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= 0566.0016.p (261 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value C0ZKF9.1 C0ZKF9_BREBN Probable transcriptional regulator 315 2e-84 B3KCN6.1 B3KCN6_9BACI Helix-turn-helix-domain containing protein... 306 9e-82 Q9KEK1.1 Q9KEK1_BACHD Transcriptional regulator (AraC/XylS family) 265 3e-69 A6TPF7.1 A6TPF7_ALKMQ Helix-turn-helix-domain containing protein... 242 3e-62 Q5WCA2.1 Q5WCA2_BACSK AraC/XylS family transcriptional regulator 236 2e-60 >C0ZKF9.1 C0ZKF9_BREBN Probable transcriptional regulator Length = 258 Score = 315 bits (807), Expect = 2e-84, Method: Compositional matrix adjust. Identities = 152/256 (59%), Positives = 189/256 (73%) Query: 3 ERFAEIDGVIAYIHQHMYDHLPLERLARYAGYSPYHFARIFKERTGLSPLYYVSSHRLQR 62 +R+ EID VIAYIH+H+ + LPL RLA + YS YHFARIFKER GL PLYYVS+ RLQR Sbjct: 2 DRYTEIDEVIAYIHRHLDEPLPLSRLANHVAYSQYHFARIFKERIGLPPLYYVSTMRLQR 61 Query: 63 AKDLLLRTGLTVRDISLEIGQQSLGTFTSRFAARVGMSPAEFRNSVQYAGDQMSSLRKLQ 122 AKDLLLRT ++VRDI LEIGQQSLGTF++RF RVG+SP+EFR + Q A D++ SL++L Sbjct: 62 AKDLLLRTNMSVRDIGLEIGQQSLGTFSTRFTERVGVSPSEFRETAQLAEDRLRSLQQLT 121 Query: 123 DWRSSYPISRLPSSVHGTISAEVPFDGVILIGLFAKPIPEGLPLYGTLLSSLGHFHFDHV 182 +W +P P ++ G I + PF GVILIGLFAKPIPEGLPLYGTLL SLG F F +V Sbjct: 122 EWSRLHPAPERPMTIAGIIESTEPFQGVILIGLFAKPIPEGLPLYGTLLPSLGDFCFTNV 181 Query: 183 APGTYYLLATSISWGTRTLDFMLPHSTLRTRSRAPIHVGPGSLVPHQQVTXXXXXXXXXX 242 PGTYYL+ATS++WG + +DF+LP+ TLRTRS+ PI V P ++VPHQQVT Sbjct: 182 KPGTYYLMATSVAWGMQAMDFLLPYETLRTRSKKPIIVTPTTIVPHQQVTLHVPHPDDPP 241 Query: 243 XXXXXXXXMNRFLNRI 258 MNRF+ ++ Sbjct: 242 ILISLSLLMNRFIQQL 257 >B3KCN6.1 B3KCN6_9BACI Helix-turn-helix-domain containing protein AraC type Length = 280 Score = 306 bits (785), Expect = 9e-82, Method: Compositional matrix adjust. Identities = 152/260 (58%), Positives = 188/260 (72%), Gaps = 1/260 (0%) Query: 1 VTERFAEIDGVIAYIHQHMYDHLPLERLARYAGYSPYHFARIFKERTGLSPLYYVSSHRL 60 +T+R+AEID VIAYIH+++Y+ LPL LA Y GYSPYHF+RIFK+R GL PLYYVSS RL Sbjct: 17 MTDRYAEIDEVIAYIHKNIYEPLPLSTLADYIGYSPYHFSRIFKDRIGLPPLYYVSSLRL 76 Query: 61 QRAKDLLLRTGLTVRDISLEIGQQSLGTFTSRFAARVGMSPAEFRNSVQYAGDQMSSLRK 120 ++AKDLLL T