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= 0027.0004.p (367 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value BH3670 [K] COG1316 Transcriptional regulator 154 3e-37 BS_lytR [K] COG1316 Transcriptional regulator 154 3e-37 BH3647 [K] COG1316 Transcriptional regulator 142 6e-34 SA2103 [K] COG1316 Transcriptional regulator 132 1e-30 lin2662 [K] COG1316 Transcriptional regulator 129 7e-30 >BH3670 [K] COG1316 Transcriptional regulator Length = 304 Score = 154 bits (388), Expect = 3e-37, Method: Compositional matrix adjust. Identities = 101/297 (34%), Positives = 157/297 (52%), Gaps = 15/297 (5%) Query: 52 LAVLAFDLFLSDRVEDKLKQESYQPLVNDGTTTVKPEPV--VYKSDPFSLMLLGTDQREN 109 +A++ + ++L +++ E ++PL + G + K + + DPFS+++ G D RE+ Sbjct: 17 VAIIGYGIYLYSSIQNT-AGEMHEPL-DRGDKSDKRDVAFDISAQDPFSILIAGVDSRED 74 Query: 110 ETA-RSDTMIYAVIRPEDYKILLISIPRDTYTEIIGHDDNKKDKITHAYAFGGQQMAKDT 168 A RSDT+I + P++ I ++SIPRDT TEI+G DKI HAYAFGG QM DT Sbjct: 75 THAGRSDTLIVLTVNPKEESIKMLSIPRDTRTEIVGR--GTDDKINHAYAFGGAQMTIDT 132 Query: 169 LENLLGHDIQYYATINFQGLKDAVDAIGGVPLPIKKDIVNKGKDHEKFTIKGGKSNYNGE 228 +EN L I +Y +IN G VDA+GGV + G E +G G+ Sbjct: 133 VENFLDIPIDHYVSINMDGFTQLVDALGGVSVENSFAFSQNGYQFE----EGEIFLETGD 188 Query: 229 EALNYTRYR-EDS--DFNRTKRQQVFIDVVANKMLSISQIGNIPELLDIMGDNFKTDIQP 285 EAL Y R R +DS DF R RQ+ ++ V + S I +LD +G++ +TD+Q Sbjct: 189 EALAYARMRKQDSRGDFGRNDRQRQIVEAVIKQSAQFSSITKAGAILDAVGESVRTDLQL 248 Query: 286 SMIISLAKKFMGGKDMDISSFTVMGEGERIGGIYYDIVDEEDLTEAKAMIDNWMNAS 342 + L + G +I + GEG RI IYY I+ +E++ + + + + S Sbjct: 249 DGMWELQSNYRGAAK-NIEQLEITGEGTRINNIYYLIIPQEEIARVQGELKSHLELS 304 >BS_lytR [K] COG1316 Transcriptional regulator Length = 306 Score = 154 bits (388), Expect = 3e-37, Method: Compositional matrix adjust. Identities = 85/246 (34%), Positives = 136/246 (55%), Gaps = 11/246 (4%) Query: 88 EPVVYKSDPFSLMLLGTDQRENETARSDTMIYAVIRPEDYKILLISIPRDTYTEIIGHDD 147 E + K DPFS++++G D+R+ + R+DT+IY + P+ ++SIPRDTYT+IIG Sbjct: 58 EVSINKKDPFSVLIMGVDERDGDKGRADTLIYMTVNPKTNTTDMVSIPRDTYTKIIGK-- 115 Query: 148 NKKDKITHAYAFGGQQMAKDTLENLLGHDIQYYATINFQGLKDAVDAIGGVPLPIKKDIV 207 DKI H+YAFGG QM DT+EN L + Y+ +N + +D VD +GG+ + Sbjct: 116 GTMDKINHSYAFGGTQMTVDTVENFLDVPVDYFVKVNMESFRDVVDTLGGITVNSTFAF- 