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= 0039.0023.p (305 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value BS_ydeC [K] COG2207 AraC-type DNA-binding domain-containing prot... 140 3e-33 BH0724 [K] COG2207 AraC-type DNA-binding domain-containing proteins 134 2e-31 CAC1451 [K] COG2207 AraC-type DNA-binding domain-containing prot... 117 2e-26 lin2267 [K] COG2207 AraC-type DNA-binding domain-containing prot... 91 3e-18 CAC2608 [K] COG2207 AraC-type DNA-binding domain-containing prot... 90 4e-18 >BS_ydeC [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 291 Score = 140 bits (352), Expect = 3e-33, Method: Compositional matrix adjust. Identities = 79/285 (27%), Positives = 147/285 (51%), Gaps = 7/285 (2%) Query: 9 LKEDRVHGDVMFPLAAYWIELPAGTH-VLDTHWHEEAEFFMLLEGEILFQVDTDYFPLRP 67 LKE H V P+A Y + + + HWH+E +F ++L+G LFQ++ + + Sbjct: 10 LKELTEHRTVELPVACYKTTINQNINGYIPLHWHDEIQFVLILKGIALFQINEEKIEVHE 69 Query: 68 GEAVFIESGDIHAAYALQDSPCRFCALVFHPDLLASAQYDTIQQTVILPLLEKRQSFPRH 127 G+ +FI SG +H A + S C + L P + S + + + + P + Sbjct: 70 GDGLFINSGYLHMAEEKEGSDCTYICLNVSPHFVLSQE---LYSSYVQPYMFSTNLPYLF 126 Query: 128 LTPEMAWQQELLHHLERLMEAYANKMPGFEAFMKGTLLIMLSQIAIEGRSVNHTQSEGAD 187 L W + +L ++++ + K +E + L +M + + G + + QSE Sbjct: 127 LAGNQQWAKNILDAVKKINQLIQQKTSLYEIDITMQLTLMWKNLVVNGFQLEYDQSE--- 183 Query: 188 TTKINRLKKVILYIQDNYQEPIRTRDLSELIPMSEGQFCRFFKAMTRKTPVDYINSYRIR 247 K +R+K+++ +I +Y E I D+++ +S + CR+FK M KTP+ Y+ YRI+ Sbjct: 184 MIKSHRMKQMLNWIHLHYVEKITLEDIAKAGQLSRSECCRYFKRMLNKTPLRYVMDYRIQ 243 Query: 248 QAADLLQQSERKISDIAMDVGFDNVSYFIKVFRKAMKCSPSEFRK 292 ++ LLQ E +++++ VGF++ SYFI F++AM +P ++K Sbjct: 244 KSLLLLQHPESNVTEVSYQVGFNSTSYFISKFQQAMNMTPLSYKK 288 >BH0724 [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 298 Score = 134 bits (336), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 82/291 (28%), Positives = 146/291 (50%), Gaps = 11/291 (3%) Query: 9 LKEDRVHGDVMFPLAAYWIELPAGTH-VLDTHWHEEAEFFMLLEGEILFQVDTDYFPLRP 67 LKE M P+ ++ + H + HWH+E +F ++++GE FQV+ + ++ Sbjct: 12 LKESIDLWTFMLPIISHRTTIRKNIHGYMPLHWHDELQFVVIIQGEARFQVNEEAIIVQE 71 Query: 68 GEAVFIESGDIHAAYALQDSPCRFCALVFHPDLLASAQYDTIQQTVILPLLEKRQSFPRH 127 G+ +FI SG +H S C + L + S + T + P ++ + P Sbjct: 72 GDGLFINSGCLHMVEDGNGSNCVYICLNVPAQSIISRELYT---AYVAPYVQAT-NLPYV 127 Query: 128 LTP--EMAWQQELLHHLERLMEAYANKMPGFEAFMKGTLLIMLSQIAIEGRSVNHTQSEG 185 L P EM W Q ++ + + + P +E + L ++ + G + + QS Sbjct: 128 LIPSSEM-WGQNIIEATLNIHQCLEEQPPYYEMDITTKLTVIWKSLITNGFPLEYDQSA- 185 Query: 186 ADTTKINRLKKVILYIQDNYQEPIRTRDLSELIPMSEGQFCRFFKAMTRKTPVDYINSYR 245 K R+K ++ +I +Y E IR D+++ +S + CR+FK + TP+ Y+ YR Sbjct: 186 --MIKNQRMKAMLQWIHLHYGENIRLDDIAKAGQLSRSECCRYFKRTLKMTPLQYVTDYR 243 Query: 246 IRQAADLLQQSERKISDIAMDVGFDNVSYFIKVFRKAMKCSPSEFRKGAVQ 296 I+++ LLQQ E ++D+A VGF++ SYFI FRKAM +P ++K ++ Sbjct: 244 IQKSVTLLQQPESNVTDVAYQVGFNSTSYFIDQFRKAMNMTPLRYKKSKLE 294 >CAC1451 [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 295 Score = 117 bits (294), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 67/256 (26%), Positives = 129/256 (50%), Gaps = 8/256 (3%) Query: 39 HWHEEAEFFMLLEGEILFQVDTDYFPLRPGEAVFIESGDIHAAYALQDSPCRFCALVFHP 98 HWHE + + G + + F + G I S ++H + + +F + P Sbjct: 36 HWHEHLQIYYFTAGTAYLECAQNKFDVTTGSIAIINSNELHYLES-HSNNLKFYTIRIEP 94 Query: 99 DLLASAQYDTIQQTVILPLLEKRQSFPRHLTPEMAWQQELLHHLERLMEAYANKMPGFEA 158 L S + D +Q + PL R +F + ++ ++L ++ +++ Y++K G+E Sbjct: 95 TFLFSNKEDLLQTKYLAPLALNRITFKNLIENDL----QILECIKTILKEYSSKNIGYEL 150 Query: 159 FMKGTL--LIMLSQIAIEGRSVNHTQSEGADTTKINRLKKVILYIQDNYQEPIRTRDLSE 216 +K + LI+ + +N + E +N+ + V I++ Y E + +L++ Sbjct: 151 AVKANIYQLIVYLLRGYVDKILNENEFEERKRI-LNKFQCVFRLIEEKYTEKLTLNELAD 209 Query: 217 LIPMSEGQFCRFFKAMTRKTPVDYINSYRIRQAADLLQQSERKISDIAMDVGFDNVSYFI 276 + S FCR FK MT KT DYIN R+ ++ + L+Q++ I++IA+ GFDN +YF Sbjct: 210 CVNFSTHHFCRTFKQMTGKTTTDYINGIRLYKSTNYLKQTDLNITEIAIKCGFDNNNYFS 269 Query: 277 KVFRKAMKCSPSEFRK 292 ++F+K +P+++RK Sbjct: 270 RLFKKHYDMTPTKYRK 285 >lin2267 [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 292 Score = 90.5 bits (223), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 71/285 (24%), Positives = 132/285 (46%), Gaps = 24/285 (8%) Query: 20 FPLAAYWIELPAGTHVLDTHWHEEAEFFMLLEGEILFQVDTDYFPLRPGEAVFIESGDIH 79 FP ++ E G ++ HWH+E E L+G + V+ L GE I GD+H Sbjct: 14 FPFRSFVNE---GEVLVYPHWHKEIEIIYALKGSLNLGVNDMPIQLNEGEIQIINGGDVH 70 Query: 80 AAYALQDSP---CRFCALVFHPDLLASAQYDTIQQTVILPLLEKRQSFPRHLTPEMAWQQ 136 A +S +F +F ++ Q T+++ ++ + + +P T ++ Q Sbjct: 71 YFLASPNSERIVIQFDLSLFQEEMQMDGQNGTLRE-MLTEMAHLSREWPEETTAKV---Q 126 Query: 137 ELLH--HLERLMEAYANKMPGFEAFMKGTLLIMLS-------QIAIEGRSVNHTQSEGAD 187 L+ HLE +N PG +K LL ++ Q + SV ++ Sbjct: 127 SLIRNIHLES-----SNDSPGKHYILKADLLAIIGLIYREIPQKKTQPDSVISEKAVLKS 181 Query: 188 TTKINRLKKVILYIQDNYQEPIRTRDLSELIPMSEGQFCRFFKAMTRKTPVDYINSYRIR 247 + +L ++ Y++ +YQEP+ +++++ S F +FFK T T V ++N YR+ Sbjct: 182 KETLQKLDQIFSYVEKHYQEPVSLQEVADYTGFSTYYFTKFFKRNTGMTFVTFLNDYRLN 241 Query: 248 QAADLLQQSERKISDIAMDVGFDNVSYFIKVFRKAMKCSPSEFRK 292 +A +L ++++A GF +V F F++AM +P ++RK Sbjct: 242 KAKWMLLNEAFPVTEVAELAGFSSVKTFHHAFKRAMGVAPLKYRK 286 >CAC2608 [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 284 Score = 90.1 bits (222), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 64/262 (24%), Positives = 116/262 (44%), Gaps = 20/262 (7%) Query: 35 VLDTHWHEEAEFFMLLEGEILFQVDTDYFPLRPGEAVFIESGDIHAAYALQDSPCRFCAL 94 + H H+ E + + GE F +D + + PG + + H + +S + Sbjct: 31 TMSIHIHDCYEIYYSISGENQFLIDNKLYYINPGNLFAVNEFESHYVSQVNNSTHERIVI 90 Query: 95 VFHPDLLASAQYDTIQQTVILPLLEKRQSFPRHLTPEMAWQQELLHHLERLM--EAYANK 152 HPD L S T + + + +F ++ Q ++ + +++ + Sbjct: 91 SIHPDFLKSLC--TSKTNLTYCFKHRGSNFCHKVSLNKEQQSRFMYFINKIIGSHGFGAD 148 Query: 153 MPGFEAFMKGTLLIMLSQIAIEGRSVNHTQSEGADTTKI----NRLKKVILYIQDNYQEP 208 M + +F++ L+I L+ + I + G T I N+++++I YI DN Sbjct: 149 MIEYASFIE--LMIFLTSLFI---------NNGESLTPIYKYSNQIEEIIRYINDNVTND 197 Query: 209 IRTRDLSELIPMSEGQFCRFFKAMTRKTPVDYINSYRIRQAADLLQQSERKISDIAMDVG 268 I + L+E +SE CR FK T T YI + RI A LL I+D+ + G Sbjct: 198 ITVKHLAEHFFLSESYICRIFKLSTGTTINKYITARRISMAKALLSNGS-SINDVYVKCG 256 Query: 269 FDNVSYFIKVFRKAMKCSPSEF 290 F++ S F+K F+KA+ SP ++ Sbjct: 257 FNDYSNFLKSFKKAVGISPKKY 278 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 0.137 0.409 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: 21,937,577 Number of extensions: 909120 Number of successful extensions: 2305 Number of sequences better than 1.0e-05: 86 Number of HSP's gapped: 2292 Number of HSP's successfully gapped: 86 Length of query: 305 Length of database: 38,378,431 Length adjustment: 106 Effective length of query: 199 Effective length of database: 26,153,027 Effective search space: 5204452373 Effective search space used: 5204452373 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)