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= 0039.0033.p (286 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 74 2e-13 BH0724 [K] COG2207 AraC-type DNA-binding domain-containing proteins 67 4e-11 BH3679 [T] COG4753 Response regulator containing CheY-like recei... 64 2e-10 SMa1749 [K] COG2207 AraC-type DNA-binding domain-containing prot... 62 1e-09 araC [K] COG2207 AraC-type DNA-binding domain-containing proteins 61 2e-09 >SP1899 [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 286 Score = 74.3 bits (181), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 64/240 (26%), Positives = 107/240 (44%), Gaps = 23/240 (9%) Query: 58 SQGEGIIHFENKKLTLAEGSGVLLLPGISHRYEALSAEPWCTYYLTFGGSSARQILDSLG 117 ++G+G H++ K + L EG LL P Y+A S EPW Y+L G A +L Sbjct: 44 TKGQGKFHYKGKIVDLKEGDFFLLKPEELTFYQADSKEPWAYYWLGITGGKAPDYF-ALS 102 Query: 118 MNANSFYRWESEAPLPLMLKEMLDRHDAAEDMFSLGASTDAYRFLLTLSKYGHLHN---- 173 ++ Y +SE +++ D+ T + L L G LH Sbjct: 103 QISDQSYLIQSETCHTQTTAKLIS------DIVRFAQITKSSE-LAQLHIMGQLHELMFH 155 Query: 174 -----NTAISRNVDKVQPLL----KWMDSHYGDPDIGLHDLALQLDVSGRYLNSLFLQTF 224 +N+ L + +DSHY + + DLA +L V YL+S+F + Sbjct: 156 LGTIAPNQKKKNISSTHQLYLECKRLIDSHYPQ-SLTIQDLAKELSVHRSYLSSVFKEFN 214 Query: 225 GLSPYAYFVRLRIRKSKELLVSQPDLTVKAISQQVGFRDVSHFVATFRKQSGTTPDQFRR 284 LSP Y + +R+ ++++LL + + ++K I+ VGF D HF +++ TP R+ Sbjct: 215 TLSPKEYLLYVRMHRARQLLENTQE-SIKVIAYSVGFSDPLHFSKAYKQYFNQTPSHTRK 273 >BH0724 [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 298 Score = 66.6 bits (161), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 62/259 (23%), Positives = 114/259 (44%), Gaps = 28/259 (10%) Query: 48 GYHAYHW------LQTSQGEGIIHFENKKLTLAEGSGVLLLPGISHRYEALSAEPWCTYY 101 GY HW + QGE + + + EG G+ + G H E + C Y Sbjct: 38 GYMPLHWHDELQFVVIIQGEARFQVNEEAIIVQEGDGLFINSGCLHMVEDGNGSN-CVY- 95 Query: 102 LTFGGSSARQILDSLGMNANSFYRWESEAPLPLM----------LKEMLDRHDAAEDM-- 149 + + I L + Y + P L+ ++ L+ H E+ Sbjct: 96 ICLNVPAQSIISRELYTAYVAPYVQATNLPYVLIPSSEMWGQNIIEATLNIHQCLEEQPP 155 Query: 150 -FSLGASTD---AYRFLLTLSKYGHLHNNTAISRNVDKVQPLLKWMDSHYGDPDIGLHDL 205 + + +T ++ L+T + + ++ +A+ +N +++ +L+W+ HYG+ +I L D+ Sbjct: 156 YYEMDITTKLTVIWKSLIT-NGFPLEYDQSAMIKN-QRMKAMLQWIHLHYGE-NIRLDDI 212 Query: 206 ALQLDVSGRYLNSLFLQTFGLSPYAYFVRLRIRKSKELLVSQPDLTVKAISQQVGFRDVS 265 A +S F +T ++P Y RI+KS LL QP+ V ++ QVGF S Sbjct: 213 AKAGQLSRSECCRYFKRTLKMTPLQYVTDYRIQKSVTLL-QQPESNVTDVAYQVGFNSTS 271 Query: 266 HFVATFRKQSGTTPDQFRR 284 +F+ FRK TP ++++ Sbjct: 272 YFIDQFRKAMNMTPLRYKK 290 >BH3679 [T] COG4753 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain Length = 257 Score = 64.3 bits (155), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 32/103 (31%), Positives = 60/103 (58%), Gaps = 2/103 (1%) Query: 182 DKVQPLLKWMDSHYGDPDIGLHDLALQLDVSGRYLNSLFLQTFGLSPYAYFVRLRIRKSK 241 D + L ++D+H D IGL D+A + ++ YL++LF + ++ Y R R++ +K Sbjct: 154 DSIHEALHYIDAHL-DQKIGLKDVAKSVHLNPSYLSALFKEKTNMTFSEYLTRKRLQHAK 212 Query: 242 ELLVSQPDLTVKAISQQVGFRDVSHFVATFRKQSGTTPDQFRR 284 LLVS D + I+++ G++ +F+ F++ G TP Q+R+ Sbjct: 213 HLLVS-TDRPISDIAEKCGYQTAKYFIKIFKEHEGMTPTQYRK 254 >SMa1749 [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 299 Score = 61.6 bits (148), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 31/90 (34%), Positives = 53/90 (58%), Gaps = 1/90 (1%) Query: 196 GDPDIGLHDLALQLDVSGRYLNSLFLQTFGLSPYAYFVRLRIRKSKELLVSQPDLTVKAI 255 GD + + D+A + +S + S+F QT G++P + + R+ +K+LL + DL V +I Sbjct: 205 GDYRMSVADMAAVVGLSESWFASVFKQTMGITPLQWQLAKRVELTKKLL-GESDLPVASI 263 Query: 256 SQQVGFRDVSHFVATFRKQSGTTPDQFRRL 285 + Q+GF D +H FR+ G TP +RR+ Sbjct: 264 AAQLGFADQAHLTKVFRQIVGETPAAWRRM 293 >araC [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 292 Score = 60.8 bits (146), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 58/250 (23%), Positives = 109/250 (43%), Gaps = 17/250 (6%) Query: 43 VSRPEGYHAYHWLQTSQGEGIIHFENKKLTLAEGSGVLLLPGISHRY-EALSAEPWCTYY 101 + RP G Y T +G+G++ + ++ G +L PG H Y A W + Sbjct: 36 IDRPLGMKGYILNLTIRGQGVVKNQGREFVCRPGDILLFPPGEIHHYGRHPEAREWYHQW 95 Query: 102 LTFGGSSA-RQILDSLGMNANSFYRWESEAPLPLMLKEMLDRHDAAEDMFSLGASTDAYR 160 + F + + L+ + AN+ + EA P D + + G Y Sbjct: 96 VYFRPRAYWHEWLNWPSIFANTGFFRPDEAHQPHF-------SDLFGQIINAGQGEGRYS 148 Query: 161 FLLTLSKYGHL--HNNTAISRNV-----DKVQPLLKWMDSHYGDPDIGLHDLALQLDVSG 213 LL ++ L AI+ ++ ++V+ +++ H D + + +A + +S Sbjct: 149 ELLAINLLEQLLLRRMEAINESLHPPMDNRVREACQYISDHLADSNFDIASVAQHVCLSP 208 Query: 214 RYLNSLFLQTFGLSPYAYFVRLRIRKSKELLVSQPDLTVKAISQQVGFRDVSHFVATFRK 273 L+ LF Q G+S ++ RI ++K LL+S + + + + VGF D +F F+K Sbjct: 209 SRLSHLFRQQLGISVLSWREDQRISQAK-LLLSTTRMPIATVGRNVGFDDQLYFSRVFKK 267 Query: 274 QSGTTPDQFR 283 +G +P +FR Sbjct: 268 CTGASPSEFR 277 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 0.136 0.413 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: 22,700,972 Number of extensions: 1014531 Number of successful extensions: 2491 Number of sequences better than 1.0e-05: 49 Number of HSP's gapped: 2566 Number of HSP's successfully gapped: 49 Length of query: 286 Length of database: 38,378,431 Length adjustment: 105 Effective length of query: 181 Effective length of database: 26,268,361 Effective search space: 4754573341 Effective search space used: 4754573341 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)