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= 0042.0001.p (319 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B3KJR5.1 B3KJR5_9BACI Helix-turn-helix type 11 domain protein 335 5e-90 C0ZIU8.1 C0ZIU8_BREBN Putative uncharacterized protein 306 1e-81 B3KC50.1 B3KC50_9BACI Helix-turn-helix type 11 domain protein 306 1e-81 B2V0Q5.1 B2V0Q5_CLOBA Transcriptional regulator, DeoR family 293 1e-77 C3IAS7.1 C3IAS7_BACTU Transcriptional regulator, DeoR 287 8e-76 >B3KJR5.1 B3KJR5_9BACI Helix-turn-helix type 11 domain protein Length = 330 Score = 335 bits (858), Expect = 5e-90, Method: Compositional matrix adjust. Identities = 171/318 (53%), Positives = 212/318 (66%), Gaps = 2/318 (0%) Query: 1 MSKADYMLSILWILQQHKR-TAAELAGELELSVRSVYRYIDALCASGVPVIADAGPGGGY 59 MSKAD MLSILW+L+ K+ TA ++A ELE+ VR+VYR ID+LCASG P+IAD+GP GG+ Sbjct: 1 MSKADNMLSILWMLRSGKKMTAQQIADELEIHVRTVYRCIDSLCASGAPIIADSGPNGGF 60 Query: 60 SLPEHFSAAPLFFDAGERRALVQASAFARGSGYPYEQALDGAIAKLKRYSNAEQLSQMER 119 + F+ +PL FDA E++ALV AS FA+ +GYP+ AL+ AI KLK Y+N EQL Q+ER Sbjct: 61 RILGPFAESPLMFDAEEQKALVHASIFAKETGYPFTDALERAIGKLKLYTNEEQLHQIER 120 Query: 120 HESGLETLHSXXXX-XXXXXXXXXXCTADSLTLEMEYRKGNGGFPSSRCIDPYGLVLWKG 178 H SG+ L A TL+M Y KG G + R DPYG++ WKG Sbjct: 121 HSSGIAVLQPPVHDGLRPLLQTLENAAAQGQTLKMTYSKGREGAGTVRDFDPYGIIHWKG 180 Query: 179 QWYLTGFCHQRQEVRSFRVDRIAGLRRTGAGFIRPASFSAREFLLQSLLPGQNNPAKLTA 238 QWY G+C RQE+R+FRVDRI GL T F RP FSA++ LL SLLP + L Sbjct: 181 QWYAAGYCRLRQEIRNFRVDRILGLETTDLVFERPVDFSAKDVLLGSLLPDPRSTEPLVD 240 Query: 239 VVISAAEDVLNDLCSHWLFGHTLEQRSENTARFLLDEATLYSYTPYFLLPYGKALTIREP 298 VVI A E VLN+L HWLFGHTL R + ARF LD ++L SY PYFLLPYGKALTI EP Sbjct: 241 VVIQAHEHVLNELSQHWLFGHTLVSRHDGEARFGLDTSSLTSYVPYFLLPYGKALTILEP 300 Query: 299 AALKKKLAEVTAELTAYY 316 A+L KL+E+T L +Y Sbjct: 301 ASLVLKLSEITTSLALHY 318 >C0ZIU8.1 C0ZIU8_BREBN Putative uncharacterized protein Length = 321 Score = 306 bits (785), Expect = 1e-81, Method: Compositional matrix adjust. Identities = 150/321 (46%), Positives = 203/321 (63%), Gaps = 2/321 (0%) Query: 1 MSKADYMLSILWILQQHKR-TAAELAGELELSVRSVYRYIDALCASGVPVIADAGPGGGY 59 MSKAD MLSILW+L+ KR TA +LA LE+++R+VYRYID+LCASGVP+I+DAG GGY Sbjct: 1 MSKADNMLSILWLLKTGKRMTAKQLAEILEINIRTVYRYIDSLCASGVPIISDAGHNGGY 60 Query: 60 SLPEHFSAAPLFFDAGERRALVQASAFARGSGYPYEQALDGAIAKLKRYSNAEQLSQMER 119 SL + F+ APLFFD E++AL+ A+AFA+ +GYP+ L AI+KLKRY+N EQ ++R Sbjct: 61 SLLQQFNEAPLFFDLNEQKALIHAAAFAQEAGYPFGADLHRAISKLKRYTNEEQRDAIDR 120 Query: 120 HESGLETLHSXXXXXXXXXXXXXXCT-ADSLTLEMEYRKGNGGFPSSRCIDPYGLVLWKG 178 H G E + + A+ TL +EY+K R IDPYGLV WKG Sbjct: 121 