174 Query: 208 NKGKDHEKFTIKGGKSNYNGEEALNYTRYRED---SDFNRTKRQQVFIDVVANKMLSISQ 264 ++ ++ G+ NG+EAL YTR R++ DF R RQ+ I + NK +IS Sbjct: 175 ----SYDGYSFGKGEITLNGKEALAYTRMRKEDPRGDFGRQDRQRQVIQGIINKGANISS 230 Query: 265 IGNIPELLDIMGDNFKTDIQPSMIISLAKKFMGGKDMDISSFTVMGEGERIGGIYYDIVD 324 I ++ ++ +N KT++ + + + G + I + G G +I GIYY D Sbjct: 231 ITKFGDMFKVVENNVKTNLTFDNMWDIQSDYKGARKH-IKQHELKGTGTKINGIYYYQAD 289 Query: 325 EEDLTE 330 E L++ Sbjct: 290 ESALSD 295 >BH3647 [K] COG1316 Transcriptional regulator Length = 359 Score = 142 bits (359), Expect = 6e-34, Method: Compositional matrix adjust. Identities = 99/298 (33%), Positives = 152/298 (51%), Gaps = 13/298 (4%) Query: 46 FLFQKPLAVLAFD---LFLSDRVEDKLKQESYQPLVNDGTTTVKPEPVVYKSDPFSLMLL 102 F+ LA+LAF +++ +V + ES L + + E V D FS++LL Sbjct: 21 FMTMTLLALLAFTCLGVYVYFKVS-SVASESTVDLERGDKSEKRIEAVDPSKDNFSVLLL 79 Query: 103 GTDQRENET-ARSDTMIYAVIRPEDYKILLISIPRDTYTEIIGHDDNKKDKITHAYAFGG 161 G D R E AR+D M+ A ED I+L SIPRD+ EI+G DKI HA+A+GG Sbjct: 80 GDDSRPGEARARTDAMLVATFNKEDQSIILTSIPRDSRVEIVGR--GHLDKINHAHAYGG 137 Query: 162 QQMAKDTLENLLGHDIQYYATINFQGLKDAVDAIGGVPLPIKKDIVNKGKDHEKFTIKGG 221 M DT+E+LL I YY + FQGL D VDA+GG+ + + D K +++ + G Sbjct: 138 IDMTIDTVEHLLDIPIDYYGIVRFQGLIDIVDALGGIEVEVPFDFEEKDTNNDWIQFQEG 197 Query: 222 KSNYNGEEALNYTRYRED----SDFNRTKRQQVFIDVVANKMLSISQIGNIPELLDIMGD 277 +GEEAL + R R+ D R +RQQ I+ + K S S I ++LD +G+ Sbjct: 198 LHTLDGEEALAFARMRKHPQGGGDLGRGQRQQQVIEGIIKKAASFSSITRFDDVLDALGE 257 Query: 278 NFKTDIQPSMIISLAKKFMGGKDMDISSFTVMGEGERIGGIYYDIVDEEDLTEAKAMI 335 N + + + +++L +I + + G + GIYY +D+ L E + + Sbjct: 258 NIQMNFTFNNLVALHS--YASSISEIETLQLQGTDLMLNGIYYYELDQGSLFEIQTRL 313 >SA2103 [K] COG1316 Transcriptional regulator Length = 315 Score = 132 bits (331), Expect = 1e-30, Method: Compositional matrix adjust. Identities = 86/254 (33%), Positives = 143/254 (56%), Gaps = 23/254 (9%) Query: 95 DPFSLMLLGTD-----QRENETARSDTMIYAVIRPEDYKILLISIPRDTYTEIIGHDDNK 149 DPF++ L G D +++ RSD+++ I P+ K ++SIPRDT EI+G Sbjct: 67 DPFTIALFGVDSDADRKKKGGGERSDSIMILSINPKTKKTEIVSIPRDTRAEIVGR--GT 124 Query: 150 KDKITHAYAFGGQQMAKDTLENLLGHDIQYYATINFQGLKDAVDAIGGVPLPIKKDIVNK 209 +KI HAYA+GG MA +LE L+ I +YATI+ GL + +D+IGGV D+V+ Sbjct: 125 