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= 0311.0005.p (227 letters) Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF 2,715,099 sequences; 757,237,578 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value ref|NP_693436.1| transcriptional regulator [Oceanobacillus iheye... 217 2e-55 ref|NP_563404.1| two-component response regulator [Clostridium p... 169 4e-41 ref|NP_780902.1| transcriptional regulatory protein [Clostridium... 166 5e-40 ref|NP_624090.1| Response regulators consisting of a CheY-like r... 165 7e-40 ref|NP_349816.1| Response regulator (CheY-like receiver domain a... 164 1e-39 >ref|NP_693436.1| transcriptional regulator [Oceanobacillus iheyensis HTE831] dbj|BAC14471.1| transcriptional regulator [Oceanobacillus iheyensis HTE831] Length = 225 Score = 217 bits (553), Expect = 2e-55, Method: Compositional matrix adjust. Identities = 113/223 (50%), Positives = 145/223 (65%), Gaps = 2/223 (0%) Query: 2 MKSILIVEDEEAIARVLAAYLKKAGFQVTLAADGRTALEAFETAPPSLILLDINLPNMDG 61 MK ILI+EDE I++V+ YLKKAG+ V DG A++ F+ P L++LD+ LP +DG Sbjct: 1 MKKILIIEDEYPISQVIKVYLKKAGYDVEQVFDGSNAMDTFKHVEPDLVILDVMLPGVDG 60 Query: 62 FELLGLIREKSSCPVIMLTARDSIXXXXXXXXXXXXXYMSKPFIPEEVVARVNAVLRRPS 121 + LL IR K C VIMLTA + Y++KPF EE+VARV AVLRR Sbjct: 61 WTLLQDIRSK--CAVIMLTALGDVNYRLDGLNQGADDYIAKPFHGEELVARVQAVLRRIG 118 Query: 122 QWSDGSRKRHYGSLFIDFGARSVFLNGAEVSLSPRDLSVLLFLAERPNQICTRDQLLEHV 181 ++ S +G+L ID A V L G + L+PRDLS+LLF A+ PN+ TR+QLL+ + Sbjct: 119 NKNNNSNVIKFGTLEIDVVAHRVRLLGTIIELTPRDLSLLLFFADNPNRTFTREQLLDSI 178 Query: 182 WEMDYDGSDRAVDLSIKRLRQALSHWPAEEGEIRTLRGTGYQL 224 W DYDGSDRAVDLSIKRLR++L WP EGEI+T RG GYQ Sbjct: 179 WGWDYDGSDRAVDLSIKRLRKSLKDWPKSEGEIKTFRGLGYQF 221 >ref|NP_563404.1| two-component response regulator [Clostridium perfringens] dbj|BAB82194.1| two-component response regulator [Clostridium perfringens str. 13] Length = 228 Score = 169 bits (428), Expect = 4e-41, Method: Compositional matrix adjust. Identities = 90/224 (40%), Positives = 131/224 (58%), Gaps = 2/224 (0%) Query: 1 MMKSILIVEDEEAIARVLAAYLKKAGFQVTLAADGRTALEAFETAPPSLILLDINLPNMD 60 ++ ILIV+D+E I V+ YL+ G+ V +A DG+ A E F P+L++LD+ LP +D Sbjct: 4 LLGKILIVDDDENICEVIKMYLETTGYNVKVAHDGKAAKEEFVNFSPNLVVLDMMLPGID 63 Query: 61 GFELLGLIREKSSCPVIMLTARDSIXXXXXXXXXXXXXYMSKPFIPEEVVARVNAVLRRP 120 G E+L IR+ S+ PVIMLTA+ Y+ KPF P+E++ARV AV+RR Sbjct: 64 