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= 0548.0023.p (231 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B1DE38.1 B1DE38_9BACL Two component transcriptional regulator, w... 296 6e-79 B1B799.1 B1B799_CLOBO Regulatory protein VanR 270 7e-71 A0PYU4.1 A0PYU4_CLONN Transcriptional regulatory protein 266 7e-70 Q4MPR3.1 Q4MPR3_BACCE DNA-binding response regulator 262 2e-68 Q81VD8.1 Q81VD8_BACAN DNA-binding response regulator 261 3e-68 >B1DE38.1 B1DE38_9BACL Two component transcriptional regulator, winged helix family Length = 228 Score = 296 bits (759), Expect = 6e-79, Method: Compositional matrix adjust. Identities = 142/226 (62%), Positives = 179/226 (79%), Gaps = 1/226 (0%) Query: 6 ILVVDDDSEIRDVLHIYLRNEGYVVMEAGDGLQAXXXXXXXXXXXXXXDIMMPSLDGIAA 65 ILVVDDD+EIRDV+H+YLRNEG+ V+EAGDG +A D+MMP +DGI A Sbjct: 4 ILVVDDDTEIRDVIHVYLRNEGHSVLEAGDGSEAIDLLVQQEVDLVILDVMMPRMDGIKA 63 Query: 66 CLQIRAKYDIPIIMLSAKEEVLDKITGLSVGADDYVTKPFNPLELMARVKAQIRRQKLLA 125 C+ IR +Y +PIIMLSAKE +DKI GLS+GADDYVTKPFNP+EL+ARVKAQ+RRQK+L Sbjct: 64 CMHIREQYSVPIIMLSAKEGDIDKIMGLSIGADDYVTKPFNPMELIARVKAQLRRQKMLT 123 Query: 126 SLEDNTEEIRIGELVINKSRHSVEVGGSKVSLTPIEFSILELLASHCGQVFSVDMIYRSV 185 S E ++I I ELVI+ ++H V + G V LTP+EF+IL+LLA++ GQVFS D IY SV Sbjct: 124 SKEGVHDQITIDELVIDVAKHFVSIRGQVVMLTPLEFAILKLLAANPGQVFSADTIYESV 183 Query: 186 WKDHTAYFSENTVMVHIRNIREKIEISPREPRYIKTIWGVGYKIEK 231 WK+ FS+NTVMVHIRN+REK+EI+PR+P YIKT+WGVGYK++K Sbjct: 184 WKERIG-FSDNTVMVHIRNLREKLEINPRKPEYIKTVWGVGYKMDK 228 >B1B799.1 B1B799_CLOBO Regulatory protein VanR Length = 232 Score = 270 bits (690), Expect = 7e-71, Method: Compositional matrix adjust. Identities = 132/227 (58%), Positives = 167/227 (73%), Gaps = 1/227 (0%) Query: 5 NILVVDDDSEIRDVLHIYLRNEGYVVMEAGDGLQAXXXXXXXXXXXXXXDIMMPSLDGIA 64 N+LVVDDD EIR+ + IYL+NEG V EA DG+ A DIMMP +DGI Sbjct: 5 NVLVVDDDKEIREAIKIYLKNEGIKVFEAKDGIDALMLLQEQEIHLILMDIMMPKMDGIK 64 Query: 65 ACLQIRAKYDIPIIMLSAKEEVLDKITGLSVGADDYVTKPFNPLELMARVKAQIRRQKLL 124 A +IR K DIPIIMLSAK E DKI GL++GADDYVTKPFNPLEL+ARVK+Q+RR Sbjct: 65 ATFKIREKKDIPIIMLSAKSEDTDKILGLNIGADDYVTKPFNPLELIARVKSQLRRYVRF 124 Query: 125 ASLEDNTEEIRIGELVINKSRHSVEVGGSKVSLTPIEFSILELLASHCGQVFSVDMIYRS 184 AS + NTEE+++G +++NK+ V V G +V LTPIE+ ILELL + GQVFS++ IY + Sbjct: 125 ASYKRNTEELQVGGIILNKNTKLVSVDGEEVRLTPIEYKILELLMENKGQVFSIEQIYEN 184 Query: 185 VWKDHTAYFSENTVMVHIRNIREKIEISPREPRYIKTIWGVGYKIEK 231 VW + Y +ENTV VHIR IREKIEI+P+EPRY+K +WG+GYKI++ Sbjct: 185 VW-NEPCYNAENTVPVHIRRIREKIEINPKEPRYLKVVWGIGYKIQE 230 >A0PYU4.1 A0PYU4_CLONN Transcriptional regulatory protein Length = 232 Score = 266 bits (681), Expect = 7e-70, Method: Compositional matrix adjust. Identities = 128/227 (56%), Positives = 165/227 (72%), Gaps = 1/227 (0%) Query: 5 NILVVDDDSEIRDVLHIYLRNEGYVVMEAGDGLQAXXXXXXXXXXXXXXDIMMPSLDGIA 64 N+LVVDDD EIR+ + IYL+NEG V EA DG+ A DIMMP +DGI Sbjct: 5 NVLVVDDDKEIREAIKIYLKNEGIKVFEAKDGIDALMLLQEQEIHLILMDIMMPKMDGIK 64 Query: 65 ACLQIRAKYDIPIIMLSAKEEVLDKITGLSVGADDYVTKPFNPLELMARVKAQIRRQKLL 124 A +IR K DIPIIMLSAK E DKI GL++GADDYVTKPFNPLEL+ARVK+Q+RR Sbjct: 65 