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= 0254.0006.p (239 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value STM3602 [K] COG2188 Transcriptional regulators 152 6e-37 CAC3502 [K] COG2188 Transcriptional regulators 151 1e-36 BS_yurK [K] COG2188 Transcriptional regulators 122 5e-28 BH0419 [K] COG2188 Transcriptional regulators 122 6e-28 SPy1202 [K] COG2188 Transcriptional regulators 119 6e-27 >STM3602 [K] COG2188 Transcriptional regulators Length = 239 Score = 152 bits (383), Expect = 6e-37, Method: Compositional matrix adjust. Identities = 88/232 (37%), Positives = 126/232 (54%), Gaps = 3/232 (1%) Query: 5 QPDS--IIPLYVQLKDIIKSDIEAGIMKPGQKIPTEFELCEMYSISRRTVRTAISELIEE 62 QPDS PLY QL+ +K I G KPGQ+IPTE EL + +SR TVR A+ L E Sbjct: 4 QPDSKSAKPLYKQLEAALKEAIARGEYKPGQQIPTENELSVRWQVSRVTVRKALDALTRE 63 Query: 63 GLLDRKQGKGTFITTPKIQAKFGPSVLGFTEICKLNNLRPSSKLVEQRQISATSKLAEAL 122 LL R GKGTF++ K Q ++ F+E+C+ RP S+ ++ S + L Sbjct: 64 NLLTRVSGKGTFVSGEKFQRSM-TGIMSFSELCQSQGRRPGSRTIKSVFESVDDETKALL 122 Query: 123 NVPVNSSLVAIRRIMLADEVPVMMDYAVFTDAYNFLLQENMDNHSLYATIKAKRDVSFMR 182 N+ V I RI AD+V V ++ + FLL E+++NHSLY ++ K + F Sbjct: 123 NMNDGEKAVVIERIRYADDVAVSLETVHLPPRFAFLLDEDLNNHSLYECLREKYHLWFTH 182 Query: 183 QRKSIQTVFADSAQAQYLEIPVGYPLLLSQGTVVSSTMEIIHYGEQHIVGDK 234 RK I+ V+A A YL + GYPL+L + ++ + E+ +Q IVGDK Sbjct: 183 SRKMIELVYASFEVAHYLGVNEGYPLILIKSEMIDNKGELSCVSQQLIVGDK 234 >CAC3502 [K] COG2188 Transcriptional regulators Length = 237 Score = 151 bits (381), Expect = 1e-36, Method: Compositional matrix adjust. Identities = 77/229 (33%), Positives = 138/229 (60%), Gaps = 1/229 (0%) Query: 11 PLYVQLKDIIKSDIEAGIMKPGQKIPTEFELCEMYSISRRTVRTAISELIEEGLLDRKQG 70 PLY QL+ ++ +I++G G ++PTE EL + Y++SR TVR A++EL E G L+RK G Sbjct: 10 PLYKQLEKKLQQEIDSGKRPAGSRLPTENELSKAYNVSRVTVRKALAELSESGYLERKSG 69 Query: 71 KGTFITTPKIQAKFGPSVLGFTEICKLNNLRPSSKLVEQRQISATSKLAEALNVPVNSSL 130 KGTF+ K++ VLGF+E+CK+ N P +K+++ + K + +++ + + Sbjct: 70 KGTFVAEKKLERGITNGVLGFSEMCKMMNAIPGAKIIKIALEEPSEKDIQKMSLNKDEKV 129 Query: 131 VAIRRIMLADEVPVMMDYAVFTDAYNFLLQENMDNHSLYATIKAKRDVSFMRQRKSIQTV 190 + + R+ A+ PV+++ F ++++FL +EN+ + SLY ++ + ++ RK++ V Sbjct: 130 LVLERVRYANGKPVLLELNKFPESFSFLFEENLTDASLYDILE-QHNIILDHSRKTLDIV 188 Query: 191 FADSAQAQYLEIPVGYPLLLSQGTVVSSTMEIIHYGEQHIVGDKFVLYI 239 FAD+ +A+ L I GYPLL + ++ I + +Q +GDKF I Sbjct: 189 FADTKEAKTLGISRGYPLLRINSIIHNADNTITNLCQQLCIGDKFTFII 237 >BS_yurK [K] COG2188 Transcriptional regulators Length = 242 Score = 122 bits (306), Expect = 5e-28, Method: Compositional matrix adjust. Identities = 73/222 (32%), Positives = 121/222 (54%), Gaps = 2/222 (0%) Query: 4 LQPDSIIPLYVQLKDIIKSDIEAGIMKPGQKIPTEFELCEMYSISRRTVRTAISELIEEG 63 L S PLY+QLK II DI+ G+ P K+PTE ELC Y++SR TVR AI +L+EEG Sbjct: 2 LNNGSSTPLYIQLKQIITDDIKKGVYSPTAKLPTENELCTKYNVSRITVRKAILDLVEEG 61 Query: 64 LLDRKQGKGTFITTPKIQAKFGPSVLGFTEICKLNNLRPSSKLVEQRQISATSKLAEALN 123 L R+QGKGTF+ +PK++ + +V G++E + +P ++ I A+ +AE L Sbjct: 62 