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= 0053.0004.p (324 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value SP1725 [K] COG1609 Transcriptional regulators 246 2e-65 SPy1817 [K] COG1609 Transcriptional regulators 231 9e-61 BS_rbsR [K] COG1609 Transcriptional regulators 222 8e-58 SP1799 [K] COG1609 Transcriptional regulators 217 2e-56 BS_degA [K] COG1609 Transcriptional regulators 196 6e-50 >SP1725 [K] COG1609 Transcriptional regulators Length = 321 Score = 246 bits (629), Expect = 2e-65, Method: Compositional matrix adjust. Identities = 133/325 (40%), Positives = 205/325 (63%), Gaps = 8/325 (2%) Query: 1 MATINDVAEQAGVSVTTVSRVLNNRGYISEKTRQKVYQVMDELNYQPNELARSLLRKHSN 60 +A + DVA+ AGVS TTVSRV+N +GY+SEKT QKV + M EL Y+PN LARSL K + Sbjct: 2 VAKLTDVAKLAGVSPTTVSRVINKKGYLSEKTIQKVNEAMRELGYKPNNLARSLQGKSAK 61 Query: 61 VLGLIIPSVAHPFFGELANAIESVAYQHGFKLLLCNSQLDSAKEREYVDMMRRNRVDGMI 120 ++GLI P++++ F+ EL + +E +++G+K ++CNS+ DS KEREY++M+ N+VDG+I Sbjct: 62 LIGLIFPNISNVFYAELIDKLEHQLFKNGYKTIICNSEHDSEKEREYIEMLEANQVDGII 121 Query: 121 LGSHTLEIGDYTHLNYPLVTIDRRIG-DIPFVASDNENGGALAARLLIAKGCRKIGHLSG 179 GSH L I DY + P+++ DR + DIP V+SDN GG LAA+ L+ G + I ++G Sbjct: 122 SGSHNLGIEDYNRVTAPIISFDRNLSPDIPVVSSDNYAGGVLAAQTLVKTGAQSIIMITG 181 Query: 180 NMKLDMLSNLRTTGFEREARQGGVKFVTYQTELDVFDEQIYNEIIRKMFTEHPDIDGVFA 239 N + + LR GF + + V+ + +I N + R E P D +FA Sbjct: 182 NDNSNSPTGLRHAGFASVLPKAPIINVSSDFSPVRKEMEIKNILTR----EKP--DAIFA 235 Query: 240 TSDLMALFVMKWCRTFGKEVPRDVRIIGYDDIDAASWYMPGLSTIKQPIKDMARRAVELL 299 + DL A+ V+K + G VP+++++IGYD Y P L+TIKQP++++A ++LL Sbjct: 236 SDDLTAILVIKIAQELGISVPKELKVIGYDGTYFIENYYPQLATIKQPLEEIACLTIDLL 295 Query: 300 LEQMDDKTVERET-VLPVELVERES 323 L++++ K V LPV L+ +S Sbjct: 296 LQKIEGKEVATTGYFLPVTLLPGKS 320 >SPy1817 [K] COG1609 Transcriptional regulators Length = 321 Score = 231 bits (590), Expect = 9e-61, Method: Compositional matrix adjust. Identities = 124/324 (38%), Positives = 199/324 (61%), Gaps = 6/324 (1%) Query: 1 MATINDVAEQAGVSVTTVSRVLNNRGYISEKTRQKVYQVMDELNYQPNELARSLLRKHSN 60 +A + DVA AGVS TTVSRV+N +GY+S+KT KV + M EL Y+PN LARSL K + Sbjct: 2 VAKLTDVAALAGVSPTTVSRVINKKGYLSQKTVNKVNKAMRELGYKPNNLARSLQGKSTQ 61 Query: 61 VLGLIIPSVAHPFFGELANAIESVAYQHGFKLLLCNSQLDSAKEREYVDMMRRNRVDGMI 120 ++GLI P++++ F+ EL +E ++ G+K ++CNS+ + KEREY++M+ N+VDG+I Sbjct: 62 LIGLIFPNISNIFYAELIEHLEIELFKQGYKTIICNSEHNPVKEREYLEMLAANQVDGII 121 Query: 121 LGSHTLEIGDYTHLNYPLVTIDRRIG-DIPFVASDNENGGALAARLLIAKGCRKIGHLSG 179 SH L I DY + P+V DR + +IP ++SDN GG LAA+ L GC+ I ++G Sbjct: 122 