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= 0531.0013.p (290 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B1DL95.1 B1DL95_9BACL Transcriptional regulator, AraC family 267 1e-69 B3K804.1 B3K804_9BACI Helix-turn-helix-domain containing protein... 248 6e-64 B1D9P3.1 B1D9P3_9BACL Transcriptional regulator, AraC family 215 3e-54 B1DGP1.1 B1DGP1_9BACL Transcriptional regulator, AraC family 210 1e-52 B3KCF4.1 B3KCF4_9BACI Helix-turn-helix-domain containing protein... 206 2e-51 >B1DL95.1 B1DL95_9BACL Transcriptional regulator, AraC family Length = 285 Score = 267 bits (682), Expect = 1e-69, Method: Compositional matrix adjust. Identities = 136/286 (47%), Positives = 180/286 (62%), Gaps = 3/286 (1%) Query: 6 SYIHLAAPPFPYFLEGDRTVYQPGDQHPNRSRMGKFDLLIVEQGCLFIGEEHKQWAVPAG 65 +Y+ L PP PY++ +TVY+PG+QHPNR +G FDLL V QG L+IGEE KQW V AG Sbjct: 2 TYVSLQLPPIPYYIATGQTVYKPGEQHPNRRNLGLFDLLWVTQGTLYIGEEDKQWEVKAG 61 Query: 66 HTLLLLPDRYHYSVKPCEETTSFVWLHFHTVAEWVEAEGDPVYASREEHLQKFLTYPYTI 125 LLLLPDRYHYS KPC+ TSF W+HF EW E D S L+ PY I Sbjct: 62 EALLLLPDRYHYSTKPCDSDTSFHWIHFDFQGEWKEHTSDA--PSPPLPLRHAWENPYFI 119 Query: 126 RVPQFASLPDPFERSGQAEXXXXXXXXXXXXAVWQQQRIFEDMLRMLDLGQQDAG-GSPG 184 ++PQ+A+ P+ WQ+ ++F ++L +L+ + A SP Sbjct: 120 QIPQYAAPPEFTLAERHLGQLLAYASEHQRGVYWQEHQLFIELLGLLEERRDRASTDSPA 179 Query: 185 AEIAERTEAYLRNHYTEPLTNVSLADALHFHYNYLARCMKRVYGLTPMEYLTDYRLEQAK 244 ++A +TEAY+R HY LTN +LA+ALHFH NY+ RCMK +Y +PM+YL YRLEQAK Sbjct: 180 MKLASKTEAYIRQHYQSELTNAALAEALHFHPNYIVRCMKEIYHCSPMDYLHQYRLEQAK 239 Query: 245 LLLLKTEIPIAGVAERTGFESTAYFSRRFASKVGISPLRFRKRYSR 290 LLL+KTE IA +A++TGF YFS F + G SPL++RK++SR Sbjct: 240 LLLVKTEWSIAVIADKTGFRHAPYFSNCFRAYTGTSPLKYRKQFSR 285 >B3K804.1 B3K804_9BACI Helix-turn-helix-domain containing protein AraC type Length = 274 Score = 248 bits (632), Expect = 6e-64, Method: Compositional matrix adjust. Identities = 121/284 (42%), Positives = 177/284 (62%), Gaps = 15/284 (5%) Query: 6 SYIHLAAPPFPYFLEGDRTVYQPGDQHPNRSRMGKFDLLIVEQGCLFIGEEHKQWAVPAG 65 S + + P PYFLE +T Y PG+ HPNR +G FDL++V++GCLF+GEE+ QWA+ AG Sbjct: 5 SVLSFTSLPLPYFLESGKTHYMPGESHPNRRNLGVFDLILVQRGCLFLGEENLQWALRAG 64 Query: 66 HTLLLLPDRYHYSVKPCEETTSFVWLHFHTVAEWVEAEGDPVYASREEHLQKFLTYPYTI 125 +L+PD +HY+V+ C E TSF WLHF + A S +H + + I Sbjct: 65 DMAVLMPDAHHYAVQECREETSFYWLHFQSAA-----------TSTTDHA----SISHNI 109 Query: 126 