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= 0340.0015.p (229 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value C3BGT6.1 C3BGT6_9BACI Two component transcriptional regulator, w... 317 7e-85 C2Y0W9.1 C2Y0W9_BACCE Two component transcriptional regulator, w... 315 2e-84 C2SRW0.1 C2SRW0_BACCE Two component transcriptional regulator, w... 314 4e-84 C2WFF0.1 C2WFF0_BACCE Two component transcriptional regulator, w... 314 5e-84 C0Z9S0.1 C0Z9S0_BREBN Two-component response regulator 313 8e-84 >C3BGT6.1 C3BGT6_9BACI Two component transcriptional regulator, winged helix Length = 232 Score = 317 bits (811), Expect = 7e-85, Method: Compositional matrix adjust. Identities = 146/208 (70%), Positives = 177/208 (85%), Gaps = 3/208 (1%) Query: 25 REGYHTVKVSNGRAAMQAVQSQPVDLAILDIMMPELDGHEVTRQIREQYRMPIIFLSAKA 84 +EGYH +KV++G+ A++ + SQP+DL ILDIMMP++DG+EVTRQIR QY MPIIFLSAK Sbjct: 25 KEGYHVIKVADGKEAIRVIHSQPIDLVILDIMMPKMDGYEVTRQIRAQYHMPIIFLSAKT 84 Query: 85 TDLDKITGLVLGADDYMTKPFNPMELVARVKAQLRRALQLNQP-AEDAHAVLQIGGLIID 143 +D DK+TGLV+GADDYMTKPF P+ELVARV AQLRR L LNQP AED +VL+IGG++I Sbjct: 85 SDFDKVTGLVIGADDYMTKPFTPIELVARVNAQLRRFLMLNQPKAEDNKSVLEIGGVVIY 144 Query: 144 PDKRTVAIYGQTVELTPKEFDILQLLASHPNKVFSAENIFEQVWGESYYDSGNTVMVHIR 203 P++RTV++Y + +ELTPKEFDIL LLASHP KV+S ENIF+QVW E YY+ NTVMVHIR Sbjct: 145 PEQRTVSVYEEQIELTPKEFDILYLLASHPKKVYSVENIFQQVWAEDYYEGRNTVMVHIR 204 Query: 204 TLRKKLSEDPK--KFVKTVWGVGYTFNG 229 TLRKKL ED + K +KTVWGVGYTFNG Sbjct: 205 TLRKKLGEDKRKNKLIKTVWGVGYTFNG 232 >C2Y0W9.1 C2Y0W9_BACCE Two component transcriptional regulator, winged helix Length = 232 Score = 315 bits (806), Expect = 2e-84, Method: Compositional matrix adjust. Identities = 144/208 (69%), Positives = 175/208 (84%), Gaps = 3/208 (1%) Query: 25 REGYHTVKVSNGRAAMQAVQSQPVDLAILDIMMPELDGHEVTRQIREQYRMPIIFLSAKA 84 +EGYH VK ++G AM +Q+QP+DL +LDIMMP++DG+EVTRQIR ++ MPIIFLSAK Sbjct: 25 KEGYHVVKAADGEEAMHIIQTQPIDLVVLDIMMPKMDGYEVTRQIRAKHHMPIIFLSAKT 84 Query: 85 TDLDKITGLVLGADDYMTKPFNPMELVARVKAQLRRALQLNQP-AEDAHAVLQIGGLIID 143 +D DK+TGLVLGADDYMTKPF P+ELVARV AQLRR L LNQP ++ + L+IGG++ID Sbjct: 85 SDFDKVTGLVLGADDYMTKPFTPIELVARVNAQLRRFLTLNQPKVAESKSALEIGGVVID 144 Query: 144 PDKRTVAIYGQTVELTPKEFDILQLLASHPNKVFSAENIFEQVWGESYYDSGNTVMVHIR 203 P++RTV +Y + +ELTPKEFDIL LLASHP KV+S ENIF+QVW E YY+SGNTVMVHIR Sbjct: 145 PERRTVNVYDEKIELTPKEFDILYLLASHPKKVYSVENIFQQVWAEGYYESGNTVMVHIR 204 Query: 204 TLRKKLSEDPK--KFVKTVWGVGYTFNG 229 TLRKKL ED + K +KTVWGVGYTFNG Sbjct: 205 TLRKKLGEDKRKNKLIKTVWGVGYTFNG 232 >C2SRW0.1 C2SRW0_BACCE Two component transcriptional regulator, winged helix Length = 232 Score = 314 bits (805), Expect = 4e-84, Method: Compositional matrix adjust. Identities = 144/208 (69%), Positives = 175/208 (84%), Gaps = 3/208 (1%) Query: 25 REGYHTVKVSNGRAAMQAVQSQPVDLAILDIMMPELDGHEVTRQIREQYRMPIIFLSAKA 84 +EGYH VK ++G AM +Q+QP+DL +LDIMMP++DG+EVTRQIR ++ MPIIFLSAK Sbjct: 25 KEGYHVVKAADGEEAMHIIQTQPIDLVVLDIMMPKMDGYEVTRQIRGKHHMPIIFLSAKT 84 Query: 85 TDLDKITGLVLGADDYMTKPFNPMELVARVKAQLRRALQLNQP-AEDAHAVLQIGGLIID 143 +D DK+TGLVLGADDYMTKPF