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= 0346.0023.p (314 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B3K6G1.1 B3K6G1_9BACI Helix-turn-helix-domain containing protein... 231 5e-59 B1DK34.1 B1DK34_9BACL Transcriptional regulator, AraC family 174 9e-42 B3KHW9.1 B3KHW9_9BACI Helix-turn-helix-domain containing protein... 163 2e-38 B1DGS4.1 B1DGS4_9BACL Transcriptional regulator, AraC family 143 2e-32 B1DGG7.1 B1DGG7_9BACL Transcriptional regulator, AraC family 102 6e-20 >B3K6G1.1 B3K6G1_9BACI Helix-turn-helix-domain containing protein AraC type Length = 290 Score = 231 bits (590), Expect = 5e-59, Method: Compositional matrix adjust. Identities = 119/284 (41%), Positives = 181/284 (63%), Gaps = 4/284 (1%) Query: 7 TLKGESFFENNLLLYVNRATETYQLPLHSHDFIELAFVAEGKGFHYIEQEVQHAFKGQLY 66 T G+ FF ++ L+YVNR E + H+HDF+E+A++AEG+GFH++E VQ KG ++ Sbjct: 7 TYYGDYFFRDDTLMYVNRNAENFTGSYHNHDFLEIAYIAEGEGFHHMENSVQRVRKGHMF 66 Query: 67 FIPVGVSHVFRPSSPASLKEPLVVYNCLFTPGLLEGLTPVIPDPAIAGYVAQIQNHQVSP 126 +IP+G+ HVFRP+S S +PL+V NC+F+ LL L D A + Q+++ + Sbjct: 67 YIPLGMPHVFRPTS--SNGKPLIVNNCIFSVKLLPKLIAFASDSRTASLLKQMEDGTLGY 124 Query: 127 FTVTDLHGSIESLFLSLHREYNLPQTGSGTYLLSLFIQLVVTLYR-FKHDELQFPVNKQT 185 +TD H E LF+SL+ +Y + +GS YL +L +QL++ R +H + Sbjct: 125 RAITDRHDRFEKLFVSLYEQYAMQISGSAVYLHTLLLQLIIEFSRAIEHSQPITSEPSHP 184 Query: 186 RFLHVLRYIQQEYARDITLSHLARAFDWSERHLQRLFQAHTGQTFHHFLQNVRIQKSCGL 245 F VL+Y++ +Y ++TL+ LA+ +SERHLQRLF+ +TGQ++HH+LQ VRI+ S L Sbjct: 185 SFHDVLQYVEGQYMHELTLTRLAQISGFSERHLQRLFRRYTGQSWHHYLQTVRIRMSREL 244 Query: 246 LARQPNTPIALIAEQVGYRDTKTFSLVFKRIIGKTPGGYRQEAE 289 L R I++IAE+VGY+D +F+ VFKR G TPG YR E + Sbjct: 245 L-RTTTDKISMIAEKVGYKDMHSFNSVFKRSTGLTPGQYRSETQ 287 >B1DK34.1 B1DK34_9BACL Transcriptional regulator, AraC family Length = 291 Score = 174 bits (441), Expect = 9e-42, Method: Compositional matrix adjust. Identities = 103/293 (35%), Positives = 156/293 (53%), Gaps = 16/293 (5%) Query: 1 VNSANHTLKGESFFENNLLLYVNRATETYQLPLHSHDFIELAFVAEGKGFHYIEQEVQHA 60 + + + + SFFE + LYVNRA E++ + HSH+F+E+ +V+EG G HYI E Sbjct: 3 IKRSTYVMSASSFFEPGVPLYVNRAYESFDMGEHSHEFVEITYVSEGAGIHYIAGEAVPV 62 Query: 61 FKGQLYFIPVGVSHVFRPSSPASLKEPLVVYNCLFTPGLLEGLTPVIPDPAIAGYVAQI- 119 G L+FIPVG SHVFRP +P PL+VYNCL L L P Y +I Sbjct: 63 EHGTLFFIPVGQSHVFRPKTPKK-DRPLIVYNCLLPASYLSELRDGFP------YATEIL 115 Query: 120 ---QNHQVSPFTVTDLHGSIESLFLSLHREYNLPQTGSGTYLLSLFIQLVVTLYRFKHDE 176 + +S F+V D G ++F L++E+ L SL ++++ LYR K + Sbjct: 116 DCFADEGLSWFSVKDSTGEYHAMFRELYQEFAAKPPAYMAVLASLVMRILTGLYRHKL-Q 174 Query: 177 LQFPVNKQTRFLHV---LRYIQQEYARDITLSHLARAFDWSERHLQRLFQAHTGQTFHHF 233 + P + ++L V + +I + YA ++ L LA SER RLF+ HTG + + Sbjct: 175 IIAPAGDRPQWLSVDEAIAFIDRNYASELKLGELAAQAKLSERQFSRLFRRHTGMSLIEY 234 Query: 234 LQNVRIQKSCGLLARQPNTPIALIAEQVGYRDTKTFSLVFKRIIGKTPGGYRQ 286 +Q++R+ +C LL + ++ + IA VGY D K F +FK+ G TP YR Sbjct: 235 VQSIRMDAACRLLTTR-HSSVEDIAGAVGYADMKFFYRLFKKKTGVTPRQYRD 286 >B3KHW9.1 B3KHW9_9BACI Helix-turn-helix-domain containing protein AraC type Length = 293 Score = 163 bits (412), Expect = 2e-38, Method: Compositional matrix adjust. Identities = 97/281 (34%), Positives = 146/281 (51%), Gaps = 9/281 (3%) Query: 8 LKGESFFENNLLLYVNRATETYQLPLHSHDFIELAFVAEGKGFHYIEQEVQHAFKGQLYF 67 L G+ FF + +++NR E + L H+HDFIE+++V EG G+HY+E ++ +G L+ Sbjct: 8 LSGDIFFNPDFDIFINREVEGFCLSQHTHDFIEISYVEEGSGYHYVEDQLIPIKRGDLFV 67 Query: 68 IPVGVSHVFRPSSPASLKEPLVVYNCLFTPGLLEGLTPVIPDPAIAGYVAQIQNHQVSPF 127 IP+G SHVFRPSS + LV+YNC+F LLE L VI + + + Sbjct: 68 IPIGTSHVFRPSSQDN---QLVIYNCIFRTCLLEQLKSVICESTKLHSLLYGSSPSAKWL 124 Query: 128 TVTDLHGSIESLFLSLHREYNLPQTGSGTYLLSLFIQLVVTLYRFKHD--ELQFPVNKQT 185 D S+ + REY ++ IQ++ L R++ D + P N Sbjct: 125 QYQDKFDKFLSIMHGMFREYLKKGPRYEFLMMGQLIQVLAMLQRYECDGSMVSTPTNNMD 184 Query: 186 RFLHVLRYIQQEYARDITLSHLARAFDWSERHLQRLFQAHTGQTFHHFLQNVRIQKSCGL 245 ++YI +A ++T+ +A S H QRLF+ TG TF FLQN+R+Q+ C L Sbjct: 185 ---DAIQYINDHFATNLTVQQVAERSFMSPSHFQRLFKKTTGVTFMQFLQNIRVQRCCEL 241 Query: 246 LARQPNTPIALIAEQVGYRDTKTFSLVFKRIIGKTPGGYRQ 286 L + I A QVGY+D K F +F++ G TP YR+ Sbjct: 242 L-KSTEISIQEAANQVGYQDMKFFHSLFRKKTGVTPREYRR 281 >B1DGS4.1 B1DGS4_9BACL Transcriptional regulator, AraC family Length = 305 Score = 143 bits (360), Expect = 2e-32, Method: Compositional matrix adjust. Identities = 89/289 (30%), Positives = 144/289 (49%), Gaps = 10/289 (3%) Query: 11 ESFFENNLLLYVNRATETYQLPLHSHDFIELAFVAEGKGFHYIEQEVQHAFKGQLYFIPV 70 E F N +++NR E + L H H ++E+ +V G+G+HY+ EV KG LY IP+ Sbjct: 20 EEHFHNQFPVFINRWEEGFDLREHDHAYLEIVYVMSGEGYHYVADEVNKTSKGSLYIIPI 79 Query: 71 GVSHVFRPSSPASLKEPLVVYNCLFTPGLLEGLTPVIPDPAIAGYVAQIQNHQVSPFT-V 129 G SH+FRP+ A+ L+VYN P + L + V + + + + Sbjct: 80 GTSHIFRPNGTANR---LLVYNLCIRPDWIGELGVWLSQYCRDTDVLHVLDGNPGTYLFL 