ATFKIREKKDIPIIMLSAKSEDTDKILGLNIGADDYVTKPFNPLELIARVKSQLRRYVKF 124 Query: 125 ASLEDNTEEIRIGELVINKSRHSVEVGGSKVSLTPIEFSILELLASHCGQVFSVDMIYRS 184 + + N++E+++G +++NK+ SV V G +V LTPIE+ ILE L GQVFS++ IY + Sbjct: 125 NNYKSNSQELKVGGIILNKNTKSVSVDGEEVRLTPIEYKILEFLMESTGQVFSIEQIYEN 184 Query: 185 VWKDHTAYFSENTVMVHIRNIREKIEISPREPRYIKTIWGVGYKIEK 231 VW + Y +ENTV VHIR IREKIEI+P+EPRY+K +WG+GYKI++ Sbjct: 185 VW-NEPCYNAENTVPVHIRRIREKIEINPKEPRYLKVVWGIGYKIQE 230 >Q4MPR3.1 Q4MPR3_BACCE DNA-binding response regulator Length = 233 Score = 262 bits (669), Expect = 2e-68, Method: Compositional matrix adjust. Identities = 130/227 (57%), Positives = 167/227 (73%), Gaps = 2/227 (0%) Query: 6 ILVVDDDSEIRDVLHIYLRNEGYVVMEAGDGLQAXXXXXXXXXXXXXXDIMMPSLDGIAA 65 ILVVDD+ EIR+++ IYL+NEGY V++AGDG + DIMMP +DGI Sbjct: 6 ILVVDDEKEIRNLITIYLKNEGYTVLQAGDGEEGLRLLEENEVHLVVLDIMMPKVDGIHM 65 Query: 66 CLQIRAKYDIPIIMLSAKEEVLDKITGLSVGADDYVTKPFNPLELMARVKAQIRR-QKLL 124 C+++R + ++PIIMLSAK + +DKI GL+ GADDYVTKPFNPLEL+AR+K+Q+RR K+ Sbjct: 66 CMKVREEKEMPIIMLSAKTQDMDKILGLTTGADDYVTKPFNPLELIARIKSQLRRYMKMN 125 Query: 125 ASLEDNTEEIRIGELVINKSRHSVEVGGSKVSLTPIEFSILELLASHCGQVFSVDMIYRS 184 N +E+ IGE+ IN S H V V G +V LTP EFSILELLA + G VFS + IY Sbjct: 126 GFAIQNEDELEIGEMKINISTHKVIVEGEEVKLTPREFSILELLARNPGMVFSAEQIYEK 185 Query: 185 VWKDHTAYFSENTVMVHIRNIREKIEISPREPRYIKTIWGVGYKIEK 231 VW + ++ S+NTVMVHIR +REKIE +PR+PRYIKT+WGVGYKIEK Sbjct: 186 VWNER-SFQSDNTVMVHIRKVREKIEENPRKPRYIKTVWGVGYKIEK 231 >Q81VD8.1 Q81VD8_BACAN DNA-binding response regulator Length = 233 Score = 261 bits (668), Expect = 3e-68, Method: Compositional matrix adjust. Identities = 131/227 (57%), Positives = 167/227 (73%), Gaps = 2/227 (0%) Query: 6 ILVVDDDSEIRDVLHIYLRNEGYVVMEAGDGLQAXXXXXXXXXXXXXXDIMMPSLDGIAA 65 ILVVDD+ EIR+++ IYL+NEGY V++AGDG + DIMMP +DGI Sbjct: 6 ILVVDDEKEIRNLITIYLKNEGYKVLQAGDGEEGLRLLEENEVHLVVLDIMMPKVDGIHM 65 Query: 66 CLQIRAKYDIPIIMLSAKEEVLDKITGLSVGADDYVTKPFNPLELMARVKAQIRR-QKLL 124 C++IR + ++PIIMLSAK + +DKI GL+ GADDYVTKPFNPLEL+AR+K+Q+RR K+ Sbjct: 66 CMKIREEKEMPIIMLSAKTQDMDKILGLTTGADDYVTKPFNPLELIARIKSQLRRYMKMN 125 Query: 125 ASLEDNTEEIRIGELVINKSRHSVEVGGSKVSLTPIEFSILELLASHCGQVFSVDMIYRS 184 N +E+ IGE+ IN S H V V G +V LTP EFSILELLA + G VFS + IY Sbjct: 126 GFAIQNEDELEIGEMKINISTHKVIVEGEEVKLTPREFSILELLARNPGMVFSAEQIYEK 185 Query: 185 VWKDHTAYFSENTVMVHIRNIREKIEISPREPRYIKTIWGVGYKIEK 231 VW + ++ S+NTVMVHIR +REKIE +PR+PRYIKT+WGVGYKIEK Sbjct: 186 VWNER-SFQSDNTVMVHIRKVREKIEENPRKPRYIKTVWGVGYKIEK 231 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 0.138 0.389 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: 1,208,300,562 Number of extensions: 41706605 Number of successful extensions: 205303 Number of sequences better than 1.0e-05: 23437 Number of HSP's gapped: 176852 Number of HSP's successfully gapped: 23493 Length of query: 231 Length of database: 3,060,696,203 Length adjustment: 131 Effective length of query: 100 Effective length of database: 1,826,543,238 Effective search space: 182654323800 Effective search space used: 182654323800 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)