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: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value Q5WKL2.1 Q5WKL2_BACSK AraC/XylS family transcriptional regulator 216 2e-54 B1DAM7.1 B1DAM7_9BACL Transcriptional regulator, AraC family 196 3e-48 B3KF46.1 B3KF46_9BACI Helix-turn-helix-domain containing protein... 179 4e-43 C2CXL7.1 C2CXL7_LACBR AraC family transcriptional regulator 133 2e-29 A0NKY8.1 A0NKY8_OENOE Transcriptional regulator, AraC family 125 6e-27 >Q5WKL2.1 Q5WKL2_BACSK AraC/XylS family transcriptional regulator Length = 307 Score = 216 bits (551), Expect = 2e-54, Method: Compositional matrix adjust. Identities = 108/284 (38%), Positives = 172/284 (60%), Gaps = 9/284 (3%) Query: 14 ISETIIPDVKTTLNLFGMHLRKVRGEWEYPVHAHPQYEFNYVLEGEQQLVVNNRSYMQKA 73 ISE++ P+ KT L LFG+H+R V+G W YP H H YE N+V+EG+Q N + + Q A Sbjct: 26 ISESVYPNTKTELELFGVHVRTVKGSWFYPEHQHAIYEINWVIEGQQIFTTNGKRHEQNA 85 Query: 74 GDLVLLRPGDSHSSKSGNGKPFTYFCIHFDIDDKILISLLSRLNHVLFESGSTIAHKLGP 133 GDLVL+RPG+ H+SK GN +PFTY CIHF+IDDK+ + L+ ++ + F++ ++A K+ P Sbjct: 86 GDLVLVRPGEFHASKGGNTEPFTYLCIHFNIDDKLFLPYLTNIDPLFFKASGSLAKKMAP 145 Query: 134 VFTRLVEISSTISGDITMSQRMRLQSAVFELFGQLWEAFSIEANLPTTGTYEKVELAHQI 193 R+ ++ + + ++M +Q+ +FE+ G L A +E + V LA+QI Sbjct: 146 FLERIAKLLGHHT--FGLVEKMNMQAVMFEMLGML--ALGLEELEGKRLSERSVALAYQI 201 Query: 194 RSRLQGLVFQQFQMELPYDSHYGIDDIAAELGISASHCYRVFRQVFGVSPREFLSEQMLH 253 +++ + Q+E I+ IA +L IS S+C ++F++V+ +SPR++ S + L+ Sbjct: 202 AEQIERNLEGGGQLE-----KSNIEQIAKKLNISVSYCNQLFKKVYQMSPRKYWSFKQLN 256 Query: 254 EAKXXXXXXXXXXXXXXXXXGYRDIAHFSRQFKRWYGKSPREYR 297 +AK GY DI+HFSRQFKRW G +P ++R Sbjct: 257 KAKALLVQKDVTIEMVADQLGYYDISHFSRQFKRWTGLAPSQFR 300 >B1DAM7.1 B1DAM7_9BACL Transcriptional regulator, AraC family Length = 293 Score = 196 bits (497), Expect = 3e-48, Method: Compositional matrix adjust. Identities = 108/283 (38%), Positives = 147/283 (51%), Gaps = 3/283 (1%) Query: 16 ETIIPDVKTTLNLFGMHLRKVRGEWEYPVHAHPQYEFNYVLEGEQQLVVNNRSYMQKAGD 75 E ++PD+ +T +FG H R V W YP+H HP +E N VL G QQ V SY QKAGD Sbjct: 10 EFMLPDMDSTFRVFGAHSRTVDPGWSYPLHKHPLFEINLVLTGTQQFSVERTSYKQKAGD 69 Query: 76 LVLLRPGDSHSSKSGNGKPFTYFCIHFDIDDKILISLLSRLNHVLFESGSTIAHKLGPVF 135 L+L RPGD H S+ + TY+C+HFD+D+ LL R + S S +A + P Sbjct: 70 LLLFRPGDQHESRVSGEEDMTYYCLHFDVDEPSFRELLCRSPRCFYPSDSELAMAIRPAL 129 Query: 136 TRLVEISSTISGDITMSQRMRLQSAVFELFGQLWEAFSIEANLPTTGTYEKVELAHQIRS 