RVPQFASLPDPFERSGQAEXXXXXXXXXXXXAVWQQQRIFEDMLRMLDLGQQDAGGSPGA 185 ++P+ +P P + + A W++Q +F ++L +LD + D S Sbjct: 110 KLPRQGHIPYPEQAYQLFDSLHLQATEPRSTAFWREQTLFIELLELLDPSRSDQEQSRVR 169 Query: 186 EIAERTEAYLRNHYTEPLTNVSLADALHFHYNYLARCMKRVYGLTPMEYLTDYRLEQAKL 245 ++AE+ E+Y++ HY EP++N L+ LHFHYNYL RCMK +GLTP EYL YRL+QAK Sbjct: 170 KVAEQVESYIKMHYREPISNARLSSDLHFHYNYLTRCMKASHGLTPTEYLLQYRLDQAKR 229 Query: 246 LLLKTEIPIAGVAERTGFESTAYFSRRFASKVGISPLRFRKRYS 289 LLL T+ +A +AE GF+ YFSRRF+++ G+SPL+FRK+Y+ Sbjct: 230 LLLTTQWSMARIAEHVGFQYPPYFSRRFSARFGLSPLQFRKQYT 273 >B1D9P3.1 B1D9P3_9BACL Transcriptional regulator, AraC family Length = 293 Score = 215 bits (548), Expect = 3e-54, Method: Compositional matrix adjust. Identities = 109/290 (37%), Positives = 166/290 (57%), Gaps = 6/290 (2%) Query: 6 SYIHLAAPPFPYFLEGDRTVYQPGDQHPNRSRMGKFDLLIVEQGCLFIGEEHKQWAVPAG 65 + H PP P+++ T G +HP R R+G FDLL+V +GCLF+GE + V AG Sbjct: 2 TLFHFTVPPLPHYIASGYTKCSAGFKHPGRYRIGVFDLLVVTEGCLFMGEGDSTFEVRAG 61 Query: 66 HTLLLLPDRYHYSVKPCEETTSFVWLHFHTVAEWVEAE--GDPVYASREEHL---QKFLT 120 L+L PD +HY+ K CEE +++ WLHF T W +E + RE H Q F T Sbjct: 62 EVLILGPDNHHYATKECEEPSAYYWLHFQTTGRWAASEEYAPRIIQGREPHGLNPQIFTT 121 Query: 121 YPYTIRVPQFASLPDPFERSGQAEXXXXXXXXXXXXAV-WQQQRIFEDMLRMLDLGQQDA 179 + +VPQ+ L P + Q + +V W+QQ +F++++ L + Sbjct: 122 QTFIKQVPQYTRLLQPAKTVEQIQQLMELGHGNHLGSVSWKQQVLFQEIIEQLSASIEMQ 181 Query: 180 GGSPGAEIAERTEAYLRNHYTEPLTNVSLADALHFHYNYLARCMKRVYGLTPMEYLTDYR 239 G +P ++ AE +YLR HY E + L ++++FH Y+ARCM++ +G +P ++L +R Sbjct: 182 GTTPTSQCAELAASYLRKHYREDIKAQQLGESINFHPVYIARCMQKEFGCSPFDFLLRFR 241 Query: 240 LEQAKLLLLKTEIPIAGVAERTGFESTAYFSRRFASKVGISPLRFRKRYS 289 ++Q+KLLLL+T IA VAE GF S AYF+ FA GISP ++R+R+S Sbjct: 242 IQQSKLLLLQTNYTIARVAEEVGFNSAAYFTSCFAKYEGISPRKYRQRFS 291 >B1DGP1.1 B1DGP1_9BACL Transcriptional regulator, AraC family Length = 275 Score = 210 bits (534), Expect = 1e-52, Method: Compositional matrix adjust. Identities = 113/281 (40%), Positives = 165/281 (58%), Gaps = 11/281 (3%) Query: 6 SYIHLAAPPFPYFLEGDRTVYQPGDQHPNRSRMGKFDLLIVEQGCLFIGEEHKQWAVPAG 65 S++ L PP PY+ E R+ ++ GD+HPNR G FDL+IV +G LFIGE ++W++ G Sbjct: 2 SFVELQTPPLPYYWESGRSEFRTGDRHPNRRNFGIFDLIIVSEGELFIGENGQEWSLGKG 61 Query: 66 HTLLLLPDRYHYSVKPCEETTSFVWLHFHTVAEWVEAEGDPVYASREEHLQKFLTYPYTI 125 TLLLLPD HYSVKPCE+ T F W+HF + W +A Q FL P+ I Sbjct: 62 DTLLLLPDGEHYSVKPCEQHTVFYWVHFEHL-NWRS------HAKEGASAQSFLN-PHLI 113 Query: 