HSIGFEVIQPPVDPSLESTLQELELSVANGYTLSIEYQKAYQTTRQMRHIDPYGLVYWKG 180 Query: 179 QWYLTGFCHQRQEVRSFRVDRIAGLRRTGAGFIRPASFSAREFLLQSLLPGQNNPAKLTA 238 WY+ +CH R +RSFR DR+ ++RT F RP FSAR F L +LLP + Sbjct: 181 NWYIVAYCHLRSTIRSFRADRVHEIQRTEGSFQRPPEFSARHFFLSNLLPEADKQGNTIL 240 Query: 239 VVISAAEDVLNDLCSHWLFGHTLEQRSENTARFLLDEATLYSYTPYFLLPYGKALTIREP 298 + I L DLC HW GHT+ +RSE F +DE +S P++LLPYGK++ + EP Sbjct: 241 IKIKGRPQSLADLCRHWYLGHTVMERSEAQVIFQVDEQMAHSILPHYLLPYGKSIQVEEP 300 Query: 299 AALKKKLAEVTAELTAYYNES 319 A +K++LA + A+L +Y + Sbjct: 301 AYVKERLAAIAADLFLFYQST 321 >B3KC50.1 B3KC50_9BACI Helix-turn-helix type 11 domain protein Length = 322 Score = 306 bits (785), Expect = 1e-81, Method: Compositional matrix adjust. Identities = 155/322 (48%), Positives = 207/322 (64%), Gaps = 6/322 (1%) Query: 1 MSKADYMLSILWILQQHKRTAA-ELAGELELSVRSVYRYIDALCASGVPVIADAGPGGGY 59 MSKAD ML+ILW+L+ KR +A +L+ EL + +R++YR IDALC SGVPVI++ G GGY Sbjct: 1 MSKADNMLAILWLLKSRKRISAKQLSEELGVHIRTIYRNIDALCISGVPVISEMGRDGGY 60 Query: 60 SLPEHFSAAPLFFDAGERRALVQASAFARGSGYPYEQALDGAIAKLKRYSNAEQLSQMER 119 S+P+H PLFFDA E++AL+ A+AFAR +GYP E+ L+ AI+K+KRY+N EQL ++E+ Sbjct: 61 SIPDHIKLEPLFFDADEQKALLHAAAFAREAGYPSEEPLNRAISKIKRYTNPEQLKRLEQ 120 Query: 120 HESGLETLHSXXXXXXXXXXXXXXCTADSLT-LEMEYRKGNGGFPSSRCIDPYGLVLWKG 178 E+ +E +H D T LE++Y G G +R +DPYGLV WK Sbjct: 121 QENSIEAIHPPAASGLTSILHEIEAGIDRQTSLEIDYTTGYDGVKQTRTLDPYGLVHWKS 180 Query: 179 QWYLTGFCHQRQEVRSFRVDRIAGLRRTGAGFIRPASFSAREFLLQSLLPGQ---NNPAK 235 +WY G+CH R E+RSFRVDR+ +R T F RPA+FS REFLL SLL Q +NP Sbjct: 181 KWYAVGYCHLRGEIRSFRVDRMGQIRPTDVVFDRPATFSPREFLLDSLLTEQGSESNP-H 239 Query: 236 LTAVVISAAEDVLNDLCSHWLFGHTLEQRSENTARFLLDEATLYSYTPYFLLPYGKALTI 295 L +V I L+DLC HWL GH L +R+ A F LDE+TLY+ Y+LL +G + I Sbjct: 240 LVSVHIQGIPQALDDLCGHWLLGHALVERTAEEAVFRLDESTLYTQVAYYLLSFGGKIRI 299 Query: 296 REPAALKKKLAEVTAELTAYYN 317 P LK LA++ L YY Sbjct: 300 VGPEELKSGLADIAESLFKYYQ 321 >B2V0Q5.1 B2V0Q5_CLOBA Transcriptional regulator, DeoR family Length = 320 Score = 293 bits (750), Expect = 1e-77, Method: Compositional matrix adjust. Identities = 137/318 (43%), Positives = 197/318 (61%), Gaps = 2/318 (0%) Query: 1 MSKADYMLSILWILQQ-HKRTAAELAGELELSVRSVYRYIDALCASGVPVIADAGPGGGY 59 M K D ML+ILW+L K TA +++ LE+++RSVYRY+DALC SGVP+I+++G GGY Sbjct: 1 MPKNDNMLAILWMLNSGTKITAKQISERLEINIRSVYRYMDALCVSGVPIISESGHNGGY 60 Query: 60 SLPEHFSAAPLFFDAGERRALVQASAFARGSGYPYEQALDGAIAKLKRYSNAEQLSQMER 119 SL +F PLFFD E+++L+ A+ FA +GYP+ +AL+ A +KLK +SN EQ + R Sbjct: 61 SLLNNFIRTPLFFDLEEKKSLLHAAIFAMEAGYPFMEALNSATSKLKMFSNQEQEKVLNR 120 Query: 120 HESGLETLHSX-XXXXXXXXXXXXXCTADSLTLEMEYRKGNGGFPSSRCIDPYGLVLWKG 