195 +L+ ++ + + RM + SA+FELF L S P ELA ++ Sbjct: 130 DKLIGLTVSHEAVLRTEARMHILSALFELFAVLSGTLSKLNQDP--AGLRNSELASRVAI 187 Query: 196 RLQGLVFQQFQMELPYDSHYGIDDIAAELGISASHCYRVFRQVFGVSPREFLSEQMLHEA 255 L+ V + D I IAA +G S S R+F + FGVSPR++LS ML +A Sbjct: 188 MLEEAVEDAADAGIMNDKD-TITSIAAAVGYSTSSVNRLFSRAFGVSPRQYLSTIMLKKA 246 Query: 256 KXXXXXXXXXXXXXXXXXGYRDIAHFSRQFKRWYGKSPREYRE 298 K GY +IAHFSRQFKRW G+SP +R+ Sbjct: 247 KLLLMDLELTIEEISSRLGYNNIAHFSRQFKRWTGESPSRFRD 289 >B3KF46.1 B3KF46_9BACI Helix-turn-helix-domain containing protein AraC type Length = 304 Score = 179 bits (453), Expect = 4e-43, Method: Compositional matrix adjust. Identities = 100/283 (35%), Positives = 149/283 (52%), Gaps = 5/283 (1%) Query: 19 IPDVKTTLNLFGMHLRKVRGEWEYPVHAHPQYEFNYVLEGEQQLVVNNRSYMQKAGDLVL 78 +PDV+ + L G+H RKV W YP H H YE +++++GE +VVN + Y Q GDL+ Sbjct: 13 LPDVRMSFQLLGLHARKVGSRWTYPSHEHSMYEIHWMMDGEMNMVVNGQLYKQSVGDLLF 72 Query: 79 LRPGDSHSSKSGNGKPFTYFCIHFDIDDKILISLLSRLNHVLFESGSTIAHKLGPVFTRL 138 +RPG +HS K FTYF +HF + D L+R + + + S +A L + L Sbjct: 73 IRPGMTHSCTGAGPKGFTYFSVHFSVHDTSFCRELNRCKDIYYPADSVLAQGLSSSLSTL 132 Query: 139 VEISST-ISGDITMSQRMRLQSAVFELFGQLWEAFSIEANLPTTGTYEKVELAHQIRSRL 197 +++ +S + ++MR+ +AVFEL G L S P+ +K +A QI ++ Sbjct: 133 YSLATEHLSSPLPAFKQMRVHAAVFELLGSLVGQLS---QTPSVILSKKEAIARQIAEQI 189 Query: 198 QGLV-FQQFQMELPYDSHYGIDDIAAELGISASHCYRVFRQVFGVSPREFLSEQMLHEAK 256 + V + E+ I DIA L +S S R+FR+V+G +PR+FLSE +L EA+ Sbjct: 190 EDSVRYIHLHGEIQETERTWIHDIAKSLNLSPSQVNRIFREVYGKAPRKFLSETLLGEAQ 249 Query: 257 XXXXXXXXXXXXXXXXXGYRDIAHFSRQFKRWYGKSPREYREA 299 GY+ AHFSRQFKRW +P EYR Sbjct: 250 RLLKQTDLSMDHIAMMLGYKTNAHFSRQFKRWTRMAPSEYRNG 292 >C2CXL7.1 C2CXL7_LACBR AraC family transcriptional regulator Length = 293 Score = 133 bits (334), Expect = 2e-29, Method: Compositional matrix adjust. Identities = 85/281 (30%), Positives = 140/281 (49%), Gaps = 6/281 (2%) Query: 19 IPDVKTTLNLFGMHLRKVRGEWEYPVHAHPQYEFNYVLEGEQQLVVNNRSYMQKAGDLVL 78 +P + L FG H +KV EW P+ H +E +VLEG + + + +++Y AGD L Sbjct: 10 LPVLDWNLTFFGAHEQKVGPEWVVPIEKHYAFECIFVLEGHEYVKIQDKTYTLSAGDFFL 69 Query: 79 LRPGDSHSSKSGNGKPFTYFCIHFDIDDKILISLLSRLNHVLFESGSTIAHKLGPVFTRL 138 + P H + G+ YFC HFD+DD L L + S + K+ P T+L Sbjct: 70 IPPEFPHQVWA--GQILKYFCFHFDLDDPNLKVQLIQGISYYHPCNSELCKKITPHLTKL 127 Query: 139 VEISSTISGDITMSQRMRLQ-SAVFELFGQLWEAFSIEANLPTTGTYEKVELAHQIRSRL 197 + S D ++++ S + + F