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= 0284.0017.p (262 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value SP1899 [K] COG2207 AraC-type DNA-binding domain-containing proteins 111 1e-24 BH3842 [T] COG4753 Response regulator containing CheY-like recei... 85 1e-16 araC [K] COG2207 AraC-type DNA-binding domain-containing proteins 81 1e-15 ECs0068 [K] COG2207 AraC-type DNA-binding domain-containing prot... 81 1e-15 STM0104 [K] COG2207 AraC-type DNA-binding domain-containing prot... 80 5e-15 >SP1899 [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 286 Score = 111 bits (278), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 75/259 (28%), Positives = 128/259 (49%), Gaps = 23/259 (8%) Query: 13 PNLHKWGPGVRDVYALHYIVSGKGYLKTGHTTFPVETGESFIIFPHREVYYYPDPQDPWE 72 PN + +GP +RD Y LHYI G+G ++ G+ F++ P +Y D ++PW Sbjct: 26 PN-YSFGPAIRDTYVLHYITKGQGKFHYKGKIVDLKEGDFFLLKPEELTFYQADSKEPWA 84 Query: 73 YFWIEFNNGAETARLLSMIDFAPDSPVVKASPQDFKPLFHMVTTGGL-------EPFERE 125 Y+W+ G + ++ + S ++++ H TT L + Sbjct: 85 YYWLGIT-GGKAPDYFALSQISDQSYLIQSET------CHTQTTAKLISDIVRFAQITKS 137 Query: 126 RSDAGLHLL--LSYYMEHYPSNKAFRKKDYVLSARE-YIES-----NFWKASLSVLDVVE 177 A LH++ L M H + +KK + S + Y+E + + SL++ D+ + Sbjct: 138 SELAQLHIMGQLHELMFHLGTIAPNQKKKNISSTHQLYLECKRLIDSHYPQSLTIQDLAK 197 Query: 178 YVKIERSYLFRLFKEATGTSISGYLTDFRIQRACELLTTSQLSVKSLAYSVGYQDPMYFS 237 + + RSYL +FKE S YL R+ RA +LL +Q S+K +AYSVG+ DP++FS Sbjct: 198 ELSVHRSYLSSVFKEFNTLSPKEYLLYVRMHRARQLLENTQESIKVIAYSVGFSDPLHFS 257 Query: 238 KVFKKATSYTPSEYKKAFN 256 K +K+ + TPS +K ++ Sbjct: 258 KAYKQYFNQTPSHTRKEYS 276 >BH3842 [T] COG4753 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain Length = 530 Score = 85.1 bits (209), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 40/108 (37%), Positives = 72/108 (66%), Gaps = 1/108 (0%) Query: 150 KKDYVLSAREYIESNFWKASLSVLDVVEYVKIERSYLFRLFKEATGTSISGYLTDFRIQR 209 ++ +L AR+Y+ +F + L++ D+ +++ + Y+ +LFKE + S Y+T R++ Sbjct: 413 EQSLMLLARDYVHDHF-REPLTLDDLAKHIGLSPYYVSKLFKERFDLTFSEYVTQLRVEH 471 Query: 210 ACELLTTSQLSVKSLAYSVGYQDPMYFSKVFKKATSYTPSEYKKAFNA 257 A +LL+ +Q S+K + Y +GY+DP YFS+VFKK T +PS+Y+K+ N Sbjct: 472 AKQLLSLTQKSLKEITYEIGYKDPNYFSRVFKKLTGKSPSDYRKSING 519 >araC [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 292 Score = 81.3 bits (199), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 63/241 (26%), Positives = 112/241 (46%), Gaps = 18/241 (7%) Query: 26 YALHYIVSGKGYLKTGHTTFPVETGESFIIFPHREVYYY---PDPQDPWEYFWIEFNNGA 82 Y L+ + G+G +K F G+ ++FP E+++Y P+ ++ W + W+ F A Sbjct: 45 YILNLTIRGQGVVKNQGREFVCRPGD-ILLFPPGEIHHYGRHPEARE-WYHQWVYFRPRA 102 Query: 83 ETARLLSMID-------FAPDSPVVKASPQDFKPLFHMVTTGGLEP--FERERSDAGLHL 133 L+ F PD +A F LF + G + + L Sbjct: 103 YWHEWLNWPSIFANTGFFRPD----EAHQPHFSDLFGQIINAGQGEGRYSELLAINLLEQ 158 Query: 134 LLSYYMEHYPSNKAFRKKDYVLSAREYIESNFWKASLSVLDVVEYVKIERSYLFRLFKEA 193 LL ME + + V A +YI + ++ + V ++V + S L LF++ Sbjct: 159 