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= 0012.0009.p (350 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value BH3561 [K] COG2390 Transcriptional regulator, contains sigma fac... 281 2e-75 lin2554 [K] COG2390 Transcriptional regulator, contains sigma fa... 256 5e-68 BS_yvbQ [K] COG2390 Transcriptional regulator, contains sigma fa... 253 3e-67 BH0780 [K] COG2390 Transcriptional regulator, contains sigma fac... 91 3e-18 SMb20501 [K] COG2390 Transcriptional regulator, contains sigma f... 72 1e-12 >BH3561 [K] COG2390 Transcriptional regulator, contains sigma factor-related N-terminal domain Length = 339 Score = 281 bits (718), Expect = 2e-75, Method: Compositional matrix adjust. Identities = 149/335 (44%), Positives = 218/335 (65%), Gaps = 2/335 (0%) Query: 1 MRNLLEIQKQLLPDLMETLKRRYTILHQIMLSDIIGRRTLAASLDMTERVLRAETDLLKS 60 M L++IQ++L PD+++ + +RY IL I L IGRR+L++SL ++ERVLR E LK Sbjct: 1 MDQLIDIQRKLAPDVLDIMIKRYRILQYIRLMQPIGRRSLSSSLAISERVLRGEVTFLKD 60 Query: 61 QGLIEIESVGMRVSDAGRRLLDLLEPIAKSLFGLDDLEEKIRTTYGLNKVIVVPGDCETS 120 QGL+ GM V+ G +L + LE + K L GL DLE K+R+ G+ + IVVPGD + Sbjct: 61 QGLLMFAPTGMYVTAEGEKLYEQLEGVMKELLGLRDLEAKLRSRLGVKEAIVVPGDSDAF 120 Query: 121 PFTKRELGRAGAKALLGVLRSEDTVAVTGGSTLAEMADQLTLPIPLSYKNAWVVPARGGL 180 + KRELGRA + ++ D +AV GG+TLA +A+ +T P P + + VPARGGL Sbjct: 121 TWVKRELGRACIARMKEAVKPHDVIAVMGGTTLAAVAEMMT-PDP-NMETVTFVPARGGL 178 Query: 181 GESMEIQANTIASTMAKRIGANYRLLHVPDLLSEDAYQSLALDFNIGEIVQXXXXXXXXV 240 GE +E QANTI++ MA + GANY+LLHVPD LSE+ Y SL + + +I++ + Sbjct: 179 GEQVENQANTISAQMAGKAGANYKLLHVPDQLSEETYASLIAEPGVRDILEKIKSASMVI 238 Query: 241 HGIGDAMEMTRRRKLDEATIAEIQEEGAVAESFGYYFNEEGQVVHTMLTMGLRLEDIIRT 300 HGIG+A M RR E + ++ EE VAE+FGYYF+++G V + T+GL+L+ + + Sbjct: 239 HGIGEANTMALRRGSSEEFLHKLTEEQVVAEAFGYYFDKKGTVRYKQRTIGLQLDTLDDS 298 Query: 301 EVVIGIAGGKRKAKAIHAMLRFGQEDILVTDEAAA 335 ++VI +AGG KA+AI A + + D+L+TDE AA Sbjct: 299 KLVISVAGGASKAEAISAYMNYRPSDVLITDEEAA 333 >lin2554 [K] COG2390 Transcriptional regulator, contains sigma factor-related N-terminal domain Length = 348 Score = 256 bits (653), Expect = 5e-68, Method: Compositional matrix adjust. Identities = 138/337 (40%), Positives = 208/337 (61%), Gaps = 3/337 (0%) Query: 1 MRNLLEIQKQLLPDLMETLKRRYTILHQIMLSDIIGRRTLAASLDMTERVLRAETDLLKS 60 M +L+ IQK+LLPD++ +++RY IL I S+ +GRRTLA L M+ERVLR E + LK+ Sbjct: 1 MSDLINIQKKLLPDVLMIMQKRYQILRSIYFSEPVGRRTLAGMLGMSERVLRGEVEFLKA 60 Query: 61 QGLIEIESVGMRVSDAGRRLLDLLEPIAKSLFGLDDLEEKIRTTYGLNKVIVVPGDCETS 120 QGL+EI S GM V+ G + LE + L GL +EE++ + K +VV GD + + Sbjct: 61 QGLVEIASSGMTVTKEGLVVFRDLENVMNQLSGLHSMEEQLAKKLQIKKCLVVQGDSDDT 120 Query: 121 PFTKRELGRAGAKAL-LGVLRSEDTVAVTGGSTLAEMADQLTLPIPLSYKNAWVVPARGG 179 P+ + E+GR + L + + + VAV GGST+A +A+ +T + VP RGG Sbjct: 121 PWVREEMGRVAVEQLDMALTEKRNIVAVMGGSTMATVAEMMTTDFAKG-RELLFVPGRGG 179 Query: 180 LGESMEIQANTIASTMAKRIGANYRLLHVPDLLSEDAYQSLALDFNIGEIVQXXXXXXXX 239 +GE ++ QANTI MA + +R+L+VP+ L E+AY+SL + I E ++ Sbjct: 180 IGEDLDNQANTICDKMATKTNTKHRVLYVPEQLGEEAYRSLLKEPAIQEGLRLVQSANAI 239 Query: 240 VHGIGDAMEMTRRRKLDEATIAEIQEEGAVAESFGYYFNEEGQVVHTMLTMGLRLEDIIR 299 + GIGDA+ M +RR E + +I AV E+FGYYF+E+G+VVH + T GL+ ED+ + Sbjct: 240 ILGIGDALAMAKRRHTGEDVLEKIIRRKAVGEAFGYYFDEQGEVVHKVPTFGLQFEDLAQ 299 Query: 300 TEVVIGIAGGKRKAKAIHAMLRFGQED-ILVTDEAAA 335 +I +AGG KAKAI + ++ ++ IL+TDE AA Sbjct: 300 IPHIIAVAGGTSKAKAIKSYMKSAPKNTILITDEGAA 336 >BS_yvbQ [K] COG2390 Transcriptional regulator, contains sigma factor-related N-terminal domain Length = 340 Score = 253 bits (647), Expect = 3e-67, Method: Compositional matrix adjust. Identities = 139/336 (41%), Positives = 211/336 (62%), Gaps = 4/336 (1%) Query: 1 MRNLLEIQKQLLPDLMETLKRRYTILHQIMLSDIIGRRTLAASLDMTERVLRAETDLLKS 60 M L++ QK+LLPDL+ +++R+ IL I L++ IGRR+L+ASL ++ERVLR E LK Sbjct: 1 MNQLIQAQKKLLPDLLLVMQKRFEILQYIRLTEPIGRRSLSASLGISERVLRGEVQFLKE 60 Query: 61 QGLIEIESVGMRVSDAGRRLLDLLEPIAKSLFGLDDLEEKIRTTYGLNKVIVVPGDCETS 120 Q L++I++ GM +++ G LL +LE K + GL LE+ ++ L I+V GD + S Sbjct: 61 QNLVDIKTNGMTLTEEGYELLSVLEDTMKDVLGLTLLEKTLKERLNLKDAIIVSGDSDQS 120 Query: 121 PFTKRELGRAGAKALLGVLRSEDTVAVTGGSTLAEMADQLTLPIPLSY-KNAWVVPARGG 179 P+ K+E+GRA + ++ VAVTGG+T+ +A+ +T P S + VPARGG Sbjct: 121 PWVKKEMGRAAVACMKKRFSGKNIVAVTGGTTIEAVAEMMT---PDSKNRELLFVPARGG 177 Query: 180 LGESMEIQANTIASTMAKRIGANYRLLHVPDLLSEDAYQSLALDFNIGEIVQXXXXXXXX 239 LGE ++ QANTI + MA++ YRLL VP LS+ AY S+ + ++ E++ Sbjct: 178 LGEDVKNQANTICAHMAEKASGTYRLLFVPGQLSQGAYSSIIEEPSVKEVLNTIKSASML 237 Query: 240 VHGIGDAMEMTRRRKLDEATIAEIQEEGAVAESFGYYFNEEGQVVHTMLTMGLRLEDIIR 299 VHGIG+A M +RR + +I + AV E+FGYYFN +G+VVH + ++G++L+DI Sbjct: 238 VHGIGEAKTMAQRRNTPLEDLKKIDDNDAVTEAFGYYFNADGEVVHKVHSVGMQLDDIDA 297 Query: 300 TEVVIGIAGGKRKAKAIHAMLRFGQEDILVTDEAAA 335 +I +AGG KA+AI A + + +LVTDE AA Sbjct: 298 IPDIIAVAGGSSKAEAIEAYFKKPRNTVLVTDEGAA 333 >BH0780 [K] COG2390 Transcriptional regulator, contains sigma factor-related N-terminal domain Length = 316 Score = 90.9 bits (224), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 63/248 (25%), Positives = 127/248 (51%), Gaps = 11/248 (4%) Query: 96 DLEEKIRTTYGLNKVIVVPGDCETSPFTKRELGRAGAKALLGVLRSEDTVAVTGGSTLAE 