Q + +A+ T Y ++ +A ++SRL Sbjct: 128 DSLIKDGSFDFNTKMIIQIELSKMLQSFYQSAMKHTHDAS-STHVEYSRI-MADYMKSRL 185 Query: 198 QGLVFQQFQMEL-PYDSHYGIDDIAAELGISASHCYRVFRQVFGVSPREFLSEQMLHEAK 256 V + P + +DD ++G+S + +R+F+Q +G+SPRE+LS+ ++EAK Sbjct: 186 TNQVLSYIKNGYAPVEKPVEVDDAIRKVGLSNGYGFRIFKQTYGISPREYLSKLKVNEAK 245 Query: 257 XXXXXXXXXXXXXXXXXGYRDIAHFSRQFKRWYGKSPREYR 297 GY +A+FSRQFKRW G SP ++R Sbjct: 246 KLLMKPSYSVADIGLALGYSGLANFSRQFKRWTGLSPNQFR 286 >A0NKY8.1 A0NKY8_OENOE Transcriptional regulator, AraC family Length = 293 Score = 125 bits (313), Expect = 6e-27, Method: Compositional matrix adjust. Identities = 89/297 (29%), Positives = 139/297 (46%), Gaps = 31/297 (10%) Query: 19 IPDVKTTLNLFGMHLRKVRGEWEYPVHAHPQYEFNYVLEGEQQLVVNNRSYMQKAGDLVL 78 +P + LN FG H +KV W P++ H +E +V+ G++ + + SY+ +GD VL Sbjct: 10 LPVLDWNLNFFGGHSQKVDDTWIVPLNKHQAFELIFVVNGQEIVNFEHDSYLLNSGDFVL 69 Query: 79 LRPGDSHSSKSGNGKPFTYFCIHFDIDDKILISLLSRLNHVLFESGSTIAHKLGPVFTRL 138 + PG H+ + K TYFC HFDIDD + L + + + F S++ ++ P+ + Sbjct: 70 IPPGFIHTVSA--VKNLTYFCFHFDIDDPSFVVGLIQNSPIYFPKDSSVNQEITPI---I 124 Query: 139 VEISSTISGDI-TMSQRMRLQSAVFELFGQLWEAFSIEANLPTTGTYEKVELAHQIRSR- 196 +++ IS + + +M LQ L L + S+ PT + + A I Sbjct: 125 EDMNKMISSKVYSFKDKMNLQ---IYLSKMLLKFNSLINKQPTVIGSSQSKYAKTISEMI 181 Query: 197 ---------------LQGLVFQQFQM-ELPYDSHYGIDDIAAELGISASHCYRVFRQVFG 240 L G Q+ Q+ E+P H I GIS + RVFR V+G Sbjct: 182 KNEFNDHVLYFATRFLNGPDNQKIQVPEMPTIKH-----IMEATGISVGYGNRVFRSVYG 236 Query: 241 VSPREFLSEQMLHEAKXXXXXXXXXXXXXXXXXGYRDIAHFSRQFKRWYGKSPREYR 297 +SP ++LS+ L A+ GY + HFSRQFKRW G SP++YR Sbjct: 237 LSPCDYLSKLKLKWAQQMLAKPQYNIDEIALVLGYSNSTHFSRQFKRWTGVSPKKYR 293 Database: pfamseq Posted date: Aug 5, 2010 3:22 PM Number of letters in database: 3,060,696,203 Number of sequences in database: 9,421,015 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: 9421015 Number of Hits to DB: 1,635,796,669 Number of extensions: 60954070 Number of successful extensions: 163525 Number of sequences better than 1.0e-05: 332 Number of HSP's gapped: 167578 Number of HSP's successfully gapped: 332 Length of query: 301 Length of database: 3,060,696,203 Length adjustment: 135 Effective length of query: 166 Effective length of database: 1,788,859,178 Effective search space: 296950623548 Effective search space used: 296950623548 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: 131 (55.1 bits)