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= 0249.0028.p (272 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value lin2267 [K] COG2207 AraC-type DNA-binding domain-containing prot... 83 5e-16 CAC2818 [K] COG2207 AraC-type DNA-binding domain-containing prot... 83 5e-16 CAC1451 [K] COG2207 AraC-type DNA-binding domain-containing prot... 81 2e-15 BH3679 [T] COG4753 Response regulator containing CheY-like recei... 75 1e-13 BH2109 [T] COG4753 Response regulator containing CheY-like recei... 71 2e-12 >lin2267 [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 292 Score = 82.8 bits (203), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 70/263 (26%), Positives = 117/263 (44%), Gaps = 14/263 (5%) Query: 22 HFHDSYEIYYLLSGERHYYIHNRIYALQAGDLVFINKNQLHRTTSRNRSRHERILVNFD- 80 H+H EI Y L G + +++ L G++ IN +H + S ERI++ FD Sbjct: 30 HWHKEIEIIYALKGSLNLGVNDMPIQLNEGEIQIINGGDVHYFLASPNS--ERIVIQFDL 87 Query: 81 DLFLEPAA--GLVPDLAEMFQGESFLLRPNAHEQ-GEIADLFQAMLQEQREEAL---WSR 134 LF E G L EM + L R E ++ L + + E ++ + Sbjct: 88 SLFQEEMQMDGQNGTLREMLTEMAHLSREWPEETTAKVQSLIRNIHLESSNDSPGKHYIL 147 Query: 135 PYXXXXXXXXXXXXXXXXKAKPAVVIPEQS-----EAQRRVYGIIEYLDAHYGDKLTLGG 189 K +P VI E++ E +++ I Y++ HY + ++L Sbjct: 148 KADLLAIIGLIYREIPQKKTQPDSVISEKAVLKSKETLQKLDQIFSYVEKHYQEPVSLQE 207 Query: 190 IAEHFFISSTYLCRTFKQTTGFTVIEYLNYVRIRETKTLLRTTDWPMTRIARETGFDSIA 249 +A++ S+ Y + FK+ TG T + +LN R+ + K +L +P+T +A GF S+ Sbjct: 208 VADYTGFSTYYFTKFFKRNTGMTFVTFLNDYRLNKAKWMLLNEAFPVTEVAELAGFSSVK 267 Query: 250 HFGRVFKGLTGRSPLQYRKQNRG 272 F FK G +PL+YRK G Sbjct: 268 TFHHAFKRAMGVAPLKYRKTIYG 290 >CAC2818 [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 279 Score = 82.8 bits (203), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 60/260 (23%), Positives = 122/260 (46%), Gaps = 8/260 (3%) Query: 11 RRSGNFNMDTDHFHDSYEIYYLLSGERHYYIHNRIYALQAGDLVFINKNQLHRTTSRNRS 70 R+S +F H+HD +I +SG+ Y I + Y L+ D++ +N + +H+ + Sbjct: 20 RKSQSFEF---HYHDFNKIIIFISGKVTYLIEGKAYELKPWDILLVNNHDVHKPIIDSSK 76 Query: 71 RHERILVNFDDLFLEPAAGLVPDLAEMFQ---GESF-LLRPNAHEQGEIADLFQAMLQEQ 126 +ERI++ + F++ DL+ F+ SF L+R Q + + ++ Q Sbjct: 77 VYERIIIWANSDFIKKHNYEDCDLSNCFKLARERSFNLVRLKTELQDNMKFIINSLEQSL 136 Query: 127 REEALWSRPYXXXXXXXXXXXXXXXXKAKPAVVIPEQSEAQRRVYGIIEYLDAHYGDKLT 186 + + S+ + + E +++ I++Y++A+ +L+ Sbjct: 137 KSKEFGSKLFSNSLFIQLIIYLNRVHLENMYLTGKETLRYDKQIEKILKYINANLKGELS 196 Query: 187 LGGIAEHFFISSTYLCRTFKQTTGFTVIEYLNYVRIRETKTLLRTTDWPMTRIARETGFD 246 +A F++S YL FK+ TG+T+ Y+ R+ +K +++ D +T+ + GF Sbjct: 197 TEALAREFYMSKYYLMHKFKKETGYTLHNYVLQKRLLLSKDMIKKGD-AITKAYMQCGFK 255 Query: 247 SIAHFGRVFKGLTGRSPLQY 266 + F R FK + GRSP ++ Sbjct: 256 DYSSFFRAFKKMFGRSPREF 275 >CAC1451 [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 295 Score = 81.3 bits (199), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 