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= 0001.0009.p (223 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B3K8T7.1 B3K8T7_9BACI Regulatory protein GntR HTH 282 1e-74 C1PCV3.1 C1PCV3_BACCO Transcriptional regulator, GntR family 247 6e-64 C2X4V6.1 C2X4V6_BACCE Gluconate operon transcriptional repressor 180 6e-44 C2U647.1 C2U647_BACCE Gluconate operon transcriptional repressor 180 7e-44 C2W9Y4.1 C2W9Y4_BACCE Gluconate operon transcriptional repressor 179 1e-43 >B3K8T7.1 B3K8T7_9BACI Regulatory protein GntR HTH Length = 225 Score = 282 bits (722), Expect = 1e-74, Method: Compositional matrix adjust. Identities = 139/223 (62%), Positives = 173/223 (77%) Query: 1 MHYPATWLQGASLGESIACELRLQIINEHIKPGEVLSENRIAADFGTSRSPVREALKSLS 60 M +P+TWLQGASLGE+IA ELRLQII+ IK GE+LSENRIA +FGTSRSPVREA+K+LS Sbjct: 1 MKFPSTWLQGASLGEAIASELRLQIISGTIKRGEILSENRIAGEFGTSRSPVREAMKTLS 60 Query: 61 GEGLIRLERMGAVVVGLNIKDVKELYDVRYLIESFAQQRLAVNIQDALIQQLEQSIDKMK 120 EGLI+LERMGAVV+GL++K+V+ELYDVR+LIESF Q + N Q LIQ L+Q +D+M+ Sbjct: 61 SEGLIQLERMGAVVMGLSLKEVEELYDVRFLIESFVQGHVFANPQPELIQHLKQIVDRME 120 Query: 121 LAVKHNDYVEFALQDFSFHEAIVTEANHTRILHLWNSIRYIVMTVILITTEKGFTLGEAR 180 LA KH D VEF+ QD +FHE I+TEANH RILHLW SIR IV+TV+LITT + F G A+ Sbjct: 121 LAAKHQDPVEFSYQDLAFHERIITEANHKRILHLWKSIRPIVITVMLITTRQVFGGGGAK 180 Query: 181 MNWVADKHRTVVEALRSGDPETIHKVVKEYFADSGETLIRSLP 223 + +V DKH ++ + S DP I V+ YF DS +TL S P Sbjct: 181 VRYVMDKHLQLIAEMESLDPARIQTAVQHYFDDSRQTLHLSFP 223 >C1PCV3.1 C1PCV3_BACCO Transcriptional regulator, GntR family Length = 230 Score = 247 bits (630), Expect = 6e-64, Method: Compositional matrix adjust. Identities = 114/223 (51%), Positives = 162/223 (72%) Query: 1 MHYPATWLQGASLGESIACELRLQIINEHIKPGEVLSENRIAADFGTSRSPVREALKSLS 60 + +P W++ ASLGE IA ELRL I+ IKPG+++SEN+IA +GTSRSPVR+ALK+L+ Sbjct: 2 LQFPEQWMKNASLGEQIANELRLLILTNEIKPGDIISENQIARKYGTSRSPVRDALKALA 61 Query: 61 GEGLIRLERMGAVVVGLNIKDVKELYDVRYLIESFAQQRLAVNIQDALIQQLEQSIDKMK 120 +GLI+LERMGA V+G+ + D+ ELYDVR +IE FAQQR++ Q+ LIQ L ++IDKMK Sbjct: 62 NDGLIQLERMGARVLGMGLTDIHELYDVREMIEIFAQQRVSAAPQEQLIQFLNETIDKMK 121 Query: 121 LAVKHNDYVEFALQDFSFHEAIVTEANHTRILHLWNSIRYIVMTVILITTEKGFTLGEAR 180 +A K+ ++ +FA DFSFH+ I+ A H RIL+LWN ++ ++M V+L+TTE F G Sbjct: 122 IAAKYENHSDFAYYDFSFHDRIIRHAGHKRILNLWNGMKSLIMAVLLVTTEHVFAHGPDH 181 Query: 181 MNWVADKHRTVVEALRSGDPETIHKVVKEYFADSGETLIRSLP 223 + WV +KHR +V +L +G+ E + + V YF DS TL +S P Sbjct: 182 LAWVIEKHRKIVNSLLTGNEENVEQSVSAYFKDSKRTLDKSFP 224 >C2X4V6.1 C2X4V6_BACCE Gluconate operon transcriptional repressor Length = 243 Score = 180 bits (457), Expect = 6e-44, Method: Compositional matrix adjust. Identities = 89/211 (42%), Positives = 137/211 (64%) Query: 3 YPATWLQGASLGESIACELRLQIINEHIKPGEVLSENRIAADFGTSRSPVREALKSLSGE 62 YP WL AS G+ +A ELR++II I+ G +LSEN++AADF SRSPVREALK L+ E Sbjct: 9 YPEKWLSKASTGDRVASELRMRIIAGEIESGTILSENKLAADFSVSRSPVREALKVLASE 68 Query: 63 GLIRLERMGAVVVGLNIKDVKELYDVRYLIESFAQQRLAVNIQDALIQQLEQSIDKMKLA 