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= 0249.0008.p (275 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value SPy1556 [T] COG4753 Response regulator containing CheY-like rece... 134 1e-31 SPy1062 [T] COG4753 Response regulator containing CheY-like rece... 127 1e-29 BH3679 [T] COG4753 Response regulator containing CheY-like recei... 125 5e-29 SP0661 [T] COG4753 Response regulator containing CheY-like recei... 121 1e-27 BH2109 [T] COG4753 Response regulator containing CheY-like recei... 105 8e-23 >SPy1556 [T] COG4753 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain Length = 246 Score = 134 bits (338), Expect = 1e-31, Method: Compositional matrix adjust. Identities = 82/268 (30%), Positives = 140/268 (52%), Gaps = 22/268 (8%) Query: 1 MWKVLLVEDEVFVRESVREIIAWEELGFTVSGEAGNGAEALDIIRRDVPDLVITDIIMPE 60 M+ +L+VEDE VR+ +R ++ + + EA NG A D+ +++ D+V+TDI MP+ Sbjct: 1 MYSLLIVEDEYLVRQGIRSLVDFSQFKIDRVNEAENGQLAWDLFQKEPYDIVLTDINMPK 60 Query: 61 MDGVELLRRTREEGYSSRFVMLTCMSDFEYVRQAMEYGASNYILKLSMSVNSLRETLRKI 120 ++G++L ++E + V LT DF Y A++ GA +Y+LK S + + L K+ Sbjct: 61 LNGIQLAELIKQESPQTHLVFLTGYDDFNYALSALKLGADDYLLK-PFSKADVEDMLGKL 119 Query: 121 SNELLKDGEKRDSSPDPVQAKSGTDERNAKALPPLLHEEVTSHPEIQKILQYIHAHYPED 180 +L + + +Q ++ A+ +HE + D Sbjct: 120 RKKL-----ELSKKTETIQELVEQPQKEVSAIAMAIHERLADS----------------D 158 Query: 181 ITVKSMSQYVMMGENYVSTLFKKKTGHTLIHYLHQVRVNQAIQYLCHSDLPVYEIGNRVG 240 +T+KS++Q + NY+S L KK+ G YL Q R+ +A L S+L +YEI +VG Sbjct: 159 LTLKSLAQQLGFSPNYLSVLIKKELGMPFQDYLVQERLKKAKLLLLTSNLKIYEIAEQVG 218 Query: 241 FVNDNYFIKIFKRLTAQTPSQYRQNNRS 268 F + NYF + FK+L TPSQY++ ++ Sbjct: 219 FEDMNYFSQRFKQLVGVTPSQYKKGGQA 246 >SPy1062 [T] COG4753 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain Length = 262 Score = 127 bits (320), Expect = 1e-29, Method: Compositional matrix adjust. Identities = 81/278 (29%), Positives = 146/278 (52%), Gaps = 25/278 (8%) Query: 1 MWKVLLVEDEVFVRESVREIIAWEELGFTVSGEAGNGAEALDIIRRDVPDLVITDIIMPE 60 M+K++++EDE +R+ +R I ++ L V GEA +G E +I+ PD+V+TDI MP Sbjct: 1 MYKLVIIEDEHIIRKWLRYAIDYKALDILVIGEAKDGKEGAVLIKESQPDIVLTDINMPI 60 Query: 61 MDGVELLRRTREEGYSSRFVMLTCMSDFEYVRQAMEYGASNYILKLSMSVNSLRETLRKI 120 M ++ T+++ Y+ ++L+ +DF R A+ YG ++ K + +L E L+ I Sbjct: 61 MTAFDMFEVTKDQTYAK--IILSGYADFPNARSAIHYGVLEFLTK-PIEKAALWECLQTI 117 Query: 121 SNELLKDGEKRDSSPDPVQAKSGTDERNAKALPPLLHEEVTSHPEIQK-ILQYIHAHYPE 179 + ++ + G++++ + L + PE+ K