GMEVLKWIRKDSNVPVIMLTAKGETFDKVLALEIGADDYVVKPFEPKELLARVKAVMRRY 123 Query: 121 SQWSDGSRKRHYGSLFIDFGARSVFLNGAEVSLSPRDLSVLLFLAERPNQICTRDQLLEH 180 S + ++ L ID + V NG EV P++ +L +LA N++ TRDQLL Sbjct: 124 SGEEPDNVVLNFPGLTIDANSYKVIYNGEEVKTPPKEFELLHYLASNKNKVFTRDQLLCE 183 Query: 181 VWEMDYDGSDRAVDLSIKRLRQALSHWPAEEGEIRTLRGTGYQL 224 VW DY G R VD+ IKRLR+ L+ E+ ++ T+ G GY+ Sbjct: 184 VWGYDYPGYSRTVDVHIKRLREKLNG--GEDWQLETVWGVGYKF 225 >ref|NP_780902.1| transcriptional regulatory protein [Clostridium tetani E88] gb|AAO34839.1| transcriptional regulatory protein [Clostridium tetani E88] Length = 246 Score = 166 bits (419), Expect = 5e-40, Method: Compositional matrix adjust. Identities = 89/224 (39%), Positives = 127/224 (56%), Gaps = 8/224 (3%) Query: 4 SILIVEDEEAIARVLAAYLKKAGFQVTLAADGRTALEAFETAPPSLILLDINLPNMDGFE 63 ILIV+D++ I V+ YL+ AGF + DG+ + F P L+LLDI LP+MDG + Sbjct: 25 KILIVDDDQNICEVIKMYLESAGFDTRVCHDGKESQSIFIEYNPDLVLLDIMLPSMDGID 84 Query: 64 LLGLIREKSSCPVIMLTARDSIXXXXXXXXXXXXXYMSKPFIPEEVVARVNAVLRRPSQW 123 +L IR++ PVIMLTA+ YM KPF P+E++ARV AVLRR + Sbjct: 85 VLKWIRKEHETPVIMLTAKGETFDKVLGLELGADDYMVKPFEPKELLARVKAVLRRFNSD 144 Query: 124 SDGSRKRHYGSLFIDFGARSVFLNGAEVSLSPRDLSVLLFLAERPNQICTRDQLLEHVWE 183 + + L ID + +V NG E+ + P++ +L +LA N++ TR+QLL VW Sbjct: 145 NVSKEALQFNGLTIDIDSYTVIYNGKEIKMPPKEFELLYYLASNKNRVFTREQLLCEVWG 204 Query: 184 MDYDGSDRAVDLSIKRLRQAL---SHWPAEEGEIRTLRGTGYQL 224 DY G R VD+ IKRLR+ L S+W +I T+ G GY+ Sbjct: 205 YDYPGDSRTVDVHIKRLREKLEEGSNW-----QIETVWGVGYKF 243 >ref|NP_624090.1| Response regulators consisting of a CheY-like receiver domain and a HTH DNA-binding domain [Thermoanaerobacter tengcongensis] gb|AAM25694.1| Response regulators consisting of a CheY-like receiver domain and a HTH DNA-binding domain [Thermoanaerobacter tengcongensis] Length = 226 Score = 165 bits (418), Expect = 7e-40, Method: Compositional matrix adjust. Identities = 86/222 (38%), Positives = 127/222 (57%), Gaps = 3/222 (1%) Query: 3 KSILIVEDEEAIARVLAAYLKKAGFQVTLAADGRTALEAFETAPPSLILLDINLPNMDGF 62 + I +V+D++ I +++ YL+K GF+V DG+TAL + PP L++LDI LP +DG Sbjct: 5 QKIYVVDDDKNICEIVSLYLEKEGFEVEQIYDGQTALRKIQEKPPKLVILDIMLPGIDGI 64 Query: 63 ELLGLIREKSSCPVIMLTARDSIXXXXXXXXXXXXXYMSKPFIPEEVVARVNAVLRRPSQ 122 L +R+ S P+IMLTA+ Y+ KPF +E+VARV AVLRR Sbjct: 65 ALCKEVRKFSKVPIIMLTAKGDTLDKVLGLEIGADDYIVKPFDGKELVARVKAVLRRYEG 124 Query: 123 WSDGSRKRHYGSLFIDFGARSVFLNGAEVSLSPRDLSVLLFLAERPNQICTRDQLLEHVW 