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= 0284.0014.p (166 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B1DBI2.1 B1DBI2_9BACL Two component transcriptional regulator, A... 139 7e-32 B3KA98.1 B3KA98_9BACI Response regulator receiver 122 1e-26 O31517.1 YESN_BACSU Uncharacterized transcriptional regulatory p... 110 3e-23 B1D8N5.1 B1D8N5_9BACL Two component transcriptional regulator, A... 110 3e-23 B0MFL4.1 B0MFL4_9FIRM Putative uncharacterized protein 108 1e-22 >B1DBI2.1 B1DBI2_9BACL Two component transcriptional regulator, AraC family Length = 533 Score = 139 bits (351), Expect = 7e-32, Method: Compositional matrix adjust. Identities = 68/160 (42%), Positives = 108/160 (67%), Gaps = 4/160 (2%) Query: 2 VYKVVLADDHFPVLEYLCASIPWDTLGLELSASCSDGKQAWEACLLHQPDILLTDIGMPA 61 +YKV+L DD +PV+E L + W+ LGL LS +G AWE PDIL+TDIGMP Sbjct: 1 MYKVMLVDDDYPVIELLSEVVDWEKLGLVLSGKHENGLAAWEHVQEEIPDILVTDIGMPK 60 Query: 62 MDGLELIQKAREVNPQLQTIILSCHGEFEYAQKAVKLNVAEYILKENLQIDQVISVLTEA 121 MDGLEL Q+ +++NP ++ +ILSCH EF+YAQ+A++L+V +Y+LK+ L +++I +L + Sbjct: 61 MDGLELAQRVKKLNPSVRIVILSCHSEFQYAQQAMRLDVQDYLLKDQLDPEELIGLLQKF 120 Query: 122 VSRL--EVKMISKNNYLQMQKLVSQNHSAIRTRYIRMFVE 159 E +M+S+ N +M+++VS++ + + R FV+ Sbjct: 121 KEGFDGERQMLSEQN--KMKRMVSESQDLRKEKLFREFVQ 158 >B3KA98.1 B3KA98_9BACI Response regulator receiver Length = 540 Score = 122 bits (305), Expect = 1e-26, Method: Compositional matrix adjust. Identities = 56/117 (47%), Positives = 80/117 (68%) Query: 2 VYKVVLADDHFPVLEYLCASIPWDTLGLELSASCSDGKQAWEACLLHQPDILLTDIGMPA 61 +Y V+L DD +PV+E L +I W+ LGL L S +G AWE PDIL+TDIGMP Sbjct: 1 MYNVMLVDDDYPVIELLSEAISWNELGLNLMGSYENGMSAWEEARSSPPDILITDIGMPK 60 Query: 62 MDGLELIQKAREVNPQLQTIILSCHGEFEYAQKAVKLNVAEYILKENLQIDQVISVL 118 M+GLEL + +EV ++ ILSCH EF+YAQ+A++LNV +Y+LK+ L +++ +L Sbjct: 61 MNGLELSARIKEVKADVRIAILSCHNEFQYAQQAMRLNVQDYLLKDTLDPEELAQLL 117 >O31517.1 YESN_BACSU Uncharacterized transcriptional regulatory protein yesN Length = 368 Score = 110 bits (276), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 59/158 (37%), Positives = 94/158 (59%), Gaps = 3/158 (1%) Query: 2 VYKVVLADDHFPVLEYLCASIPWDTLGLELSASCSDGKQAWEACLLHQPDILLTDIGMPA 61 +YK++LADD +L+ + I W++LG L +G +A+E + QP I++TD+ MP Sbjct: 1 MYKILLADDERIILDGMAGIIEWESLGASLIGKAQNGHEAYEKIVHKQPHIVITDVKMPG 60 Query: 62 MDGLELIQKAREVNPQLQTIILSCHGEFEYAQKAVKLNVAEYILKE-NLQIDQVISVLTE 120 MDGLELI+K V+P +Q I+LS GEFEYA++A+K V Y+LK N Q Q+IS L E Sbjct: 61 MDGLELIKKVSAVSPSVQFIVLSGFGEFEYAKEAMKYGVKHYLLKPCNEQ--QIISSLEE 118 Query: 121 AVSRLEVKMISKNNYLQMQKLVSQNHSAIRTRYIRMFV 158 ++ L+ + + K ++ + S +Y+ + Sbjct: 119 IIAELKRQDVHKKKTAHLKHELDHIRSFAADQYLEGLI 156 >B1D8N5.1 B1D8N5_9BACL Two component transcriptional regulator, AraC family Length = 405 Score = 110 bits (276), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 48/115 (41%), Positives = 80/115 (69%) Query: 4 KVVLADDHFPVLEYLCASIPWDTLGLELSASCSDGKQAWEACLLHQPDILLTDIGMPAMD 63 KV++ADD V + L +++PW+ G+E+ + +G++AWEA L H+P +++TDI MP MD Sbjct: 8 KVLIADDESIVRKGLRSTVPWEKYGMEVVSDAPNGRKAWEAFLEHRPQVVITDIVMPEMD 67 Query: 64 GLELIQKAREVNPQLQTIILSCHGEFEYAQKAVKLNVAEYILKENLQIDQVISVL 118 G+EL +K +E P + I+LSCH +FEYAQ+ +KL + Y+LK + +++ +L Sbjct: 68 GIELSRKVKEAAPDTKIILLSCHRDFEYAQQGMKLGASGYLLKTAFEDEELEEML 122 >B0MFL4.1 B0MFL4_9FIRM Putative uncharacterized protein Length = 531 Score = 108 bits (271), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 53/157 (33%), Positives = 86/157 (54%) Query: 2 VYKVVLADDHFPVLEYLCASIPWDTLGLELSASCSDGKQAWEACLLHQPDILLTDIGMPA 61 +Y+ ++ DD F V YL W+ G E++A DG++A A PD+++TDI MP Sbjct: 7 MYRTMIVDDDFLVRSYLKQLDAWEKAGYEITADVRDGEEALHAVREQAPDVIVTDISMPL 66 Query: 62 MDGLELIQKAREVNPQLQTIILSCHGEFEYAQKAVKLNVAEYILKENLQIDQVISVLTEA 121 MDG+ELI+K RE+ I+LSCH +F Y ++A++L EY+LK +L D + VL A Sbjct: 67 MDGIELIRKVREMGLSAYIIVLSCHDDFNYVKEAMRLGANEYVLKNSLDEDSLFEVLKNA 126 Query: 122 VSRLEVKMISKNNYLQMQKLVSQNHSAIRTRYIRMFV 158 + + + +KL+ +++ R+ V Sbjct: 127 EHHMNSLKKRNSEEERTKKLIEAGSQSLKIRFFNEIV 163 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 0.321 0.135 0.392 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: 854,190,793 Number of extensions: 29903200 Number of successful extensions: 144621 Number of sequences better than 1.0e-05: 2716 Number of HSP's gapped: 147726 Number of HSP's successfully gapped: 2716 Length of query: 166 Length of database: 3,060,696,203 Length adjustment: 125 Effective length of query: 41 Effective length of database: 1,883,069,328 Effective search space: 77205842448 Effective search space used: 77205842448 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: 126 (53.1 bits)