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= 0312.0009.p (359 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value BS_yvhJ [K] COG1316 Transcriptional regulator 118 2e-26 lin2662 [K] COG1316 Transcriptional regulator 98 2e-20 alr2479 [K] COG1316 Transcriptional regulator 95 1e-19 BS_ywtF [K] COG1316 Transcriptional regulator 89 1e-17 SA2103 [K] COG1316 Transcriptional regulator 88 3e-17 >BS_yvhJ [K] COG1316 Transcriptional regulator Length = 391 Score = 118 bits (295), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 64/204 (31%), Positives = 109/204 (53%), Gaps = 9/204 (4%) Query: 87 KPLTFLLAGVDNRSGSGGTLNTDVLMPVVYEPVSRKLSILSIPRDMKIASSEMGTHKXXX 146 KP + L G+++ + G +D L+ V +P ++ + +LSIPRD ++ + T Sbjct: 75 KPFSILFMGIEDYATKGQKGRSDSLIVVTLDPKNKTMKMLSIPRDTRVQLAGDTTGSKTK 134 Query: 147 XXXXXXXHNKGEDLSKTREFYGDILQMDIDHMILVNFEAFSSIVDELGGLDIDVPMDMRY 206 K E + F LQ+ ID + V+F+ F +++E+GG+D+DVP D Sbjct: 135 INAAYSKGGKDETVETVENF----LQIPIDKYVTVDFDGFKDVINEVGGIDVDVPFDFDE 190 Query: 207 VDNADGTN-INLTKGRQHLNGKKVLDFVRYRKSNRGTAESSDFSRNERQQEVLNLILDKL 265 + D + I KG HLNG++ L + R RK ++ DF RN+RQ+++LN ++D++ Sbjct: 191 KSDVDESKRIYFKKGEMHLNGEEALAYARMRKQDK----RGDFGRNDRQKQILNALIDRM 246 Query: 266 DSVSGIAKWGNIIDILGDNIRTDI 289 S S IAK I + +N+ T+I Sbjct: 247 SSASNIAKIDKIAEKASENVETNI 270 >lin2662 [K] COG1316 Transcriptional regulator Length = 349 Score = 98.2 bits (243), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 64/212 (30%), Positives = 111/212 (52%), Gaps = 13/212 (6%) Query: 89 LTFLLAGVDNRS--GSGGTLNTDVLMPVVYEPVSRKLSILSIPRDMKIASSEMGTHKXXX 146 + L+ GVD + S G +D L+ + ++ + SIPRD + + Sbjct: 78 FSILIIGVDTSTTRASNGNPRSDSLILATFNVKDARVEMTSIPRDSYVHIEDSAKEINKY 137 Query: 147 XXXXXXXHNKGEDLS-KTREFYGDILQMDIDHMILVNFEAFSSIVDELGGLDIDVPMDMR 205 G +L+ KT E + ++ ID+ + +F+AF I+D L G+D+DVP++ Sbjct: 138 TKINAAHAYGGPELTMKTVE---EEFKIPIDYYVRFDFDAFLKIIDALDGIDVDVPVNFT 194 Query: 206 YVDNADGTN-INLTKGRQHLNGKKVLDFVRYRKSNRGTAESSDFSRNERQQEVLNLILDK 264 D+ D N I L KG QHLN ++ L R R + SD R +RQQ ++ I+ + Sbjct: 195 EQDSKDNQNAITLKKGPQHLNAEQALALARTRHID------SDIERGKRQQLIIKSIVSE 248 Query: 265 LDSVSGIAKWGNIIDILGDNIRTDIGKDQLRS 296 SVS ++K+ +II+++GDN++T++ +Q+ S Sbjct: 249 ATSVSSVSKYSDIIEVVGDNMKTNLTFNQMLS 280 >alr2479 [K] COG1316 Transcriptional regulator Length = 359 Score = 95.1 bits (235), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 7/188 (3%), Positives = 21/188 (11%), Gaps = 15/188 (7%) Query: 109 DVLMPVVYEPVSRKLSILSIPRDMKIASSEMGTHKXXXXXXXXXXHNKGEDLSKT--REF 166 + + + E + Sbjct: 136 QAEAFYHRLTQCKNVRQPVNIVSHFARADEPKCGATEKQLA-----IFNTFCEGKPGQRS 190 Query: 167 YGDILQMDIDHMILVNFEAFSSIVDELGGLDIDVPMDMRYVDNADGTNINLTKGRQHLNG 226 + + + L G+ + Sbjct: 191 IAAS---GGILLWPQSHFDWVRPGIILYGVSPLEDRSTGADFGCQPVMSLTSSLIAVREH 247 Query: 227 KKVLDFVRYRKSNRGTAESSDFSRNERQQEVLNLILDKLDSVSGIAKWGNIIDILGDNIR 286 K +R + + + Sbjct: 248 KAGEPVGYGGTWVSE-----RDTRLGVVAMGYGDGYPRAAPSGTPVLVNGREVPIVGRVA 