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= 0449.0008.p (524 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B3K5H1.1 B3K5H1_9BACI Periplasmic binding protein 535 e-150 B1D923.1 B1D923_9BACL Transcriptional regulator, AraC family 172 6e-41 C0Z8E4.1 C0Z8E4_BREBN Probable transcriptional regulator 167 3e-39 Q65DZ3.1 Q65DZ3_BACLD YbbB 165 1e-38 C0ZIV1.1 C0ZIV1_BREBN Probable transcriptional regulator 165 1e-38 >B3K5H1.1 B3K5H1_9BACI Periplasmic binding protein Length = 533 Score = 535 bits (1378), Expect = e-150, Method: Compositional matrix adjust. Identities = 272/510 (53%), Positives = 362/510 (70%), Gaps = 14/510 (2%) Query: 7 EMSGYLYRL-SGRLPPGGAGYL----HSLLLLSGKTESFVRPVRRPTML--QTAMIIPPG 59 EM GYLY+L R P G + L+LL + + R+P + +++P G Sbjct: 7 EMHGYLYKLVHARSPEDTPGMKVDNNNHLMLLVFSDKQKITIERKPYHVGPHKVILLPAG 66 Query: 60 ---ADLSAFTGGWERIMVLSFSMLQESTGGRHVPVCLEQPIEFSPGPGCSLMDIGMEISE 116 D S G + L F ML+E+ R+ PV L + IE GP SL ++I Sbjct: 67 LWIEDKSESMGS----LALEFVMLEETQAYRYAPVSLSRVIEVEVGPFPSLYQSVLDIRT 122 Query: 117 KLDGDAPQRMRANILFQELLLALFEGSSGPNESAQERAIAQTVEYMHRNYHRSVSREQLA 176 K G+ +++A +F ELL+ + E ++ + ER + QTVEY+HR+YHR++SRE LA Sbjct: 123 KWSGERVDQLKAQHMFLELLIMIMENAAEKPHTEHERVVKQTVEYIHRHYHRNISREHLA 182 Query: 177 EVAGMSADYYSRLFKKKLGQTPVEYLTGIRLKHAKQALLSTKESFRAIAQSVGFADEFYF 236 E AG+S+DY++R+FK++LG++P+ YL+ +RL HAKQ LL TK+SFR IAQ +G+ADEFYF Sbjct: 183 ERAGLSSDYFTRIFKRQLGKSPMSYLSAVRLNHAKQELLLTKDSFRTIAQRIGYADEFYF 242 Query: 237 SRKFRTATGVSPSHYVRQVKAAQRIVSLQHHLTGHLLALGIEPYAALVNSYYPLRLKEVR 296 SRKFR TG+SPS YV+Q+K A +IVSL HHLTGHLLALGIEPYAA+VNSYYP+ L Sbjct: 243 SRKFRMMTGMSPSMYVKQMKKADKIVSLHHHLTGHLLALGIEPYAAIVNSYYPIALHNTI 302 Query: 297 DIGHFRPDLDKLAAVGPDVIFTCEVYDEETQQKARMFEHIAQTVTIPFFEDWRTQLRKVA 356 +IGHFRPDLDKLA+ PDVIFTC++YDEET KA+MFEHI QT++IPF++DWRTQ K+A Sbjct: 303 EIGHFRPDLDKLASANPDVIFTCDIYDEETSAKAKMFEHITQTISIPFYDDWRTQFCKIA 362 Query: 357 VATGREDEAEDWLQHYELKAQQTRAALSPFTEGKSVLIVGVGNGRICLFGHRNVGAVLYG 416 ATG++ EA WL+ Y+ K+ RA++ P+ +GK+ LI+G+GNG +CLFG RNVGAV+Y Sbjct: 363 TATGKDKEAGLWLEKYQAKSLSVRASIKPYVDGKTALIIGLGNGILCLFGQRNVGAVVYD 422 Query: 417 DLGLQAPDGLGDIRLYREIDYSEIYSYDPDLLLLTSFRNDGSPLTKLAIREKIRQIESDP 476 DLGL+ P GLG I LYREI Y +I+ YDPD++ LTSFRNDGS TK AIR+ + Q DP Sbjct: 423 DLGLKPPSGLGSIPLYREIAYEDIFDYDPDIIFLTSFRNDGSQQTKAAIRQTLNQWNRDP 482 Query: 477 RWKAMKAVRSSKVYSLFEEQHLYTLYSAYS 506 RWK+ +AVR+ +VYSL E QHLYT+Y+AYS Sbjct: 483 RWKSKRAVRNQEVYSLLESQHLYTMYTAYS 512 >B1D923.1 B1D923_9BACL Transcriptional regulator, AraC family Length = 582 Score = 172 bits (437), Expect = 6e-41, Method: Compositional matrix adjust. Identities = 126/408 (30%), Positives = 195/408 (47%), Gaps = 36/408 (8%) Query: 127 RANILFQELLLALFEGSSGPNESAQERAIAQTVEYMHRNYHRSVSREQLAEVAGMSADYY 186 RA + ELL L + + +RAI +T+ YMHR Y ++ E LA++AGM YY Sbjct: 187 RAELQMYELLELLLGSTPAVSPGGDKRAIQKTIPYMHRAYDSDITLEMLADMAGMHPSYY 246 Query: 187 SRLFKKKLGQTPVEYLTGIRLKHAKQALLSTKESFRAIAQSVGFADEFYFSRKFRTATGV 246 S++FK++L +P+ +LT IR+ AK+ LL T IA VG+ D FYFSR+F+ TG Sbjct: 247 SQMFKQELNMSPITFLTRIRMNRAKEELLLTGRKMGEIASRVGYKDSFYFSRRFKEYTGC 306 Query: 247 SPSHYVRQVKAAQRIVSLQHHLTGHLLALGIEPYAALVNSYYPLRLKEVRDIGH----FR 302 +P+ Y K + I+SL + T HLL LGI P AA V P + + H ++ Sbjct: 307 APTMYKEWPKPS--IISLSYAYTDHLLTLGITPVAAQVYKEIPNTTRTLALPFHGSDVWQ 364 Query: 303 PDLDKLAAVGPDVIFTCEVYDEETQQKARMFEHIAQTVTIPFFEDWRT-----QLRKVAV 357 PD++ D T + + +A VTIP W T LRK+ Sbjct: 365 VSRQTFLEAKPDLVIGK---DNVTSKARELIGDLAPIVTIP----WGTLPVFEHLRKIGE 417 Query: 358 ATGREDEAEDWLQHYELKAQQTRAALSPFTEGKSVLIVGVGNGRICLFGHRNVGAVLYGD 417 R + A+ WL +E + R + +V I VG+ I ++G+RN+G V Y Sbjct: 418 TVNRAEAADAWLAQHERRVLDARRHVKAAIGNATVTICVVGDYGIRIYGNRNIGHVFYES 477 Query: 418 LGLQAPDGL---------GDIRLYREIDYSEIYSYDPDLLLLTSFRNDGSPLTKLAIREK 468 L L P L + ++ I ++ YD D LL+ R + + RE Sbjct: 478 LELSMPPRLKQDMEEHAGAKLFNWKAISADQLMEYDSDYLLVV-LR------SGVMAREN 530 Query: 469 IRQIESDPRWKAMKAVRSSKVYSLFEEQHLYTLYSAYSHNLLLDKLLE 516 RQ+ + + KAVR ++V+ F + + +Y+ S + LD+ +E Sbjct: 531 WRQLATHSGYLQHKAVRRNRVH--FLDWDRWVVYAPMSIDNQLDEAVE 576 >C0Z8E4.1 C0Z8E4_BREBN Probable transcriptional regulator Length = 548 Score = 167 bits (422), Expect = 3e-39, Method: Compositional matrix adjust. Identities = 118/389 (30%), Positives = 193/389 (49%), Gaps = 34/389 (8%) Query: 120 GDAPQRMRANILFQELLLALFEGSSGPNESAQERAIAQTVEYMHRNYHRSVSREQLAEVA 179 D + + I FQ+LL ++ + + QT+ YMH NY ++ + LA A Sbjct: 137 NDPLEAFQNQIRFQQLLHLIWSHAERQATVETSSVVDQTISYMHTNYAEPITLDDLANRA 196 Query: 180 GMSADYYSRLFKKKLGQTPVEYLTGIRLKHAKQALLSTKESFRAIAQSVGFADEFYFSRK 239 G++ YY+ +FKKK+G++P+EYLT R++HAK L + + R +A+ VG+ADEFYFSR+ Sbjct: 197 GLTPRYYTEVFKKKVGKSPIEYLTSCRMEHAKTLLRESNKRLREVARLVGYADEFYFSRR 256 Query: 240 FRTATGVSPSHYVRQVKAAQRIVSLQHHLTGHLLALGIEPYAA----LVNSYYPLRLKEV 295 F+ GVSP+ +VR + +++ + H +LLALGI P A + LR+KE Sbjct: 257 FKQQVGVSPTVFVRMNQ--KQMAPVTFHYAEYLLALGIRPIGAPEEQVTYLREQLRMKEA 314 Query: 296 RDIGHF---RPDLDKLAAVGPDVIFTCEVYDEETQQKARMFEHIAQTVTIPFFE-DWRTQ 351 +I PDL K ++ P I T E+ + F +A T+ +P+ + D Sbjct: 315 DEIVSLPENTPDLIK--SLQPTFILT------ESTGDSAAFSKVAPTLALPWLDHDVFGH 366 Query: 352 LRKVAVATGREDEAEDWLQHYELKAQQTRAALSPFTEGK-SVLIVGVGNGRICLFGHRNV 410 L +A G +D+A WL+ +E K + + + + K + LI+ V + +G RN+ Sbjct: 367 LNILADVLGLKDQAHLWLKQHEQKVLKAKRCIDAHIQKKETFLILNVRPQSLLAYGARNI 