136 Query: 130 TDLHGSIESLFLSLHREYNLPQTGSGTYLLSLFIQLVVTLYR--FKHDELQFPVNKQTR- 186 D + F LHRE+ G T +L+ +QL+ + R D TR Sbjct: 137 RDTPLELAPSFEQLHREFTEESWGFETTVLAGLLQLLTRISRKLKTQDSTGDQTTGSTRH 196 Query: 187 --FLHVLRYIQQEYARDITLSHLARAFDWSERHLQRLFQAHTGQTFHHFLQNVRIQKSCG 244 F+ ++ +I + A + + LA S+RH RLF+ TG F ++QN R++ +C Sbjct: 197 SEFVSIVEHINRHIAEPLKMEQLADQAGISQRHFIRLFRQQTGMGFSEYVQNKRVELACQ 256 Query: 245 LLARQPNTPIALIAEQVGYRDTKTFSLVFKRIIGKTPGGYRQEAESATA 293 LL + +A IA++VGY+D F VF++++G TP YR EA + ++ Sbjct: 257 LLTGTSQS-VADIAKKVGYQDPAHFREVFRKVMGITPSQYRPEASNKSS 304 >B1DGG7.1 B1DGG7_9BACL Transcriptional regulator, AraC family Length = 305 Score = 102 bits (253), Expect = 6e-20, Method: Compositional matrix adjust. Identities = 78/280 (27%), Positives = 127/280 (45%), Gaps = 24/280 (8%) Query: 31 LPLHSHDFIELAFVAEGKGFHYIEQEVQHAFKGQLYFIPVGVSHVFRPSSPASLKEPLVV 90 +PLH H+F+EL F+ +G G H E G ++ I G+ H + E + V Sbjct: 31 IPLHRHEFVELVFIKQGSGLHEYEGNTFPITAGDVFIIEPGMDHAY----TVEQSEGMEV 86 Query: 91 YNCLFTPGLLE-------GLTPVIP----DPAIAGYVAQIQNHQVSPFTVTDLHGSIESL 139 N LF P LLE G+T I +P + V+ +SP + D+ G +E L Sbjct: 87 VNVLFVPALLERELAVLSGVTSFIDFYYMEPFLRSDVSFQAKLTLSPRQMMDIRGILEQL 146 Query: 140 FLSLHREYNLPQTGSGTYLLSLFIQLVVTLYRF----KHDELQFPVNKQTRFLHVLRYIQ 195 +EY ++G + S I+L + L R ++ L N + +I+ Sbjct: 147 M----KEYGNKESGYQFLIKSKLIELFIILSRIYANNRNHSLPSIQNDGEMIARICEFIK 202 Query: 196 QEYARDITLSHLARAFDWSERHLQRLFQAHTGQTFHHFLQNVRIQKSCGLLARQPNTPIA 255 + A ++L +++ S+ LF+ TG +F F + RIQ + LLA + IA Sbjct: 203 RHQAHPLSLEQISQMAGMSQSKFTLLFRQMTGMSFVEFRNDQRIQLAKQLLAASSDK-IA 261 Query: 256 LIAEQVGYRDTKTFSLVFKRIIGKTPGGYRQEAESATAAA 295 IA GY D F+ VFK++ G+TP YR+ + + + Sbjct: 262 RIALDTGYEDLSHFNHVFKKLTGETPSLYRKRMKGRSESG 301 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 0.321 0.136 0.403 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: 1,908,788,877 Number of extensions: 80102901 Number of successful extensions: 196428 Number of sequences better than 1.0e-05: 2114 Number of HSP's gapped: 202253 Number of HSP's successfully gapped: 2114 Length of query: 314 Length of database: 3,060,696,203 Length adjustment: 135 Effective length of query: 179 Effective length of database: 1,788,859,178 Effective search space: 320205792862 Effective search space used: 320205792862 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)