TEKIAHAYAYGGPNMAVKSLEKLMNVPIDHYATIDMDGLHNMIDSIGGV------DVVSN 178 Query: 210 GK---DHEKFTIKGGKSNYNGEEALNYTRYRED----SDFNRTKRQQVFIDVVANKMLSI 262 D +FT KG +++ NG++AL + R R++ DF R +RQQ+ ++ +ANK+ S Sbjct: 179 DTFTVDGVRFT-KGQQTHVNGDQALKFIRSRKEEGAGGDFGRQQRQQIVLEAMANKIASP 237 Query: 263 SQIGNIPELLDIMGDNFKTDIQPSMIISLAKKFMGGKDMDISSFTVMGEGE-RIGGIYYD 321 S I + L++ + +N KTD+ + ++ + D I+ + G+G + G+YY Sbjct: 238 SSITHFNSLMNEIQNNVKTDLTLGDLNTIRSNYKDANDT-INKHQLSGQGGIQSDGLYYF 296 Query: 322 IVDEEDLTEAKAMI 335 I E+ E+ ++ Sbjct: 297 IPSEQSKAESTKLL 310 >lin2662 [K] COG1316 Transcriptional regulator Length = 349 Score = 129 bits (324), Expect = 7e-30, Method: Compositional matrix adjust. Identities = 81/265 (30%), Positives = 142/265 (53%), Gaps = 10/265 (3%) Query: 73 SYQPLVNDGTTTVKPEPVVYKSDPFSLMLLGTD----QRENETARSDTMIYAVIRPEDYK 128 S+ + N +T++ V D FS++++G D + N RSD++I A +D + Sbjct: 54 SFDNVRNGKASTLRTNDVEPIKDSFSILIIGVDTSTTRASNGNPRSDSLILATFNVKDAR 113 Query: 129 ILLISIPRDTYTEI--IGHDDNKKDKITHAYAFGGQQMAKDTLENLLGHDIQYYATINFQ 186 + + SIPRD+Y I + NK KI A+A+GG ++ T+E I YY +F Sbjct: 114 VEMTSIPRDSYVHIEDSAKEINKYTKINAAHAYGGPELTMKTVEEEFKIPIDYYVRFDFD 173 Query: 187 GLKDAVDAIGGVPLPIKKDIVNK-GKDHEK-FTIKGGKSNYNGEEALNYTRYRE-DSDFN 243 +DA+ G+ + + + + KD++ T+K G + N E+AL R R DSD Sbjct: 174 AFLKIIDALDGIDVDVPVNFTEQDSKDNQNAITLKKGPQHLNAEQALALARTRHIDSDIE 233 Query: 244 RTKRQQVFIDVVANKMLSISQIGNIPELLDIMGDNFKTDIQPSMIISLAKKFMGGKDMDI 303 R KRQQ+ I + ++ S+S + ++++++GDN KT++ + ++S+AK M K +DI Sbjct: 234 RGKRQQLIIKSIVSEATSVSSVSKYSDIIEVVGDNMKTNLTFNQMLSIAKFGMSNK-IDI 292 Query: 304 SSFTVMGEGERIGGIYYDIVDEEDL 328 S + G+ + GIYY ++E + Sbjct: 293 KSLNLKGDSNPMNGIYYYKLNESSV 317 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 0.316 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: 25,052,106 Number of extensions: 1024403 Number of successful extensions: 2606 Number of sequences better than 1.0e-05: 39 Number of HSP's gapped: 2518 Number of HSP's successfully gapped: 39 Length of query: 367 Length of database: 38,378,431 Length adjustment: 108 Effective length of query: 259 Effective length of database: 25,922,359 Effective search space: 6713890981 Effective search space used: 6713890981 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)