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= 0327.0023.p (240 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 sp|P54662|DEGU_BACBR Transcriptional regulatory protein degU >gi... 258 6e-68 ref|NP_244495.1| two-component response regulator involved in de... 258 8e-68 ref|NP_391429.1| two-component response regulator [Bacillus subt... 246 4e-64 ref|NP_693440.1| two-component response regulator [Oceanobacillu... 245 5e-64 ref|NP_471988.1| similar to B. subtilis two-component response r... 244 2e-63 >sp|P54662|DEGU_BACBR Transcriptional regulatory protein degU pir||I39835 transcription activator - Bacillus brevis gb|AAC41439.1| transcriptional activator protein Length = 236 Score = 258 bits (660), Expect = 6e-68, Method: Compositional matrix adjust. Identities = 131/241 (54%), Positives = 176/241 (73%), Gaps = 10/241 (4%) Query: 3 NQSIGKSPIKVLLADDHQLFREGLKRILNMEEDIEVIGECGDGIQVLEFCNENKPDIVLM 62 N+ + ++ I++++ DDHQLFREG+KRIL ME + EV+ + DG +E + PD++LM Sbjct: 2 NEQVNENKIQIVIIDDHQLFREGVKRILAMEPEFEVVADGEDGENAVELVEKYNPDVILM 61 Query: 63 DINMPIENGVEATQKLREMFPDVKVIILSIHDDESYVFETLRKGANGYLLKDMEAESLIN 122 DINMP NGVEAT+ L + +PDVKV++LSIHDDESYV L+ GA+GYLLK+M+A++LI Sbjct: 62 DINMPKVNGVEATRDLIQRYPDVKVLVLSIHDDESYVTHVLKTGASGYLLKEMDADALIE 121 Query: 123 AIRSVCEGHAFIHPKVTGKLINQLRRMTYLNETGAIAETAVKEAGVKFVAGDNNP---LT 179 A++ V +G A+IHPKVT LI + RR+ +E + +E KE + P LT Sbjct: 122 AVKVVAQGGAYIHPKVTHNLIKEYRRLVNEDEQES-SEIGFKEVEYR------KPLHILT 174 Query: 180 RREAEVLRLMAEGKSNKMIGEYLFISEKTVKNHVSSILQKMEVDDRTQAVINSIKYGWVT 239 RRE EVL+LM +G SN+MIGE L+ISEKTVKNHVS+ILQKM V+DRTQAV+ SIK GWV Sbjct: 175 RRECEVLQLMTDGYSNRMIGEALYISEKTVKNHVSNILQKMNVNDRTQAVVESIKNGWVK 234 Query: 240 L 240 + Sbjct: 235 V 235 >ref|NP_244495.1| two-component response regulator involved in degradative enzyme [Bacillus halodurans] pir||D84103 two-component response regulator involved in degradative enzyme degU [imported] - Bacillus halodurans (strain C-125) dbj|BAB07347.1| two-component response regulator involved in degradative enzyme [Bacillus halodurans] Length = 236 Score = 258 bits (659), Expect = 8e-68, Method: Compositional matrix adjust. Identities = 131/241 (54%), Positives = 175/241 (72%), Gaps = 10/241 (4%) Query: 3 NQSIGKSPIKVLLADDHQLFREGLKRILNMEEDIEVIGECGDGIQVLEFCNENKPDIVLM 62 N+ + ++ I++++ DDHQLFREG+KRIL ME + EV+ + DG +E PD++LM Sbjct: 2 NEQVNENKIQIVIIDDHQLFREGVKRILAMEPEFEVVADGEDGENAVELVETYNPDVILM 61 Query: 63 DINMPIENGVEATQKLREMFPDVKVIILSIHDDESYVFETLRKGANGYLLKDMEAESLIN 122 DINMP NGVEAT+ L + +PDVKV++LSIHDDESYV L+ GA+GYLLK+M+A++LI Sbjct: 62 DINMPKVNGVEATRDLIQRYPDVKVLVLSIHDDESYVTHVLKTGASGYLLKEMDADALIE 121 