SSSHNLGIEDYERVEAPIVAFDRNLAPNIPVISSDNFEGGKLAAQTLQKHGCQNIVMITG 181 Query: 180 NMKLDMLSNLRTTGFEREARQGGVKFVTYQTELDVFDEQIYNEIIRKMFTEHPDIDGVFA 239 N D + LR GF + ++ + + L ++ EI + T P DG+F Sbjct: 182 NDNSDSPTGLRQLGFNYQLKRSA-EIIKLPNNLSPVRREM--EIKSILATRKP--DGLFV 236 Query: 240 TSDLMALFVMKWCRTFGKEVPRDVRIIGYDDIDAASWYMPGLSTIKQPIKDMARRAVELL 299 + DL A+ +MK + +P D+++IGYD Y+P L+TI+QPI ++A+ +VE+L Sbjct: 237 SDDLTAILIMKVAKQLHITIPEDMKVIGYDGTTFIQQYVPQLATIRQPIDEIAKLSVEIL 296 Query: 300 LEQMDDKTVERETVLPVELVERES 323 ++++ + ++ +LP+ L+ S Sbjct: 297 IKKIKKEKTSKDYILPITLLPGAS 320 >BS_rbsR [K] COG1609 Transcriptional regulators Length = 330 Score = 222 bits (565), Expect = 8e-58, Method: Compositional matrix adjust. Identities = 61/326 (18%), Positives = 111/326 (34%), Gaps = 6/326 (1%) Query: 1 MATINDVAEQAGVSVTTVSRVLNNRGYISEKTRQKVYQVMDELNYQPNELARSLLRKHSN 60 MAT+ DVA AGVS +TVS V+N ++SE KV + ELNY P+ LARSL ++ Sbjct: 1 MATMKDVARLAGVSTSTVSHVINKDRFVSEAITAKVEAAIKELNYAPSALARSLKLNQTH 60 Query: 61 VLGLIIPSVAHPFFGELANAIESVAYQHGFKLLLCNSQLDSAKEREYVDMMRRNRVDGMI 120 +G++I + +PF+ EL +E ++ G+ L+LCN++ D + ++ + + RVDG++ Sbjct: 61 TIGMLITASTNPFYSELVRGVERSCFERGYSLVLCNTEGDEQRMNRNLETLMQKRVDGLL 120 Query: 121 LGSHTLEIGDYTHLNYPLVTIDRRIGDIPFVASDNENGGALAARLLIAKGCRKIGHLSGN 180 L + + PF + +A + Sbjct: 121 LLCTETHQPSREIMQRYPTVPTVMMDWAPFDGDSDLIQDNSLLGGDLATQYLIDKGHTRI 180 Query: 181 MKLDMLSNLRTTGFEREARQGGVKFVTYQT-ELDVFDEQIYNEIIRKMFTEHPDIDGVFA 239 + + +T R + + Sbjct: 181 ACITGPLD-KTPARLRLEGYRAAMKRAGLNIPDGYEVTG---DFEFNGGFDAMRQLLSHP 236 Query: 240 TSDLMALFVMKWCRTFGKEVPRDVRIIGYDDIDAASWYMPGLSTIKQPIKDMARRAVELL 299 + + DI + L++ P + + L Sbjct: 237 LRPQAVFTGNDAMAVGVYQALYQAELQVPQDIAVIGYDDIELASFMTPPLTTIHQPKDEL 296 Query: 300 LEQMDDKTVERETV-LPVELVEREST 324 E D + R T + + + Sbjct: 297 GELAIDVLIHRITQPTLQQQRLQLTP 322 >SP1799 [K] COG1609 Transcriptional regulators Length = 333 Score = 217 bits (553), Expect = 2e-56, Method: Compositional matrix adjust. Identities = 124/324 (38%), Positives = 191/324 (58%), Gaps = 7/324 (2%) Query: 3 TINDVAEQAGVSVTTVSRVLNNRGYISEKTRQKVYQVMDELNYQPNELARSLLRKHSNVL 62 T+ DVA +AGVSV TVSRV+N I E T +KV Q + LNY P+ AR + + + + Sbjct: 9 TMKDVALEAGVSVGTVSRVINKEKGIKEVTLKKVEQAIKTLNYIPDYYARGMKKNRTETI 68 Query: 63 GLIIPSVAHPFFGELANAIESVAYQHGFKLLLCNSQLDSAKEREYVDMMRRNRVDGMILG 122 +I+PS+ HPFF E A +E+ Y+ KLLLC+ + +E++Y++M+R N+VDG++ Sbjct: 69 AIIVPSIWHPFFSEFAMHVENEVYKRNNKLLLCSIN-GTNREQDYLEMLRHNKVDGVVAI 127 Query: 123 SHTLEIGDYTHLNYPLVTIDRRIGD--IPFVASDNENGGALAARLLIAKGCRKIGHLSGN 180 +++ I Y P V+IDR D IP V+SDN+ GG AA+ LI+KGC+ + + G+ Sbjct: 