65/259 (25%), Positives = 117/259 (45%), Gaps = 21/259 (8%) Query: 22 HFHDSYEIYYLLSGERHYYIHNRIYALQAGDLVFINKNQLHRTTSRNRSRHERILVNFDD 81 H+H+ +IYY +G + + + G + IN N+LH S + + + F Sbjct: 36 HWHEHLQIYYFTAGTAYLECAQNKFDVTTGSIAIINSNELHYLESHSNN------LKFYT 89 Query: 82 LFLEPAAGLVPDLAEMFQGESFLLRPNAHEQGEIADLFQAMLQEQ-------REEALWSR 134 + +EP L + ++ Q + L P A + +L + LQ +E + + Sbjct: 90 IRIEPTF-LFSNKEDLLQTK--YLAPLALNRITFKNLIENDLQILECIKTILKEYSSKNI 146 Query: 135 PYXXXXXXXXXXXXXXXXKAKPAVVIPEQS-EAQRRVYG----IIEYLDAHYGDKLTLGG 189 Y + ++ E E ++R+ + ++ Y +KLTL Sbjct: 147 GYELAVKANIYQLIVYLLRGYVDKILNENEFEERKRILNKFQCVFRLIEEKYTEKLTLNE 206 Query: 190 IAEHFFISSTYLCRTFKQTTGFTVIEYLNYVRIRETKTLLRTTDWPMTRIARETGFDSIA 249 +A+ S+ + CRTFKQ TG T +Y+N +R+ ++ L+ TD +T IA + GFD+ Sbjct: 207 LADCVNFSTHHFCRTFKQMTGKTTTDYINGIRLYKSTNYLKQTDLNITEIAIKCGFDNNN 266 Query: 250 HFGRVFKGLTGRSPLQYRK 268 +F R+FK +P +YRK Sbjct: 267 YFSRLFKKHYDMTPTKYRK 285 >BH3679 [T] COG4753 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain Length = 257 Score = 75.1 bits (183), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 35/99 (35%), Positives = 58/99 (58%) Query: 170 VYGIIEYLDAHYGDKLTLGGIAEHFFISSTYLCRTFKQTTGFTVIEYLNYVRIRETKTLL 229 ++ + Y+DAH K+ L +A+ ++ +YL FK+ T T EYL R++ K LL Sbjct: 156 IHEALHYIDAHLDQKIGLKDVAKSVHLNPSYLSALFKEKTNMTFSEYLTRKRLQHAKHLL 215 Query: 230 RTTDWPMTRIARETGFDSIAHFGRVFKGLTGRSPLQYRK 268 +TD P++ IA + G+ + +F ++FK G +P QYRK Sbjct: 216 VSTDRPISDIAEKCGYQTAKYFIKIFKEHEGMTPTQYRK 254 >BH2109 [T] COG4753 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain Length = 525 Score = 71.2 bits (173), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 37/117 (31%), Positives = 64/117 (54%), Gaps = 2/117 (1%) Query: 155 KPAVVIPE--QSEAQRRVYGIIEYLDAHYGDKLTLGGIAEHFFISSTYLCRTFKQTTGFT 212 + AV+I E + + +Y + Y++ HY + ++L IA F+++ Y+ + FK+T G Sbjct: 406 EAAVIIQELRKENMKSDIYKVKTYIENHYHENISLKSIASLFYMNPVYMGQLFKKTFGVY 465 Query: 213 VIEYLNYVRIRETKTLLRTTDWPMTRIARETGFDSIAHFGRVFKGLTGRSPLQYRKQ 269 EYL +R+ E K LLR TD + +A GF S +F F+ + +P +YR + Sbjct: 466 FKEYLLKLRMNEAKKLLRQTDMRVYEVAERVGFGSTDYFVTQFEKINKMTPTEYRNK 522 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 0.323 0.139 0.416 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: 19,493,779 Number of extensions: 729495 Number of successful extensions: 1951 Number of sequences better than 1.0e-05: 798 Number of HSP's gapped: 1935 Number of HSP's successfully gapped: 800 Length of query: 272 Length of database: 38,378,431 Length adjustment: 105 Effective length of query: 167 Effective length of database: 26,268,361 Effective search space: 4386816287 Effective search space used: 4386816287 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.5 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (22.0 bits) S2: 115 (48.9 bits)