IL+++HAH+ + Sbjct: 118 IAK--------------IEKQKGSNQKTDACVYIPLPQMTDQIPEVVKDILEWVHAHFQD 163 Query: 180 DITVKSMSQYVMMGENYVSTLFKKKTGHTLIHYLHQVRVNQAIQYLCHS-DLPVYEIGNR 238 I+ ++ + E+Y+ KK L Y++Q R+NQAIQ + DL VYEI Sbjct: 164 KISTSRLAHDLGYSESYIYQNIKKHLQMPLSDYINQYRINQAIQLMQQEPDLMVYEIAQA 223 Query: 239 VGFVNDNYFIKIFKRLTAQTPSQYRQ------NNRSKP 270 VG + YF ++FK+ QT +++ +RSKP Sbjct: 224 VGIYDYRYFDRVFKKYLGQTVKAFKEEHFMKDTDRSKP 261 >BH3679 [T] COG4753 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain Length = 257 Score = 125 bits (315), Expect = 5e-29, Method: Compositional matrix adjust. Identities = 82/264 (31%), Positives = 136/264 (51%), Gaps = 14/264 (5%) Query: 4 VLLVEDEVFVRESVREII-AWEELGFTVSGEAGNGAEALDIIRRDVPDLVITDIIMPEMD 62 VL+V+DE R ++ + AW V A + EA+ + + DL+ITDI MPEM Sbjct: 6 VLIVDDEPRSRRGLKRTLEAWSPKLLNVQT-AASAKEAITRLNEETIDLIITDIRMPEMS 64 Query: 63 GVELLRRTREEGYSSRFVMLTCMSDFEYVRQAMEYGASNYILKLSMSVNSLRETLRKISN 122 G+ L++ +E+ ++++ S+FEY A+E G +Y+LK +E L + Sbjct: 65 GLHLVKALQEQNPKPVCIVISAYSEFEYAHTALELGVRHYLLK-----PVKKEKLIEAVE 119 Query: 123 ELLKDGEKRDSSPDPVQAKSGTDERNAKALPPLLHEEVTSHPEIQKILQYIHAHYPEDIT 182 L+ +++D Q + DE+ + + E ++S I + L YI AH + I Sbjct: 120 SALQMKKEQDRFG---QVEKVWDEK----IDAIEKERLSSSDSIHEALHYIDAHLDQKIG 172 Query: 183 VKSMSQYVMMGENYVSTLFKKKTGHTLIHYLHQVRVNQAIQYLCHSDLPVYEIGNRVGFV 242 +K +++ V + +Y+S LFK+KT T YL + R+ A L +D P+ +I + G+ Sbjct: 173 LKDVAKSVHLNPSYLSALFKEKTNMTFSEYLTRKRLQHAKHLLVSTDRPISDIAEKCGYQ 232 Query: 243 NDNYFIKIFKRLTAQTPSQYRQNN 266 YFIKIFK TP+QYR+ Sbjct: 233 TAKYFIKIFKEHEGMTPTQYRKGT 256 >SP0661 [T] COG4753 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain Length = 245 Score = 121 bits (303), Expect = 1e-27, Method: Compositional matrix adjust. Identities = 81/265 (30%), Positives = 134/265 (50%), Gaps = 26/265 (9%) Query: 2 WKVLLVEDEVFVRESVREIIAWEELGFTVSGEAGNGAEALDIIRRDVPDLVITDIIMPEM 61 + +L+VEDE VR+ + +++ + G+A NG +A ++I++ VPD+++TDI MP + Sbjct: 3 YTILIVEDEYLVRQGLTKLVNVAAYDMEIIGQAENGRQAWELIQKQVPDIILTDINMPHL 62 Query: 62 DGVELLRRTREEGYSSRFVMLTCMSDFEYVRQAMEYGASNYILKLSMSVNSLRETLRKIS 121 +G++L RE V LT DF+Y A++ G +Y+LK S + E L KI Sbjct: 63 NGIQLASLVRETYPQVHLVFLTGYDDFDYALSAVKLGVDDYLLK-PFSRQDIEEMLGKIK 121 Query: 122 NELLKDGEKRDSSPDPVQAKSGTDERNAKALPPLLHEEVTSHPEIQKILQYIHAHYPED- 180 +L K E + L LL + + Q I +H + Sbjct: 122 QKLDK-------------------EEKEEQLQDLLTNRFEGN-----MAQKIQSHLADSQ 157 Query: 181 ITVKSMSQYVMMGENYVSTLFKKKTGHTLIHYLHQVRVNQAIQYLCHSDLPVYEIGNRVG 