128 TYS-PIEHYLTSGIPFVSIDRTYSDIAIPCVSSDNDAGGREAAKQLISKGCQHLAFVGGH 186 Query: 181 MKLDMLSNLRTTGFEREARQGGVKFVTYQTELDVFDEQIYNEIIRKMFTEHPDIDGVFAT 240 + R FE+ ++ + + + V D Y + E+ IDG+F Sbjct: 187 NTTINETKRRRISFEKYVQEHKIPLSIFDLDETVTD---YYGKLESFLEENSSIDGIFTI 243 Query: 241 SDLMALFVMKWCRTFGKEVPRDVRIIGYDDIDAASWYMPGLSTIKQPIKDMARRAVELLL 300 +D AL V++ GK +P DV+IIGYD I A LSTI+QP+++MA+ AV +L Sbjct: 244 NDFTALDVIEILEKNGKRIPHDVQIIGYDGIKMAGDRDYLLSTIEQPLEEMAKEAVRILF 303 Query: 301 EQMDDKTVERETVLPVELVEREST 324 + +D KTV +T+LPV+ VE ++T Sbjct: 304 DIIDGKTVNLQTILPVKFVEGKTT 327 >BS_degA [K] COG1609 Transcriptional regulators Length = 337 Score = 196 bits (497), Expect = 6e-50, Method: Compositional matrix adjust. Identities = 122/334 (36%), Positives = 189/334 (56%), Gaps = 17/334 (5%) Query: 3 TINDVAEQAGVSVTTVSRVLNNRGYISEKTRQKVYQVMDELNYQPNELARSLLRKHSNVL 62 TI DVA+ AGVS+TTVSRV+NN G IS+KTRQKV VM+E+ Y PN A +L K +N++ Sbjct: 4 TIYDVAKAAGVSITTVSRVINNTGRISDKTRQKVMNVMNEMAYTPNVHAAALTGKRTNMI 63 Query: 63 GLIIPSVAHPFFGELANAIESVAYQHGFKLLLCNSQLDSAKEREYVDMMRRNRVDGMILG 122 L+ P +++PF+GELA +IE A + GF++L+C++ D KE +Y ++++ +VDG+I Sbjct: 64 ALVAPDISNPFYGELAKSIEERADELGFQMLICSTDYDPKKETKYFSVLKQKKVDGIIFA 123 Query: 123 ----SH----TLEIGDYTHLNYPLVTIDRRIGDIPFVASDNENGGALAARLLIAKGCRKI 174 SH LE + +++ D+ + + V D+ GG AA+ L++ G I Sbjct: 124 TGIESHDSMSALEEIASEQIPIAMISQDKPLLPMDIVVIDDVRGGYEAAKHLLSLGHTNI 183 Query: 175 GHLSGNMKLDMLSNLRTTGFEREARQGGVKF---VTYQTELDVFDEQIYNEIIRKMFTEH 231 + G+ N R GF + + GV + QT + E E + + Sbjct: 184 ACIIGDGSTTGEKN-RIKGFRQAMEEAGVPIDESLIIQTRFSL--ESGKEEAGKLLDRNA 240 Query: 232 PDIDGVFATSDLMALFVMKWCRTFGKEVPRDVRIIGYDDIDAASWYMPGLSTIKQPIKDM 291 P +FA +D++A ++ R G +VP D+ IIG+D+ A P L+T+ QPIK+M Sbjct: 241 P--TAIFAFNDVLACAAIQAARIRGIKVPDDLSIIGFDNTILAEMAAPPLTTVAQPIKEM 298 Query: 292 ARRAVELLLEQMDDK-TVERETVLPVELVEREST 324 R +ELL E ++ K +++ VLP ELV R ST Sbjct: 299 GRSVIELLAEAIEGKRKAKQKIVLPPELVVRHST 332 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 0.320 0.137 0.391 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: 23,478,945 Number of extensions: 956077 Number of successful extensions: 3706 Number of sequences better than 1.0e-05: 184 Number of HSP's gapped: 3446 Number of HSP's successfully gapped: 188 Length of query: 324 Length of database: 38,378,431 Length adjustment: 107 Effective length of query: 217 Effective length of database: 26,037,693 Effective search space: 5650179381 Effective search space used: 5650179381 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: 116 (49.3 bits)