182 S+ + Y L++ V G + L+P++L +L FL PN++ TRDQLLE+VW Sbjct: 125 ESE-DKSVSYPDLYVSLSEYKVIYKGKNIDLTPKELELLYFLCTHPNRVFTRDQLLENVW 183 Query: 183 EMDYDGSDRAVDLSIKRLRQALSHWPAEEGEIRTLRGTGYQL 224 DY G R VD+ IKRLR+ + P ++ T+ G GY+ Sbjct: 184 GYDYMGDSRTVDVHIKRLREKVGEGP--NWKLTTVWGVGYKF 223 >ref|NP_349816.1| Response regulator (CheY-like receiver domain and HTH-type DNA-binding domain) [Clostridium acetobutylicum] pir||A97296 response regulator (CheY-like receiver domain and HTH-type DNA-binding domain) [imported] - Clostridium acetobutylicum gb|AAK81156.1| Response regulator (CheY-like receiver domain and HTH-type DNA-binding domain) [Clostridium acetobutylicum] Length = 228 Score = 164 bits (415), Expect = 1e-39, Method: Compositional matrix adjust. Identities = 83/223 (37%), Positives = 129/223 (57%), Gaps = 2/223 (0%) Query: 2 MKSILIVEDEEAIARVLAAYLKKAGFQVTLAADGRTALEAFETAPPSLILLDINLPNMDG 61 + +LIV+D+E I V+ YL+ +G+ ++ DG++A F P ++LLDI LP DG Sbjct: 5 LAKVLIVDDDENICEVIKLYLESSGYATKISNDGKSAQNVFVEYKPDIVLLDIMLPQEDG 64 Query: 62 FELLGLIREKSSCPVIMLTARDSIXXXXXXXXXXXXXYMSKPFIPEEVVARVNAVLRRPS 121 ++L IR+ + PVIMLTA+ Y+ KPF P+E+VARV AVLRR + Sbjct: 65 IDVLKWIRKADNTPVIMLTAKGETFDKVLTLELGADDYIVKPFEPKELVARVKAVLRRAN 124 Query: 122 QWSDGSRKRHYGSLFIDFGARSVFLNGAEVSLSPRDLSVLLFLAERPNQICTRDQLLEHV 181 + S+ ++ L ID G+ +V N ++ + P++ +L +LA N++ TR+QLL V Sbjct: 125 SENVSSQVLNFNGLKIDMGSYTVIYNEKDIKMPPKEFELLYYLANNKNKVFTREQLLCEV 184 Query: 182 WEMDYDGSDRAVDLSIKRLRQALSHWPAEEGEIRTLRGTGYQL 224 W DY G R VD+ +KRLR+ L +I+T+ G GY+ Sbjct: 185 WGYDYPGDSRTVDVHVKRLREKLHE--GNGWDIQTVWGVGYKF 225 Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF Posted date: Mar 24, 2004 1:53 AM Number of letters in database: 757,237,578 Number of sequences in database: 2,715,099 Lambda K H 0.321 0.136 0.401 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 2715099 Number of Hits to DB: 304,217,574 Number of extensions: 10685342 Number of successful extensions: 42797 Number of sequences better than 1.0e-05: 4464 Number of HSP's gapped: 39166 Number of HSP's successfully gapped: 4495 Length of query: 227 Length of database: 757,237,578 Length adjustment: 121 Effective length of query: 106 Effective length of database: 428,710,599 Effective search space: 45443323494 Effective search space used: 45443323494 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 (21.9 bits) S2: 124 (52.4 bits)