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= 0533.0014.p (287 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B1DB41.1 B1DB41_9BACL Transcriptional regulator, AraC family 391 e-107 B1DFZ4.1 B1DFZ4_9BACL Transcriptional regulator, AraC family 277 6e-73 Q9RC93.1 Q9RC93_BACGL Orf1 protein 235 4e-60 B3KFA7.1 B3KFA7_9BACI Helix-turn-helix-domain containing protein... 176 2e-42 B1D6B5.1 B1D6B5_9BACL Transcriptional regulator, AraC family 157 8e-37 >B1DB41.1 B1DB41_9BACL Transcriptional regulator, AraC family Length = 290 Score = 391 bits (1004), Expect = e-107, Method: Compositional matrix adjust. Identities = 215/287 (74%), Positives = 243/287 (84%), Gaps = 4/287 (1%) Query: 1 VDPGHSSFFLAFRDELQEDHFHKFHAHQGLELLFIHEGQGIVEVEGRTYELQGGSLFCFQ 60 V PG SSFFLAFRDE E+HF +FHAHQGLELLFIHEGQG+VEVEG +YEL+GGSLFCFQ Sbjct: 8 VAPGKSSFFLAFRDEWTEEHFLRFHAHQGLELLFIHEGQGVVEVEGNSYELEGGSLFCFQ 67 Query: 61 PYQLHKVEIPAPRDARDVRYVRTNLTFEPRYLEPFLAPYPKLEAFLRFLSRGTLSSPRFA 120 PYQLHK+EIP + AR YVRTNLTF+PR LEP+LAP+PKL +FLR+L+RG L +P+F Sbjct: 68 PYQLHKLEIPGRKSAR---YVRTNLTFDPRLLEPYLAPFPKLLSFLRYLTRGALPAPKFT 124 Query: 121 VDDSRLMGAVESHVQAVLEPGEGQEEARILFLISLLRYLQLAVISGEELPPEGWSVKTTA 180 +++LM +E VQAV E GE QE A+IL LISLLRYLQL+VI+ EL PE WS TA Sbjct: 125 FSENQLMSIMECQVQAVRESGEEQE-AQILLLISLLRYLQLSVIAQPELSPEEWSAAKTA 183 Query: 181 HIESVMDWIEDHFRQPFSLELLAGELHLSSYYVSHLFKQYTGVSLTDYVTARRIREACVL 240 HIE++MDWIE HFRQPFSLELL+ ELHLSSYYVSHLFKQYTGVSLTDYVTARR+REACVL Sbjct: 184 HIEAMMDWIERHFRQPFSLELLSEELHLSSYYVSHLFKQYTGVSLTDYVTARRMREACVL 243 Query: 241 LGSSGQSVQRIAREVGGLSAPYFCKLFKKHKGMTPLDYRSALHHTAK 287 LGSS VQ+IA EVG LSAPYFCKLFKK KGMTPLDYRSALH+ AK Sbjct: 244 LGSSDMPVQQIAHEVGRLSAPYFCKLFKKQKGMTPLDYRSALHYAAK 290 >B1DFZ4.1 B1DFZ4_9BACL Transcriptional regulator, AraC family Length = 291 Score = 277 bits (709), Expect = 6e-73, Method: Compositional matrix adjust. Identities = 140/289 (48%), Positives = 192/289 (66%), Gaps = 7/289 (2%) Query: 1 VDPGHSSFFLAFRDELQEDHFHKFHAHQGLELLFIHEGQGIVEVEGRTYELQGGSLFCFQ 60 +D G ++F R E + +++ HAHQG+ELL+IHEG G V +E + Y+L+ LFCFQ Sbjct: 8 MDLGANAFSFTHRYETRNENWLMLHAHQGIELLYIHEGSGTVTLESQQYKLEDNMLFCFQ 67 Query: 61 PYQLHKVEIPAPRDARDVRYVRTNLTFEPRYLEPFLAPYPKLEAFLRFLSRGTLSSPRFA 120 PYQLHKV++P A Y+RTNLTF+ R L+P+L PYPK++AFLR L G L F Sbjct: 68 PYQLHKVDVPLKEGAT---YIRTNLTFDARILDPYLQPYPKMQAFLRRLMYGLLRRQVFT 124 Query: 121 