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= 0320.0001.p (255 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B7GJA8.1 B7GJA8_ANOFW Transcriptional regulator containing HTH d... 205 3e-51 A6M209.1 A6M209_CLOB8 Helix-turn-helix-domain containing protein... 195 3e-48 B3KF63.1 B3KF63_9BACI Helix-turn-helix-domain containing protein... 176 1e-42 B3KF71.1 B3KF71_9BACI Helix-turn-helix-domain containing protein... 143 1e-32 Q03GN5.1 Q03GN5_PEDPA Transcriptional regulator, AraC family 113 2e-23 >B7GJA8.1 B7GJA8_ANOFW Transcriptional regulator containing HTH domain, AraC family Length = 281 Score = 205 bits (522), Expect = 3e-51, Method: Compositional matrix adjust. Identities = 99/255 (38%), Positives = 142/255 (55%), Gaps = 2/255 (0%) Query: 1 MELLNHIYWRQKRAFDLAEDLYDTWVAFAVEEGIFRYEIGADSGEAGFADVVLCPPGVPF 60 +E+ H YW F L+ED Y W F +EEGIF Y++ EA F +++ CPP +P Sbjct: 29 LEIHQHSYWNPIIQFQLSEDTYPHWNIFCIEEGIFEYQVMGQKEEAQFGEIIFCPPNIPL 88 Query: 61 RRAAITPLTFHYLQFSASREEAAELLPPAGRSFFNDTKRLASTYACLRQAGEENDLPSGL 120 +R A+TPL FH+L+FS E L P G+ D +RL+STY+ R S Sbjct: 89 KRRAVTPLKFHFLRFSFKNIEQYRL--PIGKIKILDIERLSSTYSHFRSMAFNETELSNK 146 Query: 121 WKNHLLLDLWQLFQWERRQSRLKERTFTEDXXXXXXXXXXXXXXXXXVSLQELARRLALS 180 WK HL+ DL QL+ E + + + +D +++Q +A LS Sbjct: 147 WKAHLIYDLLQLYNMENQLLTIDNQPKIKDPVIAKAIERLHEQAFTNITIQNVASHFGLS 206 Query: 181 PVQLTRRFREAFQVTPSDYLRAIRLKKARSLLAESTLTLAQIAERCGYENGFYLSRVFTK 240 VQ TRRF+ ++PS+YL +RL+KAR+LL E+ T+ IA RCGY NGFY SR+F+K Sbjct: 207 SVQFTRRFQANVGISPSEYLTLLRLRKARTLLLETDYTIDDIASRCGYSNGFYFSRIFSK 266 Query: 241 AMGVSPSEYRRRSRV 255 M +SPS +R+ R+ Sbjct: 267 KMKMSPSNFRKIHRI 281 >A6M209.1 A6M209_CLOB8 Helix-turn-helix-domain containing protein, AraC type Length = 260 Score = 195 bits (496), Expect = 3e-48, Method: Compositional matrix adjust. Identities = 92/249 (36%), Positives = 144/249 (57%), Gaps = 2/249 (0%) Query: 6 HIYWRQKRAFDLAEDLYDTWVAFAVEEGIFRYEIGADSGEAGFADVVLCPPGVPFRRAAI 65 HI+W +K F L ED+ WV +A+E+G YE+ + G+ F D+V+CPPG+ F+R I Sbjct: 14 HIFWDKKEHFLLDEDIDSNWVLYAIEDGECSYEVESHKGKGKFGDIVICPPGMIFKREVI 73 Query: 66 TPLTFHYLQFSASREEAAELLPPAGRSFFNDTKRLASTYACLRQAGEENDLPSGLWKNHL 125 T LTFH++ FS + + P G+ +D KRL + Y L+ N++ WK+ L Sbjct: 74 