Query: 123 AIRSVCEGHAFIHPKVTGKLINQLRRMTYLNETGAIAETAVKEAGVKFVAGDNNP---LT 179 A++ V +G A+IHPKVT LI + RR+ +E + +E KE + P LT Sbjct: 122 AVKVVAQGGAYIHPKVTHNLIKEYRRLVNEDEQES-SEIGFKEVEYR------KPLHILT 174 Query: 180 RREAEVLRLMAEGKSNKMIGEYLFISEKTVKNHVSSILQKMEVDDRTQAVINSIKYGWVT 239 RRE EVL+LM +G SN+MIGE L+ISEKTVKNHVS+ILQKM V+DRTQAV+ SIK GWV Sbjct: 175 RRECEVLQLMTDGYSNRMIGEALYISEKTVKNHVSNILQKMNVNDRTQAVVESIKNGWVK 234 Query: 240 L 240 + Sbjct: 235 V 235 >ref|NP_391429.1| two-component response regulator [Bacillus subtilis] sp|P13800|DEGU_BACSU Transcriptional regulatory protein degU (Protease production enhancer protein) pir||RGBSXD extracellular proteinase response regulator degU - Bacillus subtilis gb|AAA22545.1| iep protein gb|AAA22733.1| degU protein (gtg start codon) gb|AAA22735.1| protein kinase (put.); putative gb|AAC44938.1| transcriptional regulator of degradation enzymes emb|CAB15566.1| two-component response regulator [Bacillus subtilis subsp. subtilis str. 168] Length = 229 Score = 246 bits (627), Expect = 4e-64, Method: Compositional matrix adjust. Identities = 123/232 (53%), Positives = 168/232 (72%), Gaps = 5/232 (2%) Query: 9 SPIKVLLADDHQLFREGLKRILNMEEDIEVIGECGDGIQVLEFCNENKPDIVLMDINMPI 68 + + +++ DDHQLFREG+KRIL+ E EV+ E DG + PD+V+MDINMP Sbjct: 2 TKVNIVIIDDHQLFREGVKRILDFEPTFEVVAEGDDGDEAARIVEHYHPDVVIMDINMPN 61 Query: 69 ENGVEATQKLREMFPDVKVIILSIHDDESYVFETLRKGANGYLLKDMEAESLINAIRSVC 128 NGVEAT++L E++P+ KVIILSIHDDE+YV L+ GA GYLLK+M+A++LI A++ V Sbjct: 62 VNGVEATKQLVELYPESKVIILSIHDDENYVTHALKTGARGYLLKEMDADTLIEAVKVVA 121 Query: 129 EGHAFIHPKVTGKLINQLRRMTYLNETGAIAETAVKEAGVKFVAGDNNPLTRREAEVLRL 188 EG +++HPKVT L+N+ RR+ T ++ E + + + LTRRE EVL++ Sbjct: 122 EGGSYLHPKVTHNLVNEFRRLA----TSGVSAHPQHEVYPE-IRRPLHILTRRECEVLQM 176 Query: 189 MAEGKSNKMIGEYLFISEKTVKNHVSSILQKMEVDDRTQAVINSIKYGWVTL 240 +A+GKSN+ IGE LFISEKTVKNHVS+ILQKM V+DRTQAV+ +IK GWV + Sbjct: 177 LADGKSNRGIGESLFISEKTVKNHVSNILQKMNVNDRTQAVVVAIKNGWVEM 228 >ref|NP_693440.1| two-component response regulator [Oceanobacillus iheyensis HTE831] dbj|BAC14475.1| two-component response regulator involved in degradative enzyme [Oceanobacillus iheyensis HTE831] Length = 230 Score = 245 bits (626), Expect = 5e-64, Method: Compositional matrix adjust. Identities = 120/236 (50%), Positives = 170/236 (72%), Gaps = 13/236 (5%) Query: 6 IGKSPIKVLLADDHQLFREGLKRILNMEEDIEVIGECGDGIQVLEFCNENKPDIVLMDIN 65 I + ++++L DDH+LFREG+KRIL+ E EV+ E DG + EN PD+VLMDIN Sbjct: 2 ITEKEVRIVLIDDHKLFREGVKRILDFEPSFEVVAEGDDGSMASKLVKENAPDVVLMDIN 61 Query: 66 MPIENGVEATQKLREMFPDVKVIILSIHDDESYVFETLRKGANGYLLKDMEAESLINAIR 125 MP NGV+AT L FP+ KVIILSIHDDESYV L+ GA