426 Query: 411 GAVLYGDLGLQAPDGLGDIRLYRE-------IDYSEIYSYDPDLLLLTSFRNDGSPLTKL 463 G VLY L L P + + L R I+ ++ Y D L + F +D S Sbjct: 427 GHVLYKSLKLTPPKMIQE-ELTRNPNFWATPINEDQLSQYAADWLFVHIFDDDLS----- 480 Query: 464 AIREKIRQIESDPRWKAMKAVRSSKVYSL 492 R ++ W+ + AV+ +V L Sbjct: 481 --RAHFLELMKQDVWQRIPAVQKGQVVIL 507 >Q65DZ3.1 Q65DZ3_BACLD YbbB Length = 531 Score = 165 bits (417), Expect = 1e-38, Method: Compositional matrix adjust. Identities = 149/542 (27%), Positives = 248/542 (45%), Gaps = 53/542 (9%) Query: 9 SGYLYRL--------SGRLPPGG--AGYLHSLLLLSGKTESFVRPVRRPTMLQTAMIIPP 58 S Y YRL G LP A + L G+ ++ RP +T I+PP Sbjct: 3 SSYFYRLLQIDHIRKPGDLPDEQQLADSFVLIFHLKGEGRIDIQASGRPLQKETLYIVPP 62 Query: 59 GADLSAFTGGWERIMVLSFSMLQESTGGRHVPVCLE-QPIEFSPGPGCSLMDIGMEISEK 117 T E I V + R + + + P FS ++ +G ++ + Sbjct: 63 YETF-GITASSEEISVYLIRLQPYCYEDRRLTLQADTDPDAFSDLQMMNVHPVG-NLASR 120 Query: 118 LD--------GDAPQRMRANILFQELLLALFEGS-SGPNESAQERAIAQTVEYMHRNYHR 168 L A Q ++ Q+LL ++ + P +A AI +T EY+ + Sbjct: 121 LQELSALWPASSALQELKCQADLQQLLYDIYSAKLTHPENTAS--AIGKTKEYIEEHSDA 178 Query: 169 SVSREQLAEVAGMSADYYSRLFKKKLGQTPVEYLTGIRLKHAKQALLSTKESFRAIAQSV 228 ++ +QLA++AG+SA +YS FKK GQ+ E++T R+ AKQ + R I+ + Sbjct: 179 HLTLDQLAQMAGISAKHYSERFKKLYGQSVTEFITETRMTKAKQLMAKASYKLREISSQI 238 Query: 229 GFADEFYFSRKFRTATGVSPSHYVRQVKAAQRIVSLQHHLTGHLLALGIEPYAALVN--- 285 G+ DEFYFSR F+ TG+SP+ Y++ K +++ + + G L+ L + PYAA ++ Sbjct: 239 GYQDEFYFSRTFKKHTGLSPTVYMK--KRRRKLAAYGQNTIGQLIPLHLIPYAASLHPKW 296 Query: 286 -SYY--------PLRLKEVRDIGHFRPDLDKLAAVGPDVIFTCE-VYDEETQQKARMFEH 335 SYY P+ L R + +L L++ P++I + + V EE +Q + Sbjct: 297 TSYYYKHYAADIPVHLSAYRFHEPWEENLRTLSSADPELIISMDSVSHEEREQ----LQS 352 Query: 336 IAQTVTIPFFEDWRTQLRKVAVATGREDEAEDWLQHYELKAQQTRAALSPFTEGKSVLIV 395 IA +P E WR A E EA WL Y+ + + AL P +S L + Sbjct: 353 IADVFFLPSQEQWRRHFMLTASHLDEEAEAHKWLLSYQRLTETAKEALYPICGRRSFLFL 412 Query: 396 GVGNGRICLFGHRNVGAVLYGDLGLQAPDGLGDIRLYREIDYSEIYSYDPDLLLLTSFRN 455 + I L +R+V V +GDLG ++ L + R + I +Y PD++++ F+ Sbjct: 413 RLHKHEIYLAHNRSVQDVFFGDLGFESAVSLEE-PTDRAVSIETIAAYQPDIIMIFIFKE 471 Query: 456 DGSPLTKLAIREKIRQIESDPRWKAMKAVRSSKVYSLFEEQHLYTLYSAYSHNLLLDKLL 515 P T LA R+++ W+ +KAVR +VY + + + YSA SH ++ + + Sbjct: 472 ---PET-LAF---YRELQQSAAWQDLKAVRHHRVYQVNSDP--WREYSACSHERIIRQAV 522 Query: 516 EL 517 L Sbjct: 523 RL 524 >C0ZIV1.1 C0ZIV1_BREBN Probable transcriptional regulator Length = 549 Score = 165 bits (417), Expect = 1e-38, Method: Compositional matrix adjust. Identities = 125/411 (30%), Positives = 215/411 (52%), Gaps = 30/411 (7%) Query: 122 APQRMRANILFQELLLALFEGSSGPNESAQERAIAQTVEYMHRNYHRSVSREQLAEVAGM