155 +LE+++ Y L + IVVP T KR +G+A + + ++ D++ ++ G+T++ Sbjct: 64 ELEQRLEKKYHLKEAIVVPTSGLTQDMIKRAIGKATSYYVSKNIKGMDSIGISWGTTVSS 123 Query: 156 MADQLTLPIPLSYKNAWVVPARGGLGESM-EIQANTIASTMAKRIGANYRLLHVPDLL-S 213 + ++ V+P GG+G E+ +N +A +AK++ L+ P ++ + Sbjct: 124 FVQEYPYE---QHRELKVIPLVGGMGRKFVELHSNLLAYELAKKMNCECSYLYAPAMVEA 180 Query: 214 EDAYQSLALDFNIGEIVQXXXXXXXXVHGIGDAME---MTRRRKLDEATIAEIQEEGAVA 270 ++ + L +I +++ V GIG + M L E IA +++ GAV Sbjct: 181 KELKERLIQSEDIASVLEEGRNVKMAVVGIGSPFKGSTMKVMNYLKEEDIATLKKIGAVG 240 Query: 271 ESFGYYFNEEGQVV-HTM--LTMGLRLEDIIRTEVVIGIAGGKRKAKAIHAMLRFGQEDI 327 + +++ GQ + H + L +G+ L+++ R +VIG++ G K ++ A L+ G D+ Sbjct: 241 DMSSRFYDALGQPIDHPLNELVIGIDLDELKRIPIVIGVSEGAHKVDSVEAALKGGYLDV 300 Query: 328 LVTDEAAA 335 LVTD++ A Sbjct: 301 LVTDDSTA 308 >SMb20501 [K] COG2390 Transcriptional regulator, contains sigma factor-related N-terminal domain Length = 326 Score = 72.4 bits (176), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 65/269 (24%), Positives = 121/269 (44%), Gaps = 12/269 (4%) Query: 79 RLLDLLE-PIAKSLFGLDDLEEKIRTTYGLNKVIVVPGDCETSPFTKRELGRAGAKALLG 137 R L L+E I + L ++EE++ G+ + +VVP + + +G A A+ +L Sbjct: 50 RQLGLVEIKIKSPVEPLVEIEEQLLALGGIRRAVVVPTVSDNPQIALQSVGEAAARLMLE 109 Query: 138 VLRSEDTVAVTGGSTLAEMADQLTLPIPLSYKNAWVVPARGGLGESMEIQANTIASTMAK 197 + DT+ +TGG ++ + L P + V+PA G + N +++ MA Sbjct: 110 QISDGDTICITGGKGVSAVVAGLQ---PSRRFDIEVIPATGCVQGKHYTDVNHVSTLMAD 166 Query: 198 RIGANYRLLHVPDLLSEDAYQSLALDF-NIGEIVQXXXXXXXXVHGIGDAM-EMTRRRKL 255 R+G + +H P +A + + L ++ ++ + V GIG + + + L Sbjct: 167 RLGGHSFQIHAPLFADSEAERKMLLGMRSVADVFKRARDAKIAVVGIGSILSDDSSYYDL 226 Query: 256 DEATIAE---IQEEGAVAESFGYYFNEEGQVVHTMLT---MGLRLEDIIRTEVVIGIAGG 309 ++ + I++ GA E + ++ G+V L + L L + IG+A G Sbjct: 227 HPSSSTDREAIEQSGASCELLAHLLDDHGRVCGYGLNRRLVSLTLSEFASIPTKIGVASG 286 Query: 310 KRKAKAIHAMLRFGQEDILVTDEAAAVEI 338 KA I +++R D LVTD+A I Sbjct: 287 PSKAGPILSVMRGNHLDTLVTDQATGARI 315 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 0.136 0.370 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: 24,189,334 Number of extensions: 1017244 Number of successful extensions: 2190 Number of sequences better than 1.0e-05: 28 Number of HSP's gapped: 2167 Number of HSP's successfully gapped: 28 Length of query: 350 Length of database: 38,378,431 Length adjustment: 107 Effective length of query: 243 Effective length of database: 26,037,693 Effective search space: 6327159399 Effective search space used: 6327159399 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)