TTLTFHFINFSINSGDDTSSFP-VGKISVSDLKRLNNMYYYLKLYSHNNNIELNQWKSSL 132 Query: 126 LLDLWQLFQWERRQSRLKERTFTEDXXXXXXXXXXXXXXXXXVSLQELARRLALSPVQLT 185 + D+ +L+ E + S + F +D + +++ + L LS VQ T Sbjct: 133 ISDILKLYYIETQYSS-SPKNFVQDEIINYSLKYLNKYAYESIKIKDFSASLGLSSVQFT 191 Query: 186 RRFREAFQVTPSDYLRAIRLKKARSLLAESTLTLAQIAERCGYENGFYLSRVFTKAMGVS 245 RRF + TP +Y+ ++RL++A+ LL + TL IA +CGY+NGFYLSRVF K +G+S Sbjct: 192 RRFHKCIGTTPIEYITSLRLRRAQVLLLRTEDTLDCIASKCGYDNGFYLSRVFAKNLGIS 251 Query: 246 PSEYRRRSR 254 PS+YR++ R Sbjct: 252 PSDYRKKYR 260 >B3KF63.1 B3KF63_9BACI Helix-turn-helix-domain containing protein AraC type Length = 280 Score = 176 bits (447), Expect = 1e-42, Method: Compositional matrix adjust. Identities = 104/269 (38%), Positives = 138/269 (51%), Gaps = 17/269 (6%) Query: 3 LLNHIYWRQKRAFDLAEDLYDTWVAFAVEEGIFRYEIGADSGEAGFADVVLCPPGVPFRR 62 L++H++W K+ F + D Y WV FAVE G FRY IG G A DV++CPPG+ F R Sbjct: 13 LMHHVFWNHKKQFQYSVDTYGHWVLFAVEGGSFRYGIGDSEGTAQMGDVIVCPPGIDFHR 72 Query: 63 AAITPLTFHYLQF--------SASREEAAE-----LLPPAGRSFFNDTKRLASTYACLR- 108 I +FH++ F + +EA + L A + +R A + Sbjct: 73 DVIHAPSFHFIGFWLGFISGEAVEGQEAVQDVHHRLAASAYKPAVAHKERFADNLRYFKR 132 Query: 109 --QAGEENDLPSGLWKNHLLLDLWQLFQWERRQSRLKERTFTEDXXXXXXXXXXXXXXXX 166 +A E D S W+NH L D+W + E D Sbjct: 133 QDEAAAEIDQRS-YWQNHALNDIWLFCLQSIAVGVVGEDKKPADPLMEQARLYIQQNAYK 191 Query: 167 XVSLQELARRLALSPVQLTRRFREAFQVTPSDYLRAIRLKKARSLLAESTLTLAQIAERC 226 +SL LA L +SPVQLTRRF + +TPS YL IRL++A+SLL ++ L L QIA C Sbjct: 192 DMSLLVLAEELGISPVQLTRRFTRSVGMTPSRYLSHIRLEQAKSLLVDTHLNLEQIALAC 251 Query: 227 GYENGFYLSRVFTKAMGVSPSEYRRRSRV 255 G+ NGFYLSRVFTK M VSPS YR+ +RV Sbjct: 252 GFNNGFYLSRVFTKLMKVSPSAYRKTNRV 280 >B3KF71.1 B3KF71_9BACI Helix-turn-helix-domain containing protein AraC type Length = 265 Score = 143 bits (361), Expect = 1e-32, Method: Compositional matrix adjust. Identities = 95/258 (36%), Positives = 129/258 (50%), Gaps = 6/258 (2%) Query: 2 ELLNHIYWRQKRAFDLAEDLYDTWVAFAVEEGIFRYEIGADSGEAGFADVVLCPPGVPFR 61 +L H+Y + F D YD W F VEEG F Y +G+ SG A D+VLCPP + F Sbjct: 10 DLQYHVYVKDTPQFQKTHDTYDHWALFIVEEGAFNYRMGSQSGRAVKDDIVLCPPDLTFY 69 Query: 62 RAAITPLTFHYLQF----SASREEAAELLPPAGRSFFNDTKRLASTYACLRQAGEENDLP 117 R L+FH + F S A P G+ + KR ST + R+A + Sbjct: 70 RQT-DGLSFHLMGFQWINSLEGPPRAADFPTFGKLRLLNHKRFQSTLSQFREAQYLHAGI 