240 ++KS++ + Y+S+L KK+ G YL + RV QA L +DL +YEI +VG Sbjct: 158 FSLKSLASDLGFSPTYLSSLIKKELGLPFQDYLVRERVKQAKLLLLTTDLKIYEIAEKVG 217 Query: 241 FVNDNYFIKIFKRLTAQTPSQYRQN 265 F + NYF + FK++ TP Q+++ Sbjct: 218 FEDMNYFTQRFKQIAGVTPRQFKKG 242 >BH2109 [T] COG4753 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain Length = 525 Score = 105 bits (262), Expect = 8e-23, Method: Compositional matrix adjust. Identities = 51/135 (37%), Positives = 89/135 (65%), Gaps = 4/135 (2%) Query: 1 MWKVLLVEDEVFVRESVREIIAWEELGFTVSGEAGNGAEALDIIRRDVPDLVITDIIMPE 60 M+KVLL +DE FVR ++ +I WE+ G+ V+ EA NG +A +++ PDLVITDI MP Sbjct: 1 MYKVLLADDEFFVRHGLKSLIEWEKCGYEVAAEADNGEDAFKLVQEIKPDLVITDIRMPV 60 Query: 61 MDGVELLRRTREE-GYSSRFVMLTCMSDFEYVRQAMEYGASNYILKLSMSVNSLRETLRK 119 DG++L+++ E ++++F++++ +DF Y ++A+ +GA +++LK + + L L K Sbjct: 61 FDGLQLIQKVNETLSFNTKFIIISGYNDFSYAQKAVRFGAVDFVLK-PIDQDELEAALIK 119 Query: 120 ISNELLKDGEKRDSS 134 ++ L D EK +S Sbjct: 120 LAATL--DQEKATNS 132 Score = 80.1 bits (196), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 57/198 (28%), Positives = 104/198 (52%), Gaps = 7/198 (3%) Query: 72 EEGYSSRFVML--TCMSDFE---YVRQAMEYGASNYILKLSMSVNSLR-ETLRKISNELL 125 EE S R V + S+F+ +V A++ + + K+ +V ++ +T + IS + + Sbjct: 324 EENNSDRIVNIIDKIFSEFQTKKFVPSAVKTSVNRCVHKVMQTVQAMEGDTGKIISAQAM 383 Query: 126 KDGEKRDSSPDPVQAKSGTDERNAKALPPLLHEEVTSHPEIQKILQYIHAHYPEDITVKS 185 + E + + D ++ A + L +E +I K+ YI HY E+I++KS Sbjct: 384 TNWESYNLTFDQLKQVFTKFVLEAAVIIQELRKE-NMKSDIYKVKTYIENHYHENISLKS 442 Query: 186 MSQYVMMGENYVSTLFKKKTGHTLIHYLHQVRVNQAIQYLCHSDLPVYEIGNRVGFVNDN 245 ++ M Y+ LFKK G YL ++R+N+A + L +D+ VYE+ RVGF + + Sbjct: 443 IASLFYMNPVYMGQLFKKTFGVYFKEYLLKLRMNEAKKLLRQTDMRVYEVAERVGFGSTD 502 Query: 246 YFIKIFKRLTAQTPSQYR 263 YF+ F+++ TP++YR Sbjct: 503 YFVTQFEKINKMTPTEYR 520 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 0.134 0.385 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: 20,268,259 Number of extensions: 831481 Number of successful extensions: 4233 Number of sequences better than 1.0e-05: 355 Number of HSP's gapped: 4278 Number of HSP's successfully gapped: 363 Length of query: 275 Length of database: 38,378,431 Length adjustment: 105 Effective length of query: 170 Effective length of database: 26,268,361 Effective search space: 4465621370 Effective search space used: 4465621370 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: 115 (48.9 bits)