122 +IRLERMGAVV+GL K+++E+YDVR LIE+F +RL + L+++L + ++ MK+A Sbjct: 69 NIIRLERMGAVVIGLTEKEIEEIYDVRLLIETFIFERLVKMDTNDLVRELNKIMEMMKIA 128 Query: 123 VKHNDYVEFALQDFSFHEAIVTEANHTRILHLWNSIRYIVMTVILITTEKGFTLGEARMN 182 +K++D EF+ QD FHE I+ H+ IL +WN+++ ++ ++IL++ F Sbjct: 129 IKYHDSDEFSYQDLLFHETIIRTIEHSYILMIWNNLKPVMESLILLSMRTRFKEKYEDFE 188 Query: 183 WVADKHRTVVEALRSGDPETIHKVVKEYFAD 213 + H ++A+ S D + K + + F D Sbjct: 189 RIIKNHELYIKAIESKDRSLMIKALHQNFDD 219 >C2U647.1 C2U647_BACCE Gluconate operon transcriptional repressor Length = 243 Score = 180 bits (457), Expect = 7e-44, Method: Compositional matrix adjust. Identities = 89/211 (42%), Positives = 137/211 (64%) Query: 3 YPATWLQGASLGESIACELRLQIINEHIKPGEVLSENRIAADFGTSRSPVREALKSLSGE 62 YP WL AS G+ +A ELR++II I+ G +LSEN++AADF SRSPVREALK L+ E Sbjct: 9 YPEKWLSKASTGDRVASELRMRIIAGEIESGTILSENKLAADFSVSRSPVREALKVLASE 68 Query: 63 GLIRLERMGAVVVGLNIKDVKELYDVRYLIESFAQQRLAVNIQDALIQQLEQSIDKMKLA 122 +IRLERMGAVV+GL K+++E+YDVR LIE+F +RL + L+++L + ++ MK+A Sbjct: 69 NIIRLERMGAVVIGLTEKEIEEIYDVRLLIETFIFERLVKMDTNDLVRELNKIMEMMKIA 128 Query: 123 VKHNDYVEFALQDFSFHEAIVTEANHTRILHLWNSIRYIVMTVILITTEKGFTLGEARMN 182 +K++D EF+ QD FHE I+ H+ IL +WN+++ ++ ++IL++ F Sbjct: 129 IKYHDSDEFSYQDLLFHETIIRTIEHSYILMIWNNLKPVMESLILLSMRTRFKEKYEDFE 188 Query: 183 WVADKHRTVVEALRSGDPETIHKVVKEYFAD 213 + H ++A+ S D + K + + F D Sbjct: 189 RIIKNHELYIKAIESKDRALMIKALHQNFDD 219 >C2W9Y4.1 C2W9Y4_BACCE Gluconate operon transcriptional repressor Length = 243 Score = 179 bits (455), Expect = 1e-43, Method: Compositional matrix adjust. Identities = 89/211 (42%), Positives = 138/211 (65%) Query: 3 YPATWLQGASLGESIACELRLQIINEHIKPGEVLSENRIAADFGTSRSPVREALKSLSGE 62 YP WL AS G+ +A ELR++II I+ G +LSEN++AADF SRSPVREALK L+ E Sbjct: 9 YPEKWLSKASTGDRVASELRMRIIAGKIENGTILSENKLAADFSVSRSPVREALKVLASE 68 Query: 63 GLIRLERMGAVVVGLNIKDVKELYDVRYLIESFAQQRLAVNIQDALIQQLEQSIDKMKLA 122 +IRLERMGAVV+GL K+++E+YDVR LIE+F +RL + L+++L + I+ MK+A Sbjct: 69 NIIRLERMGAVVIGLTEKEIEEIYDVRLLIETFIFERLVKMDTNELVKELNKIIEMMKIA 128 Query: 123 VKHNDYVEFALQDFSFHEAIVTEANHTRILHLWNSIRYIVMTVILITTEKGFTLGEARMN 182 +K++D EF+ QD FHE I+ +H+ IL +WN+++ ++ ++IL++ F Sbjct: 129 IKYHDADEFSYQDVLFHETIIRTIHHSHILMMWNNLKPVMESLILLSMRTRFKEKYEDFE 188 Query: 183 WVADKHRTVVEALRSGDPETIHKVVKEYFAD 213 + H ++A+ S D + + + + F D Sbjct: 189 RIIKNHELYIKAIESKDRALMIEALHQNFDD 219 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 0.135 0.384 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: 1,233,271,469 Number of extensions: 45292438 Number of successful extensions: 145350 Number of sequences better than 1.0e-05: 3005 Number of HSP's gapped: 144668 Number of HSP's successfully gapped: 3005 Length of query: 223 Length of database: 3,060,696,203 Length adjustment: 131 Effective length of query: 92 Effective length of database: 1,826,543,238 Effective search space: 168041977896 Effective search space used: 168041977896 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)