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= 0286.0004.p (339 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value CAC0317 [T] COG0642 Signal transduction histidine kinase 132 1e-30 BS_resE_4 [T] COG0642 Signal transduction histidine kinase 127 3e-29 BS_phoR_3 [T] COG0642 Signal transduction histidine kinase 127 4e-29 lin2727 [T] COG0642 Signal transduction histidine kinase 117 2e-26 lin2061 [T] COG0642 Signal transduction histidine kinase 117 3e-26 >CAC0317 [T] COG0642 Signal transduction histidine kinase Length = 498 Score = 132 bits (331), Expect = 1e-30, Method: Compositional matrix adjust. Identities = 80/285 (28%), Positives = 151/285 (52%), Gaps = 6/285 (2%) Query: 36 FSQLMVKR-ITRPLEQIAEAIERMGKGEYKERLSITADYEFSVIQHRFNEMAESLEQAER 94 F +V R I PL Q+ E++ G ++ + E + F+ M + L+++ Sbjct: 201 FITFLVSRSILIPLNQLKIGTEKIKHGNLDFKVRAESSDEIGELCDAFDSMRKKLKESVE 260 Query: 95 ENRRLQDSKQRMLADLSHDLKTPVTTIQGYAKALQLGLVDSEEKKERYLQLIYNKATVVT 154 + +++++ +++++SHDLKTP+T+I+GY + ++ G+ D+ EK E+Y+ IYNK + Sbjct: 261 LQAQYENNRKELISNISHDLKTPITSIKGYIEGIRDGVADTPEKMEKYVNTIYNKTQSMN 320 Query: 155 ALIDDLFRLSKLERPDHPISVERGDLAELLREIAADYYDAMEDKGMVMELDIPSGEVMAG 214 LI++L SKL+ P D + ++ ++ +E M D + Sbjct: 321 YLIEELLTYSKLDLKKLPFYFIDMDFVSYMNDLMEEFKFDVEKNNMEFSYD---NHIKGK 377 Query: 215 YXXXXDPGLMRRAIANLLSNAVQH-NSGGTVVLIALEELAEDVRIRVQDNGGGISDELKE 273 D + R I+N++SN++++ + + + ++ E+V + ++DNG GIS+E Sbjct: 378 ANVRIDVQNINRVISNIISNSIKYMDKEHGKISVEVDSNNEEVLVGIKDNGMGISEEALP 437 Query: 274 VIFDPFVRGDAAR-PGDGGTGLGLAISKQILELHRGKLKLDNRNG 317 +FD F R D +R GG+GLGLAI K+I+E H G + ++ G Sbjct: 438 YVFDRFYREDFSRNTSKGGSGLGLAICKKIIEEHGGSIWAKSQKG 482 >BS_resE_4 [T] COG0642 Signal transduction histidine kinase Length = 269 Score = 127 bits (319), Expect = 3e-29, Method: Compositional matrix adjust. Identities = 74/236 (31%), Positives = 134/236 (56%), Gaps = 6/236 (2%) Query: 95 ENRRLQDSKQRMLADLSHDLKTPVTTIQGYAKALQLGLVDSEEKKERYLQLIYNKATVVT 154 E RRL ++ +A++SH+L+TP++ +QGY++A+ + SEE ++ Q+IY+++ + Sbjct: 37 EERRLDKLREDFIANVSHELRTPISMLQGYSEAIVDDIASSEEDRKEIAQIIYDESLRMG 96 Query: 155 ALIDDLFRLSKLERPDHPISVERGDLAELLREIAADYYDAMEDKGMVMELDIPSGEVMAG 214 L++DL L+++E + E+ ++ E L +I + ++K + ++ DI E Sbjct: 97 RLVNDLLDLARMESGHTGLHYEKINVNEFLEKIIRKFSGVAKEKNIALDHDISLTEEEFM 156 Query: 215 YXXXXDPGLMRRAIANLLSNAVQHNSGGTVVLIALEELAEDVRIRVQDNGGGISDELKEV 274 + D M + NL+ NA++H S G V I++ + + ++I ++D+G GI +E Sbjct: 157 F----DEDKMEQVFTNLIDNALRHTSAGGSVSISVHSVKDGLKIDIKDSGSGIPEEDLPF 212 Query: 275 IFDPFVRGDAARP-GDGGTGLGLAISKQILELHRGKLKLDNR-NGLTVFELVVRKK 328 IF+ F + D AR G GTGLGLAI K I+E H G + + +R + T F + K Sbjct: 213 IFERFYKADKARTRGRAGTGLGLAIVKNIVEAHNGSITVHSRIDKGTTFSFYIPTK 268 >BS_phoR_3 [T] COG0642 Signal transduction histidine kinase Length = 431 Score = 127 bits (318), Expect = 4e-29, Method: Compositional matrix adjust. Identities = 18/259 (6%), Positives = 47/259 (18%), Gaps = 16/259 (6%) Query: 72 DYEFSVIQHRFNEMAESLEQAERENRRLQDSKQRMLADLSHDLKTPVTTIQGYAKALQLG 131 + + TP + L Sbjct: 28 FGYLPWFLLASVTGLLI--------WHFWNLLRLSWWLWVDRSMTPPPGRGSWEPLLYGL 79 Query: 132 LVDSEEKKERYLQLIYNKATVVTALIDDLFRLSKLERPDHPISVERGDLAELLREIAADY 191 K+R +L + + L D Sbjct: 80 HQMQLRNKKRRRELGNLIKRFRSGAESLPDAVVLTTEEGGIFWCNGLAQQILGLRWPEDN 139 Query: 192 YDAMEDKGMVMELDIPSG-EVMAGYXXXXDPGLMRRAIANLLSNAVQHNSGGTVVLIALE 250 + + E + L+ +L + + +++ Sbjct: 140 GQNILNLLRYPEFTQYLKTRDFSR-----PLNLVLNTGRHLEIRVMPYTHKQLLMVARDV 194 Query: 251 ELAEDVRIRVQDNGGGISDELKEVIFDPFVRGDAARP-GDGGTGLGLAISKQILELHRGK 309 + ++ +S EL+ + + G A+ + R + Sbjct: 195 TQMHQLEGARRNFFANVSHELRTPLTVLQGYLEMMNEQPLEGAVREKALHTMREQTQRME 254 Query: 310 LKLDNRNGL-TVFELVVRK 327 + L + Sbjct: 255 GLVKQLLTLSKIEAAPTHL 273 >lin2727 [T] COG0642 Signal transduction histidine kinase Length = 182 Score = 117 bits (294), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 0/288 (0%), Positives = 0/288 (0%), Gaps = 16/288 (5%) Query: 42 KRITRPLEQIAEAIERMGKGEYKERLSITADYEFSVIQHRFNEMAESLEQAERENRRLQD 101 Sbjct: 185 ------- 237 Query: 102 SKQRMLADLSHDLKTPVTTIQGYAKALQLGLVDSEEKKERYLQLIYNKATVVTALIDDLF 161 Sbjct: 238 - 296 Query: 162 RLSKLERPDHPISVERGDLAELLREIAADYYDAMEDKGMVMELDIPSGEVMAGYXXXXDP 221 Sbjct: 297 ------ 350 Query: 222 GLMRRAIANLLSNAVQHNSGGTVVLIALEELAEDVRIRVQDNGGGISDELKEVIFDPFVR 281 Sbjct: 351 410 Query: 282 GDAARP-GDGGTGLGLAISKQILELHRGKLKLD-NRNGLTVFELVVRK 327 Sbjct: 411 458 >lin2061 [T] COG0642 Signal transduction histidine kinase Length = 182 Score = 117 bits (292), Expect = 3e-26, Method: Compositional matrix adjust. Identities = 0/230 (0%), Positives = 0/230 (0%), Gaps = 17/230 (7%) Query: 95 ENRRLQDSKQRMLADLSHDLKTPVTTIQGYAKALQLGLVDSEEKKERYLQLIYNKATVVT 154 Sbjct: 358 417 Query: 155 ALIDDLFRLSKLERPDHPISVERGDLAELLREIAADYYDAMEDKGMV---MELDIPSGEV 211 Sbjct: 418 -- 475 Query: 212 MAGYXXXXDPGLMRRAIANLLSNAVQHN-----SGGTVVLIALEELAEDVRIRVQDNGGG 266 Sbjct: 476 ----- 530 Query: 267 ISDELKEVIFDPFVRGDAARP-GDG-GTGLGLAISKQILELHRGKLKLDN 314 Sbjct: 531 580 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 0.318 0.137 0.373 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: 23,472,124 Number of extensions: 988455 Number of successful extensions: 4822 Number of sequences better than 1.0e-05: 265 Number of HSP's gapped: 4301 Number of HSP's successfully gapped: 265 Length of query: 339 Length of database: 38,378,431 Length adjustment: 107 Effective length of query: 232 Effective length of database: 26,037,693 Effective search space: 6040744776 Effective search space used: 6040744776 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 (21.7 bits) S2: 116 (49.3 bits)