VDDSRLMGAVESHVQAV--LEPGEGQEEARILFLISLLRYLQLAVISGEELPPEGWSVKT 178 + + + + S + L GE E R+LFL+SL+++LQL V E K Sbjct: 125 FCEDKTLANLLSDYDKMRTLTGGEPSVEDRVLFLLSLIKHLQLHVF--ESGDTHASMDKN 182 Query: 179 TAHIESVMDWIEDHFRQPFSLELLAGELHLSSYYVSHLFKQYTGVSLTDYVTARRIREAC 238 + H+E ++DWIE H+RQ SLE L+ ELHLSSY++SHLFKQ TG++++DYV RRIREAC Sbjct: 183 SGHVEKILDWIETHYRQTISLESLSRELHLSSYHISHLFKQQTGMTISDYVAGRRIREAC 242 Query: 239 VLLGSSGQSVQRIAREVGGLSAPYFCKLFKKHKGMTPLDYRSALHHTAK 287 LL ++ S+ I R +GG SAPYF +LFK+HKG+TP YRSA+ HT + Sbjct: 243 ALLENTDYSINEIGRMIGGFSAPYFSQLFKRHKGVTPHLYRSAIKHTYR 291 >Q9RC93.1 Q9RC93_BACGL Orf1 protein Length = 297 Score = 235 bits (599), Expect = 4e-60, Method: Compositional matrix adjust. Identities = 128/284 (45%), Positives = 179/284 (63%), Gaps = 8/284 (2%) Query: 4 GHSSFFLAFRDELQEDHFHKFHAHQGLELLFIHEGQGIVEVEGRTYELQGGSLFCFQPYQ 63 G +FF ++R ++ + FHAHQG+ELL++HEG G E Y ++ G+L F PYQ Sbjct: 13 GPDAFFSSYRQTTNDEDWLAFHAHQGIELLYVHEGNGEAMTEDARYPIRPGTLLLFLPYQ 72 Query: 64 LHKVEIPAPRDARDVRYVRTNLTFEPRYLEPFLAPYPKLEAFLRFLSRGTLSSPRFAVDD 123 LHKVE+P+ A YVR+ + F+PR +EP+L PYP L + L RG LSS + Sbjct: 73 LHKVEVPSVPGAP---YVRSLVKFDPRIVEPYLTPYPALARWFLRLKRGLLSSSFCDLGT 129 Query: 124 S-RLMGAVESHVQAVLEPGEGQEEARILFLISLLRYLQLAVI--SGEELPPEGWSVKTTA 180 S RL G + + G +EE R LFL+SLL L+ +G + PE + + Sbjct: 130 SERLPGLLRDFHERCGAVGPAKEEERSLFLVSLLHELRHRAFPEAGRDGSPE--AEGRSL 187 Query: 181 HIESVMDWIEDHFRQPFSLELLAGELHLSSYYVSHLFKQYTGVSLTDYVTARRIREACVL 240 HI+ +MDWIE+ + +PF L+ L+GELHLS YY+SHLFK+YTG S+ DY+TARRIREAC L Sbjct: 188 HIDRMMDWIEERYARPFDLQSLSGELHLSPYYLSHLFKEYTGSSIRDYITARRIREACRL 247 Query: 241 LGSSGQSVQRIAREVGGLSAPYFCKLFKKHKGMTPLDYRSALHH 284 L S+ S++ IA +VGG A +FC+LFKK KG++P +R + Sbjct: 248 LSSTSDSIRSIAEQVGGFGASHFCQLFKKCKGVSPETFRRTVQQ 291 >B3KFA7.1 B3KFA7_9BACI Helix-turn-helix-domain containing protein AraC type Length = 289 Score = 176 bits (447), Expect = 2e-42, Method: Compositional matrix adjust. Identities = 104/279 (37%), Positives = 159/279 (56%), Gaps = 11/279 (3%) Query: 6 SSFFLAFRDELQEDHFHK--FHAHQGLELLFIHEGQGIVEVEGRTYELQGGSLFCFQPYQ 63 S + A+R + E++ HK FH+H GLE+LFIH+G+G + V +YE++ G L FQP Q Sbjct: 11 SPLYFAYRRK-SENYEHKETFHSHLGLEVLFIHQGRGTMIVNNNSYEIKPGMLCIFQPCQ 69 Query: 64 LHKVEIPAPRDARDVRYVRTNLTFEPRYLEPFLAPYPKLEAFLRFLSRGTLSSP-RFAVD 122 LH +++ D + R+ FEP E + +P L F F+ G L P + VD Sbjct: 70 LHHLKLEY--DDHQC-FERSIAIFEPTVFEAYFKQWPALHEFYNFIYLGNLPFPCLYEVD 