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= 0504.0006.p (256 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 119 5e-27 lin2727 [T] COG0642 Signal transduction histidine kinase 115 5e-26 TM1654_2 [T] COG0642 Signal transduction histidine kinase 110 3e-24 lin2515 [T] COG0642 Signal transduction histidine kinase 109 3e-24 RSc1535 [T] COG0642 Signal transduction histidine kinase 108 1e-23 >CAC0317 [T] COG0642 Signal transduction histidine kinase Length = 498 Score = 119 bits (298), Expect = 5e-27, Method: Compositional matrix adjust. Identities = 78/256 (30%), Positives = 132/256 (51%), Gaps = 9/256 (3%) Query: 5 DEIGELYKHFNKMEHRLQLA-------HREQTDMIAAIAHDLKTPLTSINGFTELLATH- 56 DEIGEL F+ M +L+ + + ++I+ I+HDLKTP+TSI G+ E + Sbjct: 239 DEIGELCDAFDSMRKKLKESVELQAQYENNRKELISNISHDLKTPITSIKGYIEGIRDGV 298 Query: 57 KDLPETEKQEYYELIQRKSEYMVELLNDFSSFTKEKLELESMIATPVKATELFEDIAFEY 116 D PE + ++Y I K++ M L+ + +++K L+ + D+ E+ Sbjct: 299 ADTPE-KMEKYVNTIYNKTQSMNYLIEELLTYSKLDLKKLPFYFIDMDFVSYMNDLMEEF 357 Query: 117 EYELAGLDIELTCRHSFTDSIWLTVNEPMIRRVFGNLFSNAVRYGGKNKLKVYMTGYLRE 176 ++++ ++E + + + ++ I RV N+ SN+++Y K K+ + Sbjct: 358 KFDVEKNNMEFSYDNHIKGKANVRIDVQNINRVISNIISNSIKYMDKEHGKISVEVDSNN 417 Query: 177 HYAYFQIEDNGIGVPDKDMSSLFLKFFTVDQSRQIQKGGLGLGLASCKSIIEHHGGEIVA 236 I+DNG+G+ ++ + +F +F+ D SR KGG GLGLA CK IIE HGG I A Sbjct: 418 EEVLVGIKDNGMGISEEALPYVFDRFYREDFSRNTSKGGSGLGLAICKKIIEEHGGSIWA 477 Query: 237 YSSEYGGLGIRFSLPL 252 S + G I FS+ L Sbjct: 478 KSQKGHGTEIWFSIKL 493 >lin2727 [T] COG0642 Signal transduction histidine kinase Length = 182 Score = 115 bits (289), Expect = 5e-26, Method: Compositional matrix adjust. Identities = 0/254 (0%), Positives = 0/254 (0%), Gaps = 11/254 (4%) Query: 1 LKRKDEIGELYKHFNKMEHRLQLAHREQTDMIAAIAHDLKTPLTSINGFTELLATHKDLP 60 Sbjct: 212 - 270 Query: 61 ETEKQEYYELIQRKSEYMVELLNDFSSFTKEKLELESMIATPVKATELFEDIAFEYEYEL 120 Sbjct: 271 -- 328 Query: 121 AGLDIELTCRHSFTDSIWLTVNEPMIRRVFGNLFSNAVRY---GGKNKLKVYMTGYLREH 177 Sbjct: 329 ----- 383 Query: 178 YAYFQIEDNGIGVPDKDMSSLFLKFFTVDQSRQIQKGGLGLGLASCKSIIEHHGGEIVAY 237 Sbjct: 384 443 Query: 238 SSEYGGLGIRFSLP 251 Sbjct: 444 457 >TM1654_2 [T] COG0642 Signal transduction histidine kinase Length = 272 Score = 110 bits (274), Expect = 3e-24, Method: Compositional matrix adjust. Identities = 84/260 (32%), Positives = 133/260 (51%), Gaps = 21/260 (8%) Query: 1 LKRKDEIGELYKHFNKMEHRLQLAHREQTDMIAAIAHDLKTPLTSINGFTELLATHKDLP 60 LK D+I + H E +L RE IA ++H+L+TPLTSI+G+ E L DL Sbjct: 22 LKSGDKIFVILFHDVTKERKLDEMRRE---FIATVSHELRTPLTSIHGYAETLL-EDDLE 77 Query: 61 ETE-KQEYYELIQRKSEYMVELLNDFSSFTKEKLELESMIATPVKATELFEDIAFEYEY- 118 E + + ++I+ +S M L+ND EK+E ES +K +L E I + Y Sbjct: 78 