L++RDI++EIGQQSLGTFT+RF RVG++P++FRNS + A + + +L+K Sbjct: 77 EKAKDLLLHTHLSIRDIAMEIGQQSLGTFTTRFTERVGVTPSQFRNSKEEADEHLLALQK 136 Query: 121 LQDWRSSYPISRLPSSVHGTISAEVPFDGVILIGLFAKPIPEGLPLYGTLLSSLGHFHFD 180 L WR S P+ +V GTI A PF GVILIGLFAKPIPEG PLYGTLLSS+G F F Sbjct: 137 LNSWRESMPVDNPDLTVEGTIEAAAPFQGVILIGLFAKPIPEGFPLYGTLLSSVGSFRFT 196 Query: 181 HVAPGTYYLLATSISWGTRTLDFMLPHS-TLRTRSRAPIHVGPGSLVPHQQVTXXXXXXX 239 V PGTYYL+ATS+ WG + +DF+LP S TLRTRS+ P+ V P PH VT Sbjct: 197 DVRPGTYYLMATSVPWGMQAVDFLLPQSTTLRTRSKEPVIVKPYVRTPHLHVTLHVPRLD 256 Query: 240 XXXXXXXXXXXMNRFLNRIA 259 MN FL R+A Sbjct: 257 DPPILISLPILMNHFLKRVA 276 >Q9KEK1.1 Q9KEK1_BACHD Transcriptional regulator (AraC/XylS family) Length = 261 Score = 265 bits (678), Expect = 3e-69, Method: Compositional matrix adjust. Identities = 131/216 (60%), Positives = 158/216 (73%) Query: 5 FAEIDGVIAYIHQHMYDHLPLERLARYAGYSPYHFARIFKERTGLSPLYYVSSHRLQRAK 64 + E+D I+YIH H+Y+ L L +A Y GYS YHF+R+FKE+TGLSPLYYVSS RLQ+AK Sbjct: 5 YNEMDVAISYIHNHLYEPLSLSHIASYVGYSSYHFSRLFKEKTGLSPLYYVSSLRLQKAK 64 Query: 65 DLLLRTGLTVRDISLEIGQQSLGTFTSRFAARVGMSPAEFRNSVQYAGDQMSSLRKLQDW 124 +LLL T LTVRDI LEIGQQSLGTFT+RF VGMSP+ FR S+ + SL+ L DW Sbjct: 65 ELLLNTNLTVRDIGLEIGQQSLGTFTTRFTKCVGMSPSHFRESMNQVNHSLHSLQMLSDW 124 Query: 125 RSSYPISRLPSSVHGTISAEVPFDGVILIGLFAKPIPEGLPLYGTLLSSLGHFHFDHVAP 184 R+S S+V GTI +E P +G ILIGLF+KPIPEGLPLYG LLSS G F F V P Sbjct: 125 RTSLQSIHPFSTVTGTIDSEAPLEGFILIGLFSKPIPEGLPLYGNLLSSTGAFSFTGVTP 184 Query: 185 GTYYLLATSISWGTRTLDFMLPHSTLRTRSRAPIHV 220 G YYL+ATSISW + D +LP++TLR R + PI V Sbjct: 185 GIYYLMATSISWSMQAKDILLPYTTLRGRIKEPIIV 220 >A6TPF7.1 A6TPF7_ALKMQ Helix-turn-helix-domain containing protein, AraC type Length = 265 Score = 242 bits (617), Expect = 3e-62, Method: Compositional matrix adjust. Identities = 121/257 (47%), Positives = 159/257 (61%) Query: 2 TERFAEIDGVIAYIHQHMYDHLPLERLARYAGYSPYHFARIFKERTGLSPLYYVSSHRLQ 61 TE+ E++ + YI +++D L L+ +A GYSPYHF RIFK G+ YY+SS RLQ Sbjct: 3 TEKVPEVEASLQYIQDNIFDSLSLDEIAHKVGYSPYHFTRIFKAHMGIPLFYYISSLRLQ 62 Query: 62 RAKDLLLRTGLTVRDISLEIGQQSLGTFTSRFAARVGMSPAEFRNSVQYAGDQMSSLRKL 121 +AKDLLL T LT+RDI+LE+GQQSLGTFT+RF +VG+SPA FR + AG + +L+ L Sbjct: 63 