126 RVPQFASLPDPFERSGQAEXXXXXXXXXXXXAVWQQQRIFEDMLRMLDLGQQDAGGSPGA 185 R+P+ SL DP + + W++Q + +L +L+ + +P A Sbjct: 114 RIPKHISLTDP---ENALKLMYQLLNLTVGDSFWEEQGLLAQLLSLLENESLNKTSTPAA 170 Query: 186 EIAERTEAYLRNHYTEPLTNVSLADALHFHYNYLARCMKRVYGLTPMEYLTDYRLEQAKL 245 +AE+ YL+ ++ + +T+ LA+ LHFH NY+ RCMK+ YG+TP YL ++RL++AK Sbjct: 171 RLAEKAAFYLQQNFQKDITSELLAEELHFHPNYIVRCMKKRYGMTPSHYLLEFRLDRAKK 230 Query: 246 LLLKTEIPIAGVAERTGFESTAYFSRRFASKVGISPLRFRK 286 LL+ +E I +AE GF YF+ F + GISPLR+RK Sbjct: 231 LLVSSEWSIERIAEEVGFRYAPYFTACFKRREGISPLRYRK 271 >B3KCF4.1 B3KCF4_9BACI Helix-turn-helix-domain containing protein AraC type Length = 296 Score = 206 bits (524), Expect = 2e-51, Method: Compositional matrix adjust. Identities = 111/282 (39%), Positives = 160/282 (56%), Gaps = 5/282 (1%) Query: 10 LAAPPFPYFLEGDRTVYQPGDQHPNRSRMGKFDLLIVEQGCLFIGEEHKQWAVPAGHTLL 69 APP P+++ YQ GD+HP+R +G FDLL+V +G LF+ E ++V AG+ L+ Sbjct: 13 FTAPPLPHYMICGEDTYQEGDRHPDRYNIGVFDLLLVTRGELFLEENGVSYSVKAGYHLI 72 Query: 70 LLPDRYHYSVKPCEETTSFVWLHFHTVAEWVEAEGD-PVYASREEH-LQKFLTYPYTIRV 127 L PD H + PC++ T F WLHF TVA W+EAE P S+ +H +F + + I Sbjct: 73 LRPDAAHRTYLPCQKETHFYWLHFQTVAPWIEAEERIPFALSQSDHPYVQFDNFSFYI-- 130 Query: 128 PQFASLPDPFERSGQAEXXXXXXXXXXXXAVWQQQRIFEDMLRMLDLGQQDAGGS-PGAE 186 P++ L + E A W+QQ++ ++L + ++ P Sbjct: 131 PKYGELSSKAQAGRLIEQLQLLQQSPSSAARWKQQQLMHELLLLFQAEEEGIQQQHPHYA 190 Query: 187 IAERTEAYLRNHYTEPLTNVSLADALHFHYNYLARCMKRVYGLTPMEYLTDYRLEQAKLL 246 IAERT YLR HY EP++ L+DA+HFH NY++ CMK+ +G TP+E+LT +R+EQAK L Sbjct: 191 IAERTANYLRAHYKEPVSYQQLSDAMHFHQNYISICMKKTFGCTPLEFLTRHRIEQAKRL 250 Query: 247 LLKTEIPIAGVAERTGFESTAYFSRRFASKVGISPLRFRKRY 288 L+ T PI +AE +GF S YF R F G P FR +Y Sbjct: 251 LIHTNEPIGRIAEESGFGSFPYFIRCFVRYTGFKPNSFRLKY 292 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 0.138 0.431 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: 1,820,266,895 Number of extensions: 72626685 Number of successful extensions: 148948 Number of sequences better than 1.0e-05: 3072 Number of HSP's gapped: 149719 Number of HSP's successfully gapped: 3079 Length of query: 290 Length of database: 3,060,696,203 Length adjustment: 134 Effective length of query: 156 Effective length of database: 1,798,280,193 Effective search space: 280531710108 Effective search space used: 280531710108 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: 130 (54.7 bits)