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= 0346.0074.p (301 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value BH0724 [K] COG2207 AraC-type DNA-binding domain-containing proteins 67 3e-11 PA0416 [K] COG2207 AraC-type DNA-binding domain-containing proteins 63 5e-10 sll1205 [K] COG2207 AraC-type DNA-binding domain-containing prot... 63 6e-10 BS_ybfI [K] COG2207 AraC-type DNA-binding domain-containing prot... 60 4e-09 SP1899 [K] COG2207 AraC-type DNA-binding domain-containing proteins 59 8e-09 >BH0724 [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 298 Score = 67.0 bits (162), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 52/264 (19%), Positives = 114/264 (43%), Gaps = 20/264 (7%) Query: 43 PVHAHPQYEFNYVLEGEQQLVVNNRSYMQKAGDLVLLRPGDSHSSKSGNGKPFTYFCIHF 102 P+H H + +F +++GE + VN + + + GD + + G H + GNG Y C++ Sbjct: 41 PLHWHDELQFVVIIQGEARFQVNEEAIIVQEGDGLFINSGCLHMVEDGNGSNCVYICLNV 100 Query: 103 DIDDKILISLLSRLNHVLFESGSTIAHKLGPVFTRLVEI--SSTISGDITMSQRMRLQSA 160 S++SR + + + A L V E+ + I + + Q + Q Sbjct: 101 PAQ-----SIISRELYTAYVAPYVQATNLPYVLIPSSEMWGQNIIEATLNIHQCLEEQPP 155 Query: 161 VFEL-----FGQLWEAFSIEANLPTTGTYEKVELAHQIRSRLQGLVFQQFQMELPYDSHY 215 +E+ +W++ L T G + + + I+++ + Q + L Y + Sbjct: 156 YYEMDITTKLTVIWKS------LITNGFPLEYDQSAMIKNQRMKAMLQ--WIHLHYGENI 207 Query: 216 GIDDIAAELGISASHCYRVFRQVFGVSPREFLSEQMLHEAKXXXXXXXXXXXXXXXXXGY 275 +DDIA +S S C R F++ ++P +++++ + ++ G+ Sbjct: 208 RLDDIAKAGQLSRSECCRYFKRTLKMTPLQYVTDYRIQKSVTLLQQPESNVTDVAYQVGF 267 Query: 276 RDIAHFSRQFKRWYGKSPREYREA 299 ++F QF++ +P Y+++ Sbjct: 268 NSTSYFIDQFRKAMNMTPLRYKKS 291 >PA0416 [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 264 Score = 63.2 bits (152), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 61/257 (23%), Positives = 114/257 (44%), Gaps = 25/257 (9%) Query: 45 HAHPQYEFNYVLEGEQQLVVNNRSYMQKAGDLVLLRPGDSHSSKSGNGKPFTYFCIHFDI 104 H+H ++ + L G + + ++ R++ +GDL L PG +G+P+ + ++ Sbjct: 28 HSHDEFVISANLCGLEDVWLDGRTFQADSGDLTLYNPGQIQGGGVRDGQPWRFASLYLPA 87 Query: 105 DDKILISLLSRLNHVLFESGSTIAHKLGPVFTRLVEISSTISGDITMSQ--RMRLQSAVF 162 + L S L L+ V F+ + LG E++++I + + R R + + Sbjct: 88 AE--LASSLD-LSSVEFDRPLLRSPALG------RELAASIEALLASDRFARERGEERLL 138 Query: 163 ELFGQLWEAFSIEANLPTTGTYEKVELAHQIRSRLQGLVFQQFQMELPYDSHYGIDDIAA 222 E G+L A LP ++ + +RLQ L+ + ++ P D +D +A Sbjct: 139 EFLGRLLAASGT--RLP-----QRADPGRPAVARLQALLAE--RLAEPPD----LDGMAE 185 Query: 223 ELGISASHCYRVFRQVFGVSPREFLSEQMLHEAKXXXXXXXXXXXXXXXXXGYRDIAHFS 282 ++G+S H R F++ G+SPR++ S Q+ G+ D +H + Sbjct: 186 QVGLSKYHLLRAFKKATGLSPRQW-SMQLRTRRALGLLRRGLAVGEVAHALGFADQSHLT 244 Query: 283 RQFKRWYGKSPREYREA 299 R F YG SP Y+ A Sbjct: 245 RYFTSAYGISPGRYQRA 261 >sll1205 [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 326 Score = 62.8 bits (151), Expect = 6e-10, Method: Compositional matrix adjust. Identities = 43/149 (28%), Positives = 76/149 (51%), Gaps = 13/149 (8%) Query: 151 MSQRMRLQSAVFELFG-QLWEAFSIEANLPTTGTYE--KVELAHQIRSRLQGLVFQQFQM 207 +++R LQ+ VFELF QL + + + P +GT + +E ++ R+RL Q+ Sbjct: 184 VTRRFFLQAKVFELFALQLHSIMADQNSSPFSGTLKPKTIEKIYEARARLVA------QL 237 Query: 208 ELPYDSHYGIDDIAAELGISASHCYRVFRQVFGVSPREFLSEQMLHEAKXXXXXXXXXXX 267 E P + ++A ++G+ R FR++FG S +L++Q LH+AK Sbjct: 238 ESPPS----VLELAQQVGLCDRTLRRGFRELFGTSVIGYLTQQRLHQAKDLLSQGNYTVA 293 Query: 268 XXXXXXGYRDIAHFSRQFKRWYGKSPREY 296 GY + HFS F++ +G SP+++ Sbjct: 294 EVANNVGYSHLGHFSAAFRKQFGVSPKQW 322 >BS_ybfI [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 65 Score = 60.1 bits (144), Expect = 4e-09, Method: Compositional matrix adjust. Identities = 0/258 (0%), Positives = 0/258 (0%), Gaps = 21/258 (8%) Query: 41 EYPVHAHPQYEFNYVLEGEQQLVVNNRSYMQKAGDLVLLRPGDSHSSKSGNGKPFTYFCI 100 Sbjct: 27 86 Query: 101 HF--DIDDKILISLLSRLNHVLFESGSTIAHKLGPVFTRLVEISSTISGDITMSQRMRLQ 158 Sbjct: 87 --- 143 Query: 159 SAVFELFGQLWEAFSIEANLPTTGTYEKVELAHQIRSRLQGLVFQQFQMELPYDSHYGID 218 Sbjct: 144 --------------- 188 Query: 219 DIAAELGISASHCYRVFRQVFGVSPREFLSEQMLHEAKXXXXXXXXXXXXXXXXXGYRDI 278 Sbjct: 189 - 247 Query: 279 AHFSRQFKRWYGKSPREY 296 Sbjct: 248 265 >SP1899 [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 286 Score = 58.9 bits (141), Expect = 8e-09, Method: Compositional matrix adjust. Identities = 54/256 (21%), Positives = 106/256 (41%), Gaps = 27/256 (10%) Query: 50 YEFNYVLEGEQQLVVNNRSYMQKAGDLVLLRPGDSHSSKSGNGKPFTYFCIHF---DIDD 106 Y +Y+ +G+ + + K GD LL+P + ++ + +P+ Y+ + D Sbjct: 38 YVLHYITKGQGKFHYKGKIVDLKEGDFFLLKPEELTFYQADSKEPWAYYWLGITGGKAPD 97 Query: 107 KILISLLSRLNHVLFESGSTIAHKLGPVFTRLVEISSTISGDITMSQRMRLQSAVFELFG 166 +S +S ++ L +S + + + +V + IT S + A + G Sbjct: 98 YFALSQISDQSY-LIQSETCHTQTTAKLISDIVRFA-----QITKSSEL----AQLHIMG 147 Query: 167 QLWEAFSIEANLPTTGTYEKVELAHQIRSRLQGLVFQQFQMELPYDSHY----GIDDIAA 222 QL E + + + HQ+ + L+ DSHY I D+A Sbjct: 148 QLHELMFHLGTIAPNQKKKNISSTHQLYLECKRLI----------DSHYPQSLTIQDLAK 197 Query: 223 ELGISASHCYRVFRQVFGVSPREFLSEQMLHEAKXXXXXXXXXXXXXXXXXGYRDIAHFS 282 EL + S+ VF++ +SP+E+L +H A+ G+ D HFS Sbjct: 198 ELSVHRSYLSSVFKEFNTLSPKEYLLYVRMHRARQLLENTQESIKVIAYSVGFSDPLHFS 257 Query: 283 RQFKRWYGKSPREYRE 298 + +K+++ ++P R+ Sbjct: 258 KAYKQYFNQTPSHTRK 273 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 0.322 0.137 0.412 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: 20,461,274 Number of extensions: 774475 Number of successful extensions: 3043 Number of sequences better than 1.0e-05: 15 Number of HSP's gapped: 3144 Number of HSP's successfully gapped: 15 Length of query: 301 Length of database: 38,378,431 Length adjustment: 106 Effective length of query: 195 Effective length of database: 26,153,027 Effective search space: 5099840265 Effective search space used: 5099840265 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: 115 (48.9 bits)