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= 0033.0012.p (555 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B1D923.1 B1D923_9BACL Transcriptional regulator, AraC family 201 2e-49 C0Z8E4.1 C0Z8E4_BREBN Probable transcriptional regulator 196 5e-48 C0ZIV1.1 C0ZIV1_BREBN Probable transcriptional regulator 180 4e-43 B1DAD4.1 B1DAD4_9BACL Transcriptional regulator, AraC family 175 1e-41 B3KHJ8.1 B3KHJ8_9BACI Periplasmic binding protein 161 2e-37 >B1D923.1 B1D923_9BACL Transcriptional regulator, AraC family Length = 582 Score = 201 bits (510), Expect = 2e-49, Method: Compositional matrix adjust. Identities = 132/381 (34%), Positives = 198/381 (51%), Gaps = 30/381 (7%) Query: 180 SMERSITYLENHFSEKITREHLAAIAGVSRSHYSTLFKQLTGFTLNEYLSRLRVHRAKEL 239 +++++I Y+ + IT E LA +AG+ S+YS +FKQ + +L+R+R++RAKE Sbjct: 214 AIQKTIPYMHRAYDSDITLEMLADMAGMHPSYYSQMFKQELNMSPITFLTRIRMNRAKEE 273 Query: 240 LLNSSGTLREIALKVGYKDEFYLSRRFKQETGTSPSGYNRKPIRHVAVLLTPYASHLLLL 299 LL + + EIA +VGYKD FY SRRFK+ TG +P+ Y P + L Y HLL L Sbjct: 274 LLLTGRKMGEIASRVGYKDSFYFSRRFKEYTGCAPTMYKEWPKPSIISLSYAYTDHLLTL 333 Query: 300 GLEPAVTISESSEYLNLSGQEPPKPMKFINTNSSAAQMRSALLEANIELIIAARQHLDQL 359 G+ P + Y + + F ++ R LEA +L+I + Sbjct: 334 GITPVA----AQVYKEIPNTTRTLALPFHGSDVWQVS-RQTFLEAKPDLVIGKDNVTSKA 388 Query: 360 RLSPGELRAVAPIVEIPWMEMGWKDHLRLIGQAIQRSERAEQWLADFEKEEAEARAIVQQ 419 R G+L APIV IPW + +HLR IG+ + R+E A+ WLA E+ +AR V+ Sbjct: 389 RELIGDL---APIVTIPWGTLPVFEHLRKIGETVNRAEAADAWLAQHERRVLDARRHVKA 445 Query: 420 STGGKEIITILVIKPDGLLVYGSRNVGCVIYQSLGLRAPALIEAEMKKLGDQ--FHSFPI 477 + G +TI V+ G+ +YG+RN+G V Y+SL L P ++ +M++ F+ I Sbjct: 446 AIGNA-TVTICVVGDYGIRIYGNRNIGHVFYESLELSMPPRLKQDMEEHAGAKLFNWKAI 504 Query: 478 DISELAEYAGDRLLVVVFPDAKGSTAHTEAVFRSPHWKRLP---------AVQRKNVHWL 528 +L EY D LLVV+ V +W++L AV+R VH+L Sbjct: 505 SADQLMEYDSDYLLVVL----------RSGVMARENWRQLATHSGYLQHKAVRRNRVHFL 554 Query: 529 ERDEWVPYNPVSIRLQLGRAV 549 + D WV Y P+SI QL AV Sbjct: 555 DWDRWVVYAPMSIDNQLDEAV 575 >C0Z8E4.1 C0Z8E4_BREBN Probable transcriptional regulator Length = 548 Score = 196 bits (498), Expect = 5e-48, Method: Compositional matrix adjust. Identities = 128/375 (34%), Positives = 203/375 (54%), Gaps = 19/375 (5%) Query: 181 MERSITYLENHFSEKITREHLAAIAGVSRSHYSTLFKQLTGFTLNEYLSRLRVHRAKELL 240 ++++I+Y+ +++E IT + LA AG++ +Y+ +FK+ G + EYL+ R+ AK LL Sbjct: 172 VDQTISYMHTNYAEPITLDDLANRAGLTPRYYTEVFKKKVGKSPIEYLTSCRMEHAKTLL 231 Query: 241 LNSSGTLREIALKVGYKDEFYLSRRFKQETGTSPSGYNRKPIRHVAVLLTPYASHLLLLG 300 S+ LRE+A VGY DEFY SRRFKQ+ G SP+ + R + +A + YA +LL LG Sbjct: 232 RESNKRLREVARLVGYADEFYFSRRFKQQVGVSPTVFVRMNQKQMAPVTFHYAEYLLALG 291 Query: 301 LEPAVTISESSEYLNLSGQEPPKPMKFINTNSSAAQMRSALLEANIELIIAARQHLDQLR 360 + P E YL + MK A ++ S L N +I + Q L Sbjct: 292 IRPIGAPEEQVTYLREQLR-----MK------EADEIVS--LPENTPDLIKSLQPTFILT 338 Query: 361 LSPGELRA---VAPIVEIPWMEMGWKDHLRLIGQAIQRSERAEQWLADFEKEEAEARAIV 417 S G+ A VAP + +PW++ HL ++ + ++A WL E++ +A+ + Sbjct: 339 ESTGDSAAFSKVAPTLALPWLDHDVFGHLNILADVLGLKDQAHLWLKQHEQKVLKAKRCI 398 Query: 418 QQSTGGKEIITILVIKPDGLLVYGSRNVGCVIYQSLGLRAPALIEAEMKKLGDQFHSFPI 477 KE IL ++P LL YG+RN+G V+Y+SL L P +I+ E+ + F + PI Sbjct: 399 DAHIQKKETFLILNVRPQSLLAYGARNIGHVLYKSLKLTPPKMIQEELTR-NPNFWATPI 457 Query: 478 DISELAEYAGDRLLVVVFPDAKGSTAHTEAVFRSPHWKRLPAVQRKNVHWLERDEWVPYN 537 + +L++YA D L V +F D S AH + + W+R+PAVQ+ V L W Y+ Sbjct: 458 NEDQLSQYAADWLFVHIFDD-DLSRAHFLELMKQDVWQRIPAVQKGQVVIL-NPIWFSYD 515 Query: 538 PVSIRLQLGRAVALF 552 P+S+ +QL AV + Sbjct: 516 PLSLDIQLEEAVQIL 530 >C0ZIV1.1 C0ZIV1_BREBN Probable transcriptional regulator Length = 549 Score = 180 bits (456), Expect = 4e-43, Method: Compositional matrix adjust. Identities = 147/524 (28%), Positives = 245/524 (46%), Gaps = 43/524 (8%) Query: 46 VLIAIAAGKGSLEVNNQHYELMEGGIVLLPANTYATLTTNPRQPLHAYKLSIRFLEQT-- 103 +L+ + G+G L + N+ Y+L + I + P + + L Y L +T Sbjct: 46 ILLVVTGGRGRLRLENEEYQLRQDAIYVCPPMLTFGIVPDSADHLEMYMLRFDVFMETKD 105 Query: 104 RVMPAGTMMQKSGIASDSKLLLFPYEPAI-VSDVKEL-----YLHRLPDRETRHVXXXXX 157 R + +K LFP+ I V +L + L +ET Sbjct: 106 RHRRFQALREKD---------LFPFRGEISVQSAGQLPVYCDLIQNLWKQETALERFRGQ 156 Query: 158 XXXXXXXXXXXXEARYIASGQP-SMERSITYLENHFSEKITREHLAAIAGVSRSHYSTLF 216 A + A+ ++E++ ++E H+SE +T E LA IA VS ++ LF Sbjct: 157 HTFQELWYHIVKHAHFSATDAGMALEQARAHMEEHYSENVTIEQLARIAEVSPKYFVDLF 216 Query: 217 KQLTGFTLNEYLSRLRVHRAKELLLNSSGTLREIALKVGYKDEFYLSRRFKQETGTSPSG 276 K+ G + +YL+ LR+ RAK++++ S LR+IA +VGY DEFY SR+FK+ G SP+ Sbjct: 217 KKTYGISAMDYLAELRISRAKQMMVQSHAKLRDIAHQVGYNDEFYFSRKFKKAVGVSPTL 276 Query: 277 YNRKPIRHVAVLLTPYASHLLLLG-------LEPAVTISESSEYLNLSGQEPPKPMKFIN 