P+ELVARV AQLRR L LNQP ++ + L+IGG++ID Sbjct: 85 SDFDKVTGLVLGADDYMTKPFTPIELVARVNAQLRRFLTLNQPKVAESKSALEIGGVVID 144 Query: 144 PDKRTVAIYGQTVELTPKEFDILQLLASHPNKVFSAENIFEQVWGESYYDSGNTVMVHIR 203 P++RTV +Y + +ELTPKEFDIL LLASHP KV+S ENIF+QVW E YY+SGNTVMVHIR Sbjct: 145 PERRTVNVYDEKIELTPKEFDILYLLASHPKKVYSVENIFQQVWAEGYYESGNTVMVHIR 204 Query: 204 TLRKKLSEDPK--KFVKTVWGVGYTFNG 229 TLRKKL ED + K +KTVWGVGYTFNG Sbjct: 205 TLRKKLGEDKRKNKLIKTVWGVGYTFNG 232 >C2WFF0.1 C2WFF0_BACCE Two component transcriptional regulator, winged helix Length = 232 Score = 314 bits (804), Expect = 5e-84, Method: Compositional matrix adjust. Identities = 145/208 (69%), Positives = 175/208 (84%), Gaps = 3/208 (1%) Query: 25 REGYHTVKVSNGRAAMQAVQSQPVDLAILDIMMPELDGHEVTRQIREQYRMPIIFLSAKA 84 +EGYH +KV++G+ A++ + SQP+DL ILDIMMP++DG+EVTRQIR QY MPIIFLSAK Sbjct: 25 KEGYHVIKVADGKEAIRVIHSQPIDLVILDIMMPKMDGYEVTRQIRAQYHMPIIFLSAKT 84 Query: 85 TDLDKITGLVLGADDYMTKPFNPMELVARVKAQLRRALQLNQP-AEDAHAVLQIGGLIID 143 +D DK+TGLV+GADDYMTKPF P+ELVARV AQLRR L LNQP ED +VL IGG++I Sbjct: 85 SDFDKVTGLVIGADDYMTKPFTPIELVARVNAQLRRFLMLNQPKVEDNKSVLAIGGVVIY 144 Query: 144 PDKRTVAIYGQTVELTPKEFDILQLLASHPNKVFSAENIFEQVWGESYYDSGNTVMVHIR 203 P++RTV++Y + +ELTPKEFDIL LLASHP KV+S ENIF+QVW E YY+ NTVMVHIR Sbjct: 145 PEQRTVSVYEEQIELTPKEFDILYLLASHPKKVYSVENIFQQVWAEDYYEGRNTVMVHIR 204 Query: 204 TLRKKLSEDPK--KFVKTVWGVGYTFNG 229 TLRKKL ED + K +KTVWGVGYTFNG Sbjct: 205 TLRKKLGEDKRKNKLIKTVWGVGYTFNG 232 >C0Z9S0.1 C0Z9S0_BREBN Two-component response regulator Length = 233 Score = 313 bits (802), Expect = 8e-84, Method: Compositional matrix adjust. Identities = 148/209 (70%), Positives = 180/209 (86%), Gaps = 4/209 (1%) Query: 25 REGYHTVKVSNGRAAMQAVQSQPVDLAILDIMMPELDGHEVTRQIREQYRMPIIFLSAKA 84 +EGYHT+ ++G+AA+QAVQ+ +DLAILDIMMP LDG+EVTR IREQ+ MPIIFLSAK Sbjct: 25 KEGYHTIIAADGKAALQAVQTHSIDLAILDIMMPGLDGYEVTRLIREQHNMPIIFLSAKT 84 Query: 85 TDLDKITGLVLGADDYMTKPFNPMELVARVKAQLRRALQLNQP--AEDAHAVLQIGGLII 142 +DLDKI+GLV+GADDYMTKPFNPMELVARV AQLRR QLNQP A ++ VL+ GGL+I Sbjct: 85 SDLDKISGLVMGADDYMTKPFNPMELVARVNAQLRRFKQLNQPAVAVASNKVLEAGGLVI 144 Query: 143 DPDKRTVAIYGQTVELTPKEFDILQLLASHPNKVFSAENIFEQVWGESYYDSGNTVMVHI 202 P++RTV++YG+T+ELTPKEFDIL LLA +P KVFSA+NIFE VWGE+YY+ NTVMVHI Sbjct: 145 YPEERTVSLYGETIELTPKEFDILYLLARYPKKVFSADNIFEMVWGEAYYEGSNTVMVHI 204 Query: 203 RTLRKKLSED--PKKFVKTVWGVGYTFNG 229 RTLRKKL E+ K++KTVWGVGY+F+G Sbjct: 205 RTLRKKLGEEKTKNKWIKTVWGVGYSFHG 233 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 0.319 0.136 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: 1,202,196,344 Number of extensions: 44627403 Number of successful extensions: 213277 Number of sequences better than 1.0e-05: 23398 Number of HSP's gapped: 193351 Number of HSP's successfully gapped: 23438 Length of query: 229 Length of database: 3,060,696,203 Length adjustment: 131 Effective length of query: 98 Effective length of database: 1,826,543,238 Effective search space: 179001237324 Effective search space used: 179001237324 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: 129 (54.3 bits)