128 Query: 118 SGLWKNHLLLDLWQLFQWERRQSRLKERTFTEDXXXXXXXXXXXXXXXXXVSLQELARRL 177 +K HLL DL L Q E+ + F+ED +SL+ +A L Sbjct: 129 GHTYKKHLLRDLLYLLQIEQSEQHTMT-LFSEDPTLGRALHLLQQQAEFGLSLKSIAVEL 187 Query: 178 ALSPVQLTRRFREAFQVTPSDYLRAIRLKKARSLLAESTLTLAQIAERCGYENGFYLSRV 237 L+ VQLTR F F++TPS Y +R+ K + LL S+LTLAQIAE CG+ + +LS+ Sbjct: 188 GLTQVQLTRLFTREFRITPSAYATNLRMDKVKQLLVYSSLTLAQIAEHCGFTDEHHLSKS 247 Query: 238 FTKAMGVSPSEYRRRSRV 255 F K GV+PS YR+ V Sbjct: 248 FKKLCGVNPSSYRKTHSV 265 >Q03GN5.1 Q03GN5_PEDPA Transcriptional regulator, AraC family Length = 250 Score = 113 bits (282), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 67/255 (26%), Positives = 120/255 (47%), Gaps = 17/255 (6%) Query: 6 HIYWRQKRAFDLAEDLYDTWVAFAVEEGIFRYEIGADSGEAGFADVVLCPPGVPFRRAAI 65 + YW K +F L D+ +V + +E G +E SG A D++L PP V F+R + Sbjct: 8 YTYWENKPSFQLESDIGSNYVMYIIESGSCEFEFSQYSGIASANDILLIPPYVKFKRNML 67 Query: 66 TPLTFHYLQFSASREEAAELLP-PAGRSFFND----TKRLASTYACLRQAGEENDLPSGL 120 P+ FH+++ ++P P +F + R LR+ + S Sbjct: 68 EPMCFHFIR----------VIPDPVTPTFIGKHHLGSHRFYENCEFLRKTNFSLNTDSHY 117 Query: 121 WKNHLLLDLWQLFQWERRQSRLKERTFTEDXXXXXXXXXXXXXXXXXVSLQELARRLALS 180 +NH++ D + L + ++ + ++ + + +S+ E+A+ S Sbjct: 118 IQNHIVEDFFMLLKIKKFKPIEPKQALSRNNIINSAIELMEHNSS--LSISEIAQFTNTS 175 Query: 181 PVQLTRRFREAFQVTPSDYLRAIRLKKARSLLAESTLTLAQIAERCGYENGFYLSRVFTK 240 +R F++ TP + I+LKK + LL + LTLA+I+E+ G+ + FYLS+VFT Sbjct: 176 TAYFSRIFKKTIGETPVCFYTKIKLKKVQKLLITTNLTLAEISEQTGFTDPFYLSKVFTT 235 Query: 241 AMGVSPSEYRRRSRV 255 +G SP YR+ + Sbjct: 236 HLGCSPRTYRKNHII 250 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 0.323 0.136 0.411 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: 1,367,013,258 Number of extensions: 48949606 Number of successful extensions: 153860 Number of sequences better than 1.0e-05: 3625 Number of HSP's gapped: 155089 Number of HSP's successfully gapped: 3625 Length of query: 255 Length of database: 3,060,696,203 Length adjustment: 133 Effective length of query: 122 Effective length of database: 1,807,701,208 Effective search space: 220539547376 Effective search space used: 220539547376 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: 40 (21.5 bits) S2: 129 (54.3 bits)