GYLLK+M++++LI+AI+ Sbjct: 62 MPEINGVQATADLVRYFPNSKVIILSIHDDESYVTHALKTGAQGYLLKEMDSDALIDAIK 121 Query: 126 SVCEGHAFIHPKVTGKLINQLRRMTYLNETGAIAETAVKEAGVKFVAGDNNP---LTRRE 182 V +G +++HP+VT L+ + RR+ N +++ + G+++ P LT+RE Sbjct: 122 VVSDGGSYLHPRVTHNLVKEYRRLAKEN------SSSIADKGIEY----RKPLHLLTKRE 171 Query: 183 AEVLRLMAEGKSNKMIGEYLFISEKTVKNHVSSILQKMEVDDRTQAVINSIKYGWV 238 +VL+L+A+GKSN+ + E L+ISEKTVKNHVS+ILQKM V+DRTQAV+++I+ GWV Sbjct: 172 CQVLQLLADGKSNRAVAETLYISEKTVKNHVSNILQKMNVNDRTQAVVSAIRKGWV 227 >ref|NP_471988.1| similar to B. subtilis two-component response regulator DegU [Listeria innocua] ref|NP_466038.1| similar to B. subtilis two-component response regulator DegU [Listeria monocytogenes EGD-e] pir||AC1389 B. subtilis two-component response regulator DegU homolog lmo2515 [imported] - Listeria monocytogenes (strain EGD-e) pir||AE1764 B. subtilis two-component response regulator DegU homolog lin2659 [imported] - Listeria innocua (strain Clip11262) emb|CAD00593.1| lmo2515 [Listeria monocytogenes] emb|CAC97885.1| lin2659 [Listeria innocua] Length = 228 Score = 244 bits (622), Expect = 2e-63, Method: Compositional matrix adjust. Identities = 121/230 (52%), Positives = 162/230 (70%), Gaps = 5/230 (2%) Query: 11 IKVLLADDHQLFREGLKRILNMEEDIEVIGECGDGIQVLEFCNENKPDIVLMDINMPIEN 70 +K+++ DDHQLFREG+KRIL +E+ EV+ E +G ++ E KPDIVLMDINMP N Sbjct: 3 LKIMIVDDHQLFREGIKRILELEDSFEVVAEAENGKNIVAKVREYKPDIVLMDINMPTVN 62 Query: 71 GVEATQKLREMFPDVKVIILSIHDDESYVFETLRKGANGYLLKDMEAESLINAIRSVCEG 130 G++AT+ L FP +KVI+L+IHD + YV E LR GA GYLLK+M+A L+ A++ V G Sbjct: 63 GLDATEMLVRQFPSIKVIVLTIHDTDEYVTEALRAGAVGYLLKEMDAHELVEAVKIVDNG 122 Query: 131 HAFIHPKVTGKLINQLRRMTYLNETGAIAETAVKEAGVKFVAGDNNPLTRREAEVLRLMA 190 A+IHP+V KLI + R + N + + E + + LT RE EVL+L+ Sbjct: 123 GAYIHPRVAIKLIREYRHLASTNTSQGVYGYQQPEVKMPL-----HILTHRECEVLQLLT 177 Query: 191 EGKSNKMIGEYLFISEKTVKNHVSSILQKMEVDDRTQAVINSIKYGWVTL 240 +GKSN+ IGE LFISEKTVKNHVSSILQKM+V+DRTQAV+ +IK+GWV + Sbjct: 178 DGKSNRGIGETLFISEKTVKNHVSSILQKMKVNDRTQAVVTAIKHGWVYI 227 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 0.317 0.136 0.378 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: 330,576,075 Number of extensions: 13136396 Number of successful extensions: 53182 Number of sequences better than 1.0e-05: 2040 Number of HSP's gapped: 54147 Number of HSP's successfully gapped: 2061 Length of query: 240 Length of database: 757,237,578 Length adjustment: 122 Effective length of query: 118 Effective length of database: 425,995,500 Effective search space: 50267469000 Effective search space used: 50267469000 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 124 (52.4 bits)