIYNYFGSKEALISE 60 M+GF++R K I++ + L + ++K+ IA+IAK A VSQVTIYNYF SK L E Sbjct: 1 MDGFQRRREKKKINILEAALTLFTEYGVQKISIAEIAKKANVSQVTIYNYFESKHNLTHE 60 Query: 61 SFKDFVXXXXXXXXXXMRQQKTLKERITYFIFKDKETYSTLDPALVKEIMFDDEAMYQYI 120 F V + E+I IF KE + + +M + + Y+ Sbjct: 61 VFMYSVNQAFEEFEQILNSDVPFPEKIKQLIFMKKEAVKHMHQDFYENLMKEYTSSSNYL 120 Query: 121 QQQYDDRVMPLMVQMVEEGKASGEISQKVSMEAVLVMIQMYIKSSGEMLDSVAKHEDKNQ 180 Q+ Y +P V + EGK G + +S EA+L Y+++ E + +++ Sbjct: 121 QELYVKEALPRFVSLFNEGKEQGYVDPSLSNEAIL----FYMQAINEYIQRKDVYQNILP 176 Query: 181 FLDELFHIFFYGLCGREPEE 200 +++ +I FYG+ G+E E Sbjct: 177 LTEDIMNILFYGIIGKEKTE 196 Database: pfamseq Posted date: Aug 5, 2010 3:22 PM Number of letters in database: 3,060,696,203 Number of sequences in database: 9,421,015 Lambda K H 0.320 0.134 0.367 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 9421015 Number of Hits to DB: 961,981,945 Number of extensions: 31225759 Number of successful extensions: 113539 Number of sequences better than 1.0e-05: 129 Number of HSP's gapped: 113756 Number of HSP's successfully gapped: 129 Length of query: 200 Length of database: 3,060,696,203 Length adjustment: 129 Effective length of query: 71 Effective length of database: 1,845,385,268 Effective search space: 131022354028 Effective search space used: 131022354028 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: 128 (53.9 bits)