NKELVKRFLKIIEEESARMTRLINDLLDL--EKIE-ESEANFEMKDVDLCEVIEYVYRII 134 Query: 119 ----ELAGLDIELTCRHSFTDSIWLTVNEPMIRRVFGNLFSNAVRYGG---KNKLKVYMT 171 E +D+ + C + + + N+ + ++ NL NAV+Y K + KV++ Sbjct: 135 QPIAEENEVDLIVEC-----EDVVVRGNKERLIQMLLNLVDNAVKYTSLKEKGEKKVWVR 189 Query: 172 GYLREHYAYFQIEDNGIGVPDKDMSSLFLKFFTVDQSRQIQKGGLGLGLASCKSIIEHHG 231 Y + ++ED G G+P + S +F KF+ VD++R + GG GLGL K+I++ HG Sbjct: 190 AYDTPDWVVVEVEDTGPGIPKEAQSRIFEKFYRVDKARSRKMGGTGLGLTIVKTIVDKHG 249 Query: 232 GEIVAYSSEYGGLGIRFSLP 251 G+I S G +R LP Sbjct: 250 GKIEVESEINQGTLMRVLLP 269 >lin2515 [T] COG0642 Signal transduction histidine kinase Length = 182 Score = 109 bits (273), Expect = 3e-24, Method: Compositional matrix adjust. Identities = 0/238 (0%), Positives = 0/238 (0%), Gaps = 5/238 (2%) Query: 15 NKMEHRLQLAHREQTDMIAAIAHDLKTPLTSINGFTELLATHKDLPETEKQEYYELIQRK 74 Sbjct: 147 206 Query: 75 SEYMVELLNDFSSFTKEKLELESMIATPVKATELFEDIAFEYEYELAGLDIELTCRHSFT 134 Sbjct: 207 - 265 Query: 135 DSIWLTVNEPMIRRVFGNLFSNAVRYGGKNKLKVYMTGYLREHYAYFQIEDNGIGVPDKD 194 Sbjct: 266 - 324 Query: 195 MSSLFLKFFTVDQSRQIQKGGLGLGLASCKSIIEHHGGEIVAYSSEYGGLGIRFSLPL 252 Sbjct: 325 --- 379 >RSc1535 [T] COG0642 Signal transduction histidine kinase Length = 443 Score = 108 bits (269), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 71/225 (31%), Positives = 112/225 (49%), Gaps = 11/225 (4%) Query: 30 DMIAAIAHDLKTPLTSINGFTELLATHKDLP--ETEKQEYYELIQRKSEYMVELLNDFSS 87 D +A ++H+LKTPLT ++GF E T +DLP E +K+ Y +++ ++ M L+ D + Sbjct: 209 DFVANVSHELKTPLTVLSGFLE---TVRDLPLSEDDKRRYLDMMHVQATRMQHLVEDLLA 265 Query: 88 FTKEKLELESMIATPVKATELFEDIAFEYEYELAGL-DIELTCRHSFTDSIWLTVNEPMI 146 + E TPV + + + E AG I +TC S + + E + Sbjct: 266 LATLEGNSEPPSITPVPMQRVMLQLQHDAEALSAGRHAISMTCDASVS----VCGAELEL 321 Query: 147 RRVFGNLFSNAVRYGGKNKLKVYMTGYLREHYAYFQIEDNGIGVPDKDMSSLFLKFFTVD 206 F NL SNA+RY + ++ + RE +A F + D GIG+ + + L +F+ VD Sbjct: 322 LSAFSNLVSNAIRYTPEGG-RISLDWSAREGHAVFSVTDTGIGIAPEHIPRLTERFYRVD 380 Query: 207 QSRQIQKGGLGLGLASCKSIIEHHGGEIVAYSSEYGGLGIRFSLP 251 +SR GG GLGLA K ++ HG ++ S G R S P Sbjct: 381 RSRSRDTGGTGLGLAIVKHVLSRHGADLQVVSERGKGSTFRASFP 425 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 0.319 0.137 0.393 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: 19,388,706 Number of extensions: 778383 Number of successful extensions: 7014 Number of sequences better than 1.0e-05: 224 Number of HSP's gapped: 6736 Number of HSP's successfully gapped: 224 Length of query: 256 Length of database: 38,378,431 Length adjustment: 104 Effective length of query: 152 Effective length of database: 26,383,695 Effective search space: 4010321640 Effective search space used: 4010321640 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: 114 (48.5 bits)