KAKDLLLHTDLTIRDIALEVGQQSLGTFTTRFTQKVGVSPAVFRRTATDAGKALQTLKLL 122 Query: 122 QDWRSSYPISRLPSSVHGTISAEVPFDGVILIGLFAKPIPEGLPLYGTLLSSLGHFHFDH 181 D S S+ G I E+P+ GV+LIGLF KPIPEG+PLYGTL+S F Sbjct: 123 DDRHLDNTSSGGQCSIFGNIETEIPYQGVVLIGLFPKPIPEGVPLYGTLVSLPSGFCLSG 182 Query: 182 VAPGTYYLLATSISWGTRTLDFMLPHSTLRTRSRAPIHVGPGSLVPHQQVTXXXXXXXXX 241 V PGTYYL+ATS+SW + +L TLRTR P+ + PG+++PH V Sbjct: 183 VRPGTYYLMATSVSWEMQAESILLTQKTLRTRFHKPLMISPGTVIPHLNVKLHQPQLDDP 242 Query: 242 XXXXXXXXXMNRFLNRI 258 M RFL +I Sbjct: 243 PILVSLPLLMKRFLGQI 259 >Q5WCA2.1 Q5WCA2_BACSK AraC/XylS family transcriptional regulator Length = 261 Score = 236 bits (601), Expect = 2e-60, Method: Compositional matrix adjust. Identities = 117/220 (53%), Positives = 155/220 (70%) Query: 7 EIDGVIAYIHQHMYDHLPLERLARYAGYSPYHFARIFKERTGLSPLYYVSSHRLQRAKDL 66 EI +++I +++++ L L +A++ GYSPYHF R FK G+SPLYYVS+ RL +AK L Sbjct: 7 EIIEAVSFIQRNLHESLRLNVIAKHVGYSPYHFVRKFKNEIGISPLYYVSALRLDKAKRL 66 Query: 67 LLRTGLTVRDISLEIGQQSLGTFTSRFAARVGMSPAEFRNSVQYAGDQMSSLRKLQDWRS 126 L+ T L VRDI LEIGQQSLGTFT+RF RVG+SP FR S+ A + +L++LQ W + Sbjct: 67 LVHTNLGVRDIGLEIGQQSLGTFTTRFTERVGVSPGRFRESLASAEGHLQALQRLQKWHA 126 Query: 127 SYPISRLPSSVHGTISAEVPFDGVILIGLFAKPIPEGLPLYGTLLSSLGHFHFDHVAPGT 186 + + +SV GT++A PF GV+L+GLF+KPIPEGLP YGTLLS F F +VAPGT Sbjct: 127 TRAAAPPINSVSGTVTAGSPFSGVVLVGLFSKPIPEGLPRYGTLLSGSDDFCFVNVAPGT 186 Query: 187 YYLLATSISWGTRTLDFMLPHSTLRTRSRAPIHVGPGSLV 226 YYLLAT++SWG DF+LP TLR R + I + P + V Sbjct: 187 YYLLATAVSWGMEGKDFLLPQQTLRGRLKTAIVMRPFAAV 226 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 0.324 0.139 0.418 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: 1,408,498,852 Number of extensions: 55328788 Number of successful extensions: 207048 Number of sequences better than 1.0e-05: 3131 Number of HSP's gapped: 207268 Number of HSP's successfully gapped: 3131 Length of query: 261 Length of database: 3,060,696,203 Length adjustment: 133 Effective length of query: 128 Effective length of database: 1,807,701,208 Effective search space: 231385754624 Effective search space used: 231385754624 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.5 bits) S2: 130 (54.7 bits)