126 Query: 123 DSRLMGAVESHVQ--AVLEPGEGQEEARILFLISLLRYLQLAVISGEELPPEGWSVKTTA 180 D L GA +S L E EE LFL++L R L+ + ++ + + Sbjct: 127 DPYLEGAYKSMNDRFPTLSDTEKYEEIS-LFLVALFRSLK-PIWDKRKVRSSTYQTRKNH 184 Query: 181 HIESVMDWIEDHFRQPFSLELLAGELHLSSYYVSHLFKQYTGVSLTDYVTARRIREACVL 240 +E ++ WIE ++ PF L+ +A LHLS Y++SHLFK+ TG+S+T+Y+ ARRI ++ L Sbjct: 185 RVEHILTWIETNYTIPFRLDDMAKSLHLSPYHLSHLFKEATGISITEYIAARRIHQSIQL 244 Query: 241 LGSSGQSVQRIAREVGGLSAPYFCKLFKKHKGMTPLDYR 279 L ++ + + IA E+G ++ YFCKLFK G+TP YR Sbjct: 245 LATTKKPISLIAEEIGLTNSSYFCKLFKSQMGITPHQYR 283 >B1D6B5.1 B1D6B5_9BACL Transcriptional regulator, AraC family Length = 279 Score = 157 bits (398), Expect = 8e-37, Method: Compositional matrix adjust. Identities = 94/274 (34%), Positives = 151/274 (55%), Gaps = 24/274 (8%) Query: 19 DHFHK-FHAHQGLELLFIHEGQGIVEVEGRTYELQGGSLFCFQPYQLHKVEIPAPRDARD 77 D+F + FHAH +EL ++HEG+G++ ++G++Y ++ +L F P+Q+H+++I Sbjct: 18 DYFREVFHAHSQMELTYVHEGRGLLIIDGKSYSIEPNTLLVFPPFQMHRIQIQVTEAEP- 76 Query: 78 VRYVRTNLTFEPRYLEPFLAPYPKLEAFL-RFLSRGTLSSPRFAVDDSRLMGAVESHVQA 136 ++R+ L FEP L +L +P L++F R + + P A+ ++ A+ Sbjct: 77 --FIRSVLLFEPAVLHGYLNDFPSLKSFFQRLMLQQANVHPVNAMPENEPFVALLRQFSI 134 Query: 137 VLEPGEGQEEARI-----LFLISLLRYLQLAVISGEELPPEGWSV---KTTAHIESVMDW 188 + G+ EA +FL+SL+ L+ + P+G S K H+E ++ W Sbjct: 135 TMG---GKREADFEENMGVFLLSLVHQLKQS--------PDGESAYLKKHNLHVEEIIGW 183 Query: 189 IEDHFRQPFSLELLAGELHLSSYYVSHLFKQYTGVSLTDYVTARRIREACVLLGSSGQSV 248 IE H+ PF LE LAGELHLS Y+V+HLFK+ TG ++ Y A RIR AC LL + + Sbjct: 184 IEKHYMDPFRLEDLAGELHLSPYHVAHLFKESTGTTIVAYTQATRIRHACSLLRKTTLPL 243 Query: 249 QRIAREVGGLSAPYFCKLFKKHKGMTPLDYRSAL 282 I VG + YF K+F++ G+ PL YR L Sbjct: 244 SEIGYRVGIANPSYFSKIFRQIMGVAPLTYRQHL 277 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 0.139 0.419 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: 1,742,836,788 Number of extensions: 70956834 Number of successful extensions: 174418 Number of sequences better than 1.0e-05: 3727 Number of HSP's gapped: 174052 Number of HSP's successfully gapped: 3728 Length of query: 287 Length of database: 3,060,696,203 Length adjustment: 134 Effective length of query: 153 Effective length of database: 1,798,280,193 Effective search space: 275136869529 Effective search space used: 275136869529 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 (21.9 bits) S2: 130 (54.7 bits)