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= 0598.0014.p (152 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value Q65FY6.1 Q65FY6_BACLD YtdP 73 7e-12 A8FGF2.1 A8FGF2_BACP2 Transcriptional regulator 71 3e-11 O32071.1 YTDP_BACSU Uncharacterized HTH-type transcriptional reg... 69 1e-10 B3KFU0.1 B3KFU0_9BACI Helix-turn-helix-domain containing protein... 69 2e-10 O30503.1 O30503_BACSU YtdP 68 2e-10 >Q65FY6.1 Q65FY6_BACLD YtdP Length = 769 Score = 73.2 bits (178), Expect = 7e-12, Method: Composition-based stats. Identities = 42/142 (29%), Positives = 77/142 (54%), Gaps = 9/142 (6%) Query: 17 SIALLKKLPINTLANNVGLAIVKLPAARLKNLMPVTDDGRT---VILDNQGNPLIQLEGY 73 ++ L+K+LP+N++ N GLAI +P+ L MP D +T ++LD+ G ++ + Sbjct: 176 NVNLVKQLPLNSMENR-GLAIASIPSCSLVKRMP--DHSKTNSMMVLDDNGRIILHSDPS 232 Query: 74 STG---GLQNVVDFLQLETELNGKFALHLDDVLTGVTYRKSSYNGWTYLSVVSINDITRE 130 G +N ++ E NG+F + D +TY+KS YN W Y+S+ +I ++ ++ Sbjct: 233 MIGQSIKQENYFKTIRRHQEKNGQFDTTVSDTAYNITYQKSDYNNWIYVSLTTIPELYQQ 292 Query: 131 VKAIRWYTVYISIGIFAFMIVF 152 +I W+T I + + A +F Sbjct: 293 TASIGWFTFTICLILLALSYLF 314 >A8FGF2.1 A8FGF2_BACP2 Transcriptional regulator Length = 770 Score = 71.2 bits (173), Expect = 3e-11, Method: Composition-based stats. Identities = 40/140 (28%), Positives = 74/140 (52%), Gaps = 5/140 (3%) Query: 17 SIALLKKLPINTLANNVGLAIVKLPAARLKNLMP-VTDDGRTVILDNQGNPLIQLEGYST 75 ++ L+K+LP+N++ G+A+ +P+ + N MP + ++D G L+ Sbjct: 180 NVNLIKQLPMNSVQKK-GIAVASIPSCTIANNMPDFSQSDSMFVIDTNGKVLLHNRKKQI 238 Query: 76 GGL---QNVVDFLQLETELNGKFALHLDDVLTGVTYRKSSYNGWTYLSVVSINDITREVK 132 G Q V + E +G+F + ++++ +T++KS YN WTYLS VSI ++ + K Sbjct: 239 GESLKNQEFVKHVLSSEERSGQFNMKIEELNYQITFQKSDYNEWTYLSFVSIPELKAQTK 298 Query: 133 AIRWYTVYISIGIFAFMIVF 152 +I W T I + A ++F Sbjct: 299 SIGWITFIICFILLALSLLF 318 >O32071.1 YTDP_BACSU Uncharacterized HTH-type transcriptional regulator ytdP Length = 772 Score = 68.9 bits (167), Expect = 1e-10, Method: Composition-based stats. Identities = 42/126 (33%), Positives = 70/126 (55%), Gaps = 5/126 (3%) Query: 17 SIALLKKLPINTLANNVGLAIVKLPAARL-KNLMPVTDDGRTVILDNQGNPLIQLEGYST 75 +I L+K+LP+N+ N GLA +P+ L KN+ ++ I+D +G ++ Sbjct: 181 NINLIKQLPLNS-TNTKGLAAASIPSCSLVKNMPGYSNANNLFIIDEKGLIILHNNMSDV 239 Query: 76 GGLQNVVDFLQ---LETELNGKFALHLDDVLTGVTYRKSSYNGWTYLSVVSINDITREVK 132 G + F+Q +T +G+F +D + VTY+KS YN WTY S+VS+ ++ +E K Sbjct: 240 GESLHNDGFVQKVLAQTANSGQFETVIDRIHYKVTYQKSDYNAWTYFSLVSLPELKKEAK 299 Query: 133 AIRWYT 138 +I W T Sbjct: 300 SIGWIT 305 >B3KFU0.1 B3KFU0_9BACI Helix-turn-helix-domain containing protein AraC type Length = 770 Score = 68.6 bits (166), Expect = 2e-10, Method: Composition-based stats. Identities = 42/142 (29%), Positives = 78/142 (54%), Gaps = 10/142 (7%) Query: 17 SIALLKKLPINTLANNVGLAIVKLPAARLKNLMPVTDDGRTV-ILDNQGNPLIQLEGYST 75 +IAL+KK+P+++ ++ G+A+ +P+ L +M + R V +LD+ ++ E Sbjct: 174 TIALVKKMPLSS-SSARGVALATIPSCSLAAMMDSPSESREVMVLDHNYRIVVHPEQRKL 232 Query: 76 GGLQNVVDFLQLETELN------GKFALHLDDVLTGVTYRKSSYNGWTYLSVVSINDITR 129 G + D E EL+ G+F +D+ VTY +S +NGW Y S ++ IT+ Sbjct: 233 G--LYLTDTGYAEAELDHFDSKSGQFETKIDNRQVSVTYVRSDFNGWLYASFTEMSAITK 290 Query: 130 EVKAIRWYTVYISIGIFAFMIV 151 E ++I W+T+YI + + F ++ Sbjct: 291 ESRSIGWFTLYICLLMIGFSVL 312 >O30503.1 O30503_BACSU YtdP Length = 514 Score = 68.2 bits (165), Expect = 2e-10, Method: Composition-based stats. Identities = 42/126 (33%), Positives = 70/126 (55%), Gaps = 5/126 (3%) Query: 17 SIALLKKLPINTLANNVGLAIVKLPAARL-KNLMPVTDDGRTVILDNQGNPLIQLEGYST 75 +I L+K+LP+N+ N GLA +P+ L KN+ ++ I+D +G ++ Sbjct: 181 NINLIKQLPLNS-TNTKGLAAASIPSCSLVKNMPGYSNANNLFIIDEKGLIILHNNMSDV 239 Query: 76 GGLQNVVDFLQ---LETELNGKFALHLDDVLTGVTYRKSSYNGWTYLSVVSINDITREVK 132 G + F+Q +T +G+F +D + VTY+KS YN WTY S+VS+ ++ +E K Sbjct: 240 GESLHNDGFVQKVLAQTANSGQFETVIDRIHYKVTYQKSDYNAWTYFSLVSLPELKKEAK 299 Query: 133 AIRWYT 138 +I W T Sbjct: 300 SIGWIT 305 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 0.137 0.394 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: 864,146,689 Number of extensions: 34097215 Number of successful extensions: 86099 Number of sequences better than 1.0e-05: 11 Number of HSP's gapped: 86101 Number of HSP's successfully gapped: 11 Length of query: 152 Length of database: 3,060,696,203 Length adjustment: 114 Effective length of query: 38 Effective length of database: 1,986,700,493 Effective search space: 75494618734 Effective search space used: 75494618734 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: 125 (52.8 bits)