302 Query: 287 TDIGKDQL 294 D+ L Sbjct: 303 MDMICVDL 310 >BS_ywtF [K] COG1316 Transcriptional regulator Length = 322 Score = 89.0 bits (219), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 80/277 (28%), Positives = 137/277 (49%), Gaps = 36/277 (12%) Query: 89 LTFLLAGVDNRSGSGGTLN---TDVLMPVVYEPVSRKLSILSIPRDMKIASSEMGTHKXX 145 + LL G+D R +G T++ +D + V + + +LSIPRD + G K Sbjct: 74 FSVLLLGIDAREKNGETVDQARSDANVLVTFNRKEKTAKMLSIPRDAYVNIPGHGYDKFT 133 Query: 146 XXXXXXXXHNKGEDLS-KTREFYGDILQMDIDHMILVNFEAFSSIVDELGGLDIDVPMD- 203 G DL+ KT E ++L + +D+++ NF AF +V+EL G+ + V D Sbjct: 134 HAHAYG-----GVDLTVKTVE---EMLDIPVDYVVESNFTAFEDVVNELNGVKVTVKSDK 185 Query: 204 -MRYVDNADGTNINLTKGRQHLNGKKVLDFVRYRKSNRGTAESSDFSRNERQQEVLNLIL 262 ++ + + L KG L+G++ L +VR RK++ SD R +RQ EVL+ I+ Sbjct: 186 VIQQIKKDTKGKVVLQKGTHTLDGEEALAYVRTRKAD------SDLXRGQRQMEVLSAII 239 Query: 263 DKLDSVSGIAKWGNIIDILGDNIRTDIGKDQLRSWILNYPSMKPAASELITLESGWKSPY 322 DK S+S I + +I+D +G N++ ++ L+ I +P + + L ++ES + Y Sbjct: 240 DKSKSLSSIPAYDDIVDTMGQNLKMNLS---LKDAIGLFPFI----TSLKSVESIQLTGY 292 Query: 323 VYANKEDLLVKL--QKLREPLALPALDTRKLLHDFGI 357 Y KL QKL+E ++L +D G+ Sbjct: 293 DYEPAGVYYFKLNQQKLQEV-------KKELQNDLGV 322 >SA2103 [K] COG1316 Transcriptional regulator Length = 315 Score = 87.8 bits (216), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 65/219 (29%), Positives = 107/219 (48%), Gaps = 21/219 (9%) Query: 88 PLTFLLAGVD---NRSGSGGTLNTDVLMPVVYEPVSRKLSILSIPRDMKIASSEMGTHKX 144 P T L GVD +R GG +D +M + P ++K I+SIPRD + GT + Sbjct: 68 PFTIALFGVDSDADRKKKGGGERSDSIMILSINPKTKKTEIVSIPRDTRAEIVGRGTTEK 127 Query: 145 XXXXXXXXXHNKG-EDLSKTREFYGDILQMDIDHMILVNFEAFSSIVDELGGLDIDVPMD 203 N + L K ++ + IDH ++ + +++D +GG+D+ V D Sbjct: 128 IAHAYAYGGPNMAVKSLEK-------LMNVPIDHYATIDMDGLHNMIDSIGGVDV-VSND 179 Query: 204 MRYVDNADGTNINLTKGRQ-HLNGKKVLDFVRYRKSNRGTAESSDFSRNERQQEVLNLIL 262 VD + TKG+Q H+NG + L F+R RK DF R +RQQ VL + Sbjct: 180 TFTVDG-----VRFTKGQQTHVNGDQALKFIRSRKEE---GAGGDFGRQQRQQIVLEAMA 231 Query: 263 DKLDSVSGIAKWGNIIDILGDNIRTDIGKDQLRSWILNY 301 +K+ S S I + ++++ + +N++TD+ L + NY Sbjct: 232 NKIASPSSITHFNSLMNEIQNNVKTDLTLGDLNTIRSNY 270 Database: COG Posted date: Aug 3, 2010 9:58 AM Number of letters in database: 38,378,431 Number of sequences in database: 115,334 Lambda K H 0.317 0.135 0.382 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 115334 Number of Hits to DB: 23,515,486 Number of extensions: 924110 Number of successful extensions: 1534 Number of sequences better than 1.0e-05: 26 Number of HSP's gapped: 1503 Number of HSP's successfully gapped: 26 Length of query: 359 Length of database: 38,378,431 Length adjustment: 108 Effective length of query: 251 Effective length of database: 25,922,359 Effective search space: 6506512109 Effective search space used: 6506512109 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 (21.6 bits) S2: 116 (49.3 bits)