178 H G E + A+ ++E+EY G G P R +DPYG++ W Sbjct: 121 HLVGFEVVSRICDRAVKLILREIEQAVANECSIEIEYCTGYEGHPKHRVVDPYGMLYWNN 180 Query: 179 QWYLTGFCHQRQEVRSFRVDRIAGLRRTGAGFIRPASFSAREFLLQSLLPGQNNPAKLTA 238 +WY FCH R E+RSFRVDRI + T F RP +FSAREF ++LL + L Sbjct: 181 KWYAIAFCHLRNEIRSFRVDRIVNIISTKNSFKRPEAFSAREFFTKNLLSNVESKVGLCT 240 Query: 239 VVISAAEDVLNDLCSHWLFGHTLEQRSENTARFLLDEATLYSYTPYFLLPYGKALTIREP 298 +VI + LNDLC+HW G+ L +R+E A FL+DE ++++Y P+ LL YGK++ + EP Sbjct: 241 LVIEGKSEALNDLCAHWFLGYHLIERTECRANFLMDEDSIHTYVPHILLQYGKSIKVLEP 300 Query: 299 AALKKKLAEVTAELTAYY 316 + K +A + EL A+Y Sbjct: 301 NSFKDAMAAILRELMAHY 318 >C3IAS7.1 C3IAS7_BACTU Transcriptional regulator, DeoR Length = 320 Score = 287 bits (735), Expect = 8e-76, Method: Compositional matrix adjust. Identities = 133/318 (41%), Positives = 203/318 (63%), Gaps = 2/318 (0%) Query: 1 MSKADYMLSILWILQQ-HKRTAAELAGELELSVRSVYRYIDALCASGVPVIADAGPGGGY 59 M K D ML+ILW+L+ K TA +++ +LE+++R+VYRYID L SGVP+I++ G GGY Sbjct: 1 MPKLDNMLAILWMLRSGEKITAKQISEKLEMNIRTVYRYIDTLSTSGVPIISEPGHNGGY 60 Query: 60 SLPEHFSAAPLFFDAGERRALVQASAFARGSGYPYEQALDGAIAKLKRYSNAEQLSQMER 119 +L +F APLFFD E+ +L A+ FA +GY +AL+ AI+KL +YSN EQ +++ + Sbjct: 61 TLLNNFIEAPLFFDFEEQTSLFHAAVFAEEAGYYGGEALNRAISKLSKYSNQEQETKINQ 120 Query: 120 HESGLETLHSXXXXXXX-XXXXXXXCTADSLTLEMEYRKGNGGFPSSRCIDPYGLVLWKG 178 H + LE + AD ++++ Y K + R +DPY ++ W Sbjct: 121 HLTSLEVISRLSSLSMEPFLNELEQAVADGYSVKILYHKSGEKQLNYRLVDPYRIIYWNN 180 Query: 179 QWYLTGFCHQRQEVRSFRVDRIAGLRRTGAGFIRPASFSAREFLLQSLLPGQNNPAKLTA 238 +WY+ GFCH R ++RSFRVDRI L T F RP +FSAR+F +++LLP + +T+ Sbjct: 181 KWYVIGFCHLRNDIRSFRVDRIGSLMLTENKFNRPENFSARDFFMKNLLPTIEDKEGITS 240 Query: 239 VVISAAEDVLNDLCSHWLFGHTLEQRSENTARFLLDEATLYSYTPYFLLPYGKALTIREP 298 +V++ E LND+C HW GH L++R+ N A FLL++ +++Y PY LLPY K++ + EP Sbjct: 241 LVVNGNESTLNDVCQHWFLGHYLQERTSNQAVFLLEKDIIHTYVPYLLLPYNKSIKVIEP 300 Query: 299 AALKKKLAEVTAELTAYY 316 +LKK+L EV +EL ++ Sbjct: 301 ISLKKRLIEVLSELIKFH 318 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 0.320 0.134 0.400 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: 1,850,147,699 Number of extensions: 74018271 Number of successful extensions: 152144 Number of sequences better than 1.0e-05: 668 Number of HSP's gapped: 151778 Number of HSP's successfully gapped: 675 Length of query: 319 Length of database: 3,060,696,203 Length adjustment: 135 Effective length of query: 184 Effective length of database: 1,788,859,178 Effective search space: 329150088752 Effective search space used: 329150088752 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 (21.8 bits) S2: 131 (55.1 bits)