YLIRQQGKGTFVKSPKLKRELI-AVNGYSEFMESTGKKPKHHVLSHDIIPASKPIAEKLQ 120 Query: 124 VPVNSSLVAIRRIMLADEVPVMMDYAVFT-DAYNFLLQENMDNHSLYATIKAKRDVSFMR 182 + S +V ++RI+ D+ P+ + + D + + D S++ +K + V Sbjct: 121 IQPESPVVELKRILYNDDQPLTFEVTHYPLDLFPGIDTFIADGVSMHDILKQQYKVVPTH 180 Query: 183 QRKSIQTVFADSAQAQYLEIPVGYPLLLSQGTVVSSTMEIIH 224 K + V+A +++YL+ +G L T +S + I+ Sbjct: 181 NTKLLNVVYAQQEESKYLDCDIGDALFEIDKTAFTSNDQPIY 222 >BH0419 [K] COG2188 Transcriptional regulators Length = 240 Score = 122 bits (305), Expect = 6e-28, Method: Compositional matrix adjust. Identities = 69/207 (33%), Positives = 117/207 (56%), Gaps = 1/207 (0%) Query: 4 LQPDSIIPLYVQLKDIIKSDIEAGIMKPGQKIPTEFELCEMYSISRRTVRTAISELIEEG 63 + +S +P+Y Q+++ IK IE+G++KPG + +E E E Y +SR TVR AI+ L+ +G Sbjct: 2 INKNSPLPIYYQIEEQIKQQIESGVLKPGDMLKSEREYAEYYDVSRMTVRQAINNLVNQG 61 Query: 64 LLDRKQGKGTFITTPKIQAKFGPSVLGFTEICKLNNLRPSSKLVEQRQISATSKLAEALN 123 + +K+G GT++ KI+ + FTE + + PSS+L++ I AT+K+A+ LN Sbjct: 62 YIYKKKGSGTYVQEKKIEQALN-GLTSFTEDMRKRGMEPSSRLLKFELIPATAKIAKELN 120 Query: 124 VPVNSSLVAIRRIMLADEVPVMMDYAVFTDAYNFLLQENMDNHSLYATIKAKRDVSFMRQ 183 + N+ + I+RI D VP+ ++ + L E + N SLY I+ + ++ Sbjct: 121 LKENTPVTEIKRIRYGDGVPIAIERNLLPANLVKGLNEEIINQSLYQYIEEELNLRIADA 180 Query: 184 RKSIQTVFADSAQAQYLEIPVGYPLLL 210 + I+ A +A LEI G P+LL Sbjct: 181 LQVIEASTASKTEADLLEIQKGSPILL 207 >SPy1202 [K] COG2188 Transcriptional regulators Length = 241 Score = 119 bits (297), Expect = 6e-27, Method: Compositional matrix adjust. Identities = 72/242 (29%), Positives = 135/242 (55%), Gaps = 12/242 (4%) Query: 3 QLQPDSIIPLYVQLKDIIKSDIEAGIMKPGQKIPTEFELCEMYSISRRTVRTAISELIEE 62 +L+ ++P Y+++ D IK DI+ GI G ++P+E L E +++SR T+R AI+ L+EE Sbjct: 4 RLEECGMLPAYIKIHDAIKKDIDLGIWPIGSRLPSERHLAEHFTVSRMTLRQAITLLVEE 63 Query: 63 GLLDRKQGKGTFITTPKIQAKFGPSVLGFTEICKLNNLRPSSKLVE-QRQISATSKLAEA 121 G+L+R+ G GT++ + ++Q K + FTEI + +PSSKL+ Q+Q+++ +++ E Sbjct: 64 GILERRIGSGTYVASHRVQEKMRGTT-SFTEIIRSQGRQPSSKLLSYQKQLASDTEVKE- 121 Query: 122 LNVPVNSSLVAIRRIMLADEVPVMMDYAVFTDAY-NFLLQENMDNHSLYATIKAKRDVSF 180 LN+ ++ + RI AD VP++ + A + + + + ++ H ++ I ++ Sbjct: 122 LNLDKTDLVIRMERIRYADSVPLVYEIASIPEKFIKTVKRADITEHFFHSLIANGYEIG- 180 Query: 181 MRQRKSIQTVFADSAQ---AQYLEIPVGYPLLLSQGTVVSSTMEIIHYGEQHIVGDKFVL 237 KS QT++A A A YLE+ G+ +L + + Y +GD+F Sbjct: 181 ----KSKQTIYAKLASERVASYLEVAKGHAILALTQVSYFTDGKPFEYVRSQYIGDRFEF 236 Query: 238 YI 239 Y+ Sbjct: 237 YL 238 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 0.135 0.372 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: 15,813,176 Number of extensions: 560115 Number of successful extensions: 1607 Number of sequences better than 1.0e-05: 150 Number of HSP's gapped: 1554 Number of HSP's successfully gapped: 150 Length of query: 239 Length of database: 38,378,431 Length adjustment: 103 Effective length of query: 136 Effective length of database: 26,499,029 Effective search space: 3603867944 Effective search space used: 3603867944 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)