LLLRRMEAINESLHPPMDNRVREACQYISDHLADSNFDIASVAQHVCLSPSRLSHLFRQQ 218 Query: 194 TGTSISGYLTDFRIQRACELLTTSQLSVKSLAYSVGYQDPMYFSKVFKKATSYTPSEYKK 253 G S+ + D RI +A LL+T+++ + ++ +VG+ D +YFS+VFKK T +PSE++ Sbjct: 219 LGISVLSWREDQRISQAKLLLSTTRMPIATVGRNVGFDDQLYFSRVFKKCTGASPSEFRA 278 Query: 254 A 254 Sbjct: 279 G 279 >ECs0068 [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 292 Score = 81.3 bits (199), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 63/241 (26%), Positives = 112/241 (46%), Gaps = 18/241 (7%) Query: 26 YALHYIVSGKGYLKTGHTTFPVETGESFIIFPHREVYYY---PDPQDPWEYFWIEFNNGA 82 Y L+ + G+G +K F G+ ++FP E+++Y P+ ++ W + W+ F A Sbjct: 45 YILNLTIRGQGVVKNQGREFVCRPGD-ILLFPPGEIHHYGRHPEARE-WYHQWVYFRPRA 102 Query: 83 ETARLLSMID-------FAPDSPVVKASPQDFKPLFHMVTTGGLEP--FERERSDAGLHL 133 L+ F PD +A F LF + G + + L Sbjct: 103 YWHEWLNWPSIFANTGFFRPD----EAHQPHFSDLFGQIINAGQGEGRYSELLAINLLEQ 158 Query: 134 LLSYYMEHYPSNKAFRKKDYVLSAREYIESNFWKASLSVLDVVEYVKIERSYLFRLFKEA 193 LL ME + + V A +YI + ++ + V ++V + S L LF++ Sbjct: 159 LLLRRMEAINESLHPPMDNRVREACQYISDHLADSNFDIASVAQHVCLSPSRLSHLFRQQ 218 Query: 194 TGTSISGYLTDFRIQRACELLTTSQLSVKSLAYSVGYQDPMYFSKVFKKATSYTPSEYKK 253 G S+ + D RI +A LL+T+++ + ++ +VG+ D +YFS+VFKK T +PSE++ Sbjct: 219 LGISVLSWREDQRISQAKLLLSTTRMPIATVGRNVGFDDQLYFSRVFKKCTGASPSEFRA 278 Query: 254 A 254 Sbjct: 279 G 279 >STM0104 [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 281 Score = 79.7 bits (195), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 62/242 (25%), Positives = 111/242 (45%), Gaps = 20/242 (8%) Query: 26 YALHYIVSGKGYLKTGHTTFPVETGESFIIFPHREVYYY---PDPQDPWEYFWIEFNNGA 82 Y L+ + G+G + F G+ ++FP E+++Y PD + W + W+ F A Sbjct: 45 YILNLTIRGEGVINNNGEQFVCRPGD-ILLFPPGEIHHYGRHPDASE-WYHQWVYFRPRA 102 Query: 83 ETARLLSMID-------FAPDSPVVKASPQDFKPLFHMVTTGGLEPFERERSDAGLHLLL 135 L+ F PD +A F LF + + G + R ++LL Sbjct: 103 YWQEWLTWPTIFAQTGFFRPD----EARQPHFSELFGQIISAG-QGEGRYSELLAINLLE 157 Query: 136 SYYMEHYPS-NKAFR--KKDYVLSAREYIESNFWKASLSVLDVVEYVKIERSYLFRLFKE 192 + N++ V A +YI + + + V ++V + S L LF++ Sbjct: 158 QLLLRRMAVINESLHPPMDSRVRDACQYISDHLADSHFDIASVAQHVCLSPSRLSHLFRQ 217 Query: 193 ATGTSISGYLTDFRIQRACELLTTSQLSVKSLAYSVGYQDPMYFSKVFKKATSYTPSEYK 252 G S+ + D RI +A LL+T+++ + ++ +VG+ D +YFS+VFKK T +PSE++ Sbjct: 218 QLGISVLSWREDQRISQAKLLLSTTRMPIATVGRNVGFDDQLYFSRVFKKCTGASPSEFR 277 Query: 253 KA 254 Sbjct: 278 AG 279 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 0.319 0.136 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: 20,294,058 Number of extensions: 907320 Number of successful extensions: 2340 Number of sequences better than 1.0e-05: 70 Number of HSP's gapped: 2342 Number of HSP's successfully gapped: 70 Length of query: 262 Length of database: 38,378,431 Length adjustment: 104 Effective length of query: 158 Effective length of database: 26,383,695 Effective search space: 4168623810 Effective search space used: 4168623810 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: 115 (48.9 bits)