329 Y + R +A + HLL L L P T Y N + P + Sbjct: 277 YMKSRQRKIAAYGSTIIGHLLALKMIPYAAPLHPKWTAYYHHSYRN----DIPVHLSAFR 332 Query: 330 TNSSAAQMRSALLEANIELIIAARQHLDQLRLSPGE-LRAVAPIVEIPWMEMGWKDHLRL 388 N + L +A ++II LD+ L E L +AP + +P+ E GWK+ L+L Sbjct: 333 INQNWKANIETLRDAMPDVIIG----LDETSLEEQEQLNEIAPTLYVPFEERGWKEQLQL 388 Query: 389 IGQAIQRSERAEQWLADFEKEEAEARAIVQQSTGGKEIITILVIKPDGLLVYGSRNVGCV 448 + + S A WL ++EK+ AR +QQ G + ++ + V+K + + V+ +R++ V Sbjct: 389 MADFLGESVEANHWLCEYEKKVKRARTKLQQVLGDETVLIVRVLK-NQIFVHCNRSMNEV 447 Query: 449 IYQSLGLRAPALIEAEMKKLGDQFHSFPIDISELAEYAGDRLLVVVFPDAKGSTAHTEAV 508 +Q L ++ PA + + K DQ + ELA A DRLL++V +A+ + A +A+ Sbjct: 448 FFQDLQVK-PAFVSKQ--KEYDQL----VTAQELAALAPDRLLLLVCQEAE-TLACFQAL 499 Query: 509 FRSPHWKRLPAVQRKNVHWLERDEWVPYNPVSIRLQLGRAVALF 552 S W+ + AV+ H + D W Y+ + + +V LF Sbjct: 500 KASGPWQEIEAVRNNRAHVITSDPWREYSATAHERIVEESVKLF 543 >B1DAD4.1 B1DAD4_9BACL Transcriptional regulator, AraC family Length = 599 Score = 175 bits (443), Expect = 1e-41, Method: Compositional matrix adjust. Identities = 122/387 (31%), Positives = 192/387 (49%), Gaps = 33/387 (8%) Query: 181 MERSITYLENHFSEKITREHLAAIAGVSRSHYSTLFKQLTGFTLNEYLSRLRVHRAKELL 240 ME S+ Y+ +H+ E +TR+ LA++ GVS H+S LFK+ TG++ +YL R+R+ RA+ELL Sbjct: 232 MESSLDYIRDHYWEDLTRDRLASMYGVSPEHFSRLFKRETGYSFTDYLCRIRIRRAQELL 291 Query: 241 -LNSSGTLREIALKVGYKDEFYLSRRFKQETGTSPSGYNRKPIRHVAVLLTPYASHLLLL 299 L+ + EIA G+ E Y SR+FKQ G +PS Y P + A L + +L L Sbjct: 292 QLHPQKMMNEIAFLTGFHSEHYFSRKFKQIIGAAPSVYRSLP-KSYAALSAYMTASMLTL 350 Query: 300 GLEPAVTISESSEYLNLSGQEPPKPMKFINTNSSA-AQMRSALLEANIELIIAARQHLDQ 358 G P + + E SG M ++T +A + L +LI+ +D+ Sbjct: 351 GALPTLGVLEPWMKEQFSGS---LTMTLVDTPITADPETLDKLASVKPDLIL-----IDK 402 Query: 359 LRLSPGELRAVAPIVEIPWMEMGWKDHLRLIGQAIQRSERAEQWLADFEKEEAEARAIVQ 418 + LRA P+ IP ++ W+ L + AI R+ A W+A FE+ AEAR ++ Sbjct: 403 PQKQEELLRAAGPVCVIPDIDEDWRPPLLFLANAISRTSEANAWMAGFERRVAEARQLLA 462 Query: 419 QSTGGKEIITILVIKPDGLLVYGSRNV--GCVIYQSLGLRAPALIEAEMKKLGDQFHSFP 476 E + I I D L YG G ++Y LGL PA++ ++ + H P Sbjct: 463 PLLARNETVAIFKIVSDKLYAYGKSTSMGGLLLYTELGLTPPAIVCEQLIR-----HELP 517 Query: 477 ---IDISELAEYAGDRLLV-----VVFPDAKGSTAHTEAVFRSPHWKRLPAVQRKNVHWL 528 + EL+ +A D + + V +PD S +S W++L AV+R V+ Sbjct: 518 NKEVSSQELSSFAADHIFLFDYRSVWYPDKPAS-------LQSSAWQQLEAVRRGRVYTP 570 Query: 529 ERDEWVPYNPVSIRLQLGRAVALFDSK 555 D + Y+P+S+ QL A+ L S+ Sbjct: 571 NPDIFYGYDPLSLERQLEEALRLLTSQ 597 >B3KHJ8.1 B3KHJ8_9BACI Periplasmic binding protein Length = 404 Score = 161 bits (407), Expect = 2e-37, Method: Compositional matrix adjust. Identities = 114/383 (29%), Positives = 187/383 (48%), Gaps = 21/383 (5%) Query: 176 SGQPSMERSITYLENHFSEKITREHLAAIAGVSRSHYSTLFKQLTGFTLNEYLSRLRVHR 235 SG+ S+ Y+++H+ E +T LA +A + ++ LFK+ G T +YL+ +R++ Sbjct: 18 SGKTSLVEIKEYIDSHYHEALTIGQLAGMANICPKYFVDLFKKTFGQTTIDYLTHVRMNH 77 Query: 236 AKELLLNSSGTLREIALKVGYKDEFYLSRRFKQETGTSPSGYNRKPIRHVAVLLTPYASH 295 AK L S LR+IA KVGYKDEFY SR FK++ G SPS Y R + +A + Sbjct: 78 AKRYLAESDDRLRDIAQKVGYKDEFYFSRIFKKKVGMSPSEYARNSRQLIAACSSSIIGQ 137 Query: 296 LLLLGLEPAVTISESSE---YLNLSGQEPPKPMKFIN--TNSSAAQMRSALLEANIELII 350 L+ L + PA ++ Y N E +K N +S + L A ++II Sbjct: 138 LVALNVIPAAAPLDAKWTPFYYNAYNSEIKSRLKLTNPYPDSRFEENIEQLFRAKPDVII 197 Query: 351 AARQHLDQLRLSP-GELRAVAPIVEIPWMEMGWKDHLRLIGQAIQRSERAEQWLADFEKE 409 +D L + +L +AP +P GWK L +I + + E+A+ W+ +E++ Sbjct: 198 G----MDHLGVEEIAKLEPIAPTFIVP-SHAGWKKQLEMIAAFLNKEEQAQSWIGQYERK 252 Query: 410 EAEARAIVQQSTGGKEIITILVIKPDGLLVYGSRNVGCVIYQSLGLRAPALIEAEMKKLG 469 A AR+ +Q+ G + L I L YG+R + V++Q L L+ A + Sbjct: 253 VAHARSRMQEVVGNDR-VAALRIYGQNLYSYGNRGLEEVLFQDLQLKRACRSHASRNQ-- 309 Query: 470 DQFHSFPIDISELAEYAGDRLLVVVFPDAKGSTAHTEAVFRSPHWKRLPAVQRKNVHWLE 529 I + +L + DR+L+ V P+A S + A+ S W +L AV + V+ + Sbjct: 310 ------QITMDDLLQCDPDRILIAVCPEA-ASRRYWLALQHSAEWHKLRAVAQGRVYTIS 362 Query: 530 RDEWVPYNPVSIRLQLGRAVALF 552 D W Y+ +++ L A+ LF Sbjct: 363 SDPWFEYSALAVTRMLDEAMLLF 385 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 0.318 0.134 0.386 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: 3,148,291,766 Number of extensions: 125602830 Number of successful extensions: 354542 Number of sequences better than 1.0e-05: 4239 Number of HSP's gapped: 354968 Number of HSP's successfully gapped: 4242 Length of query: 555 Length of database: 3,060,696,203 Length adjustment: 141 Effective length of query: 414 Effective length of database: 1,732,333,088 Effective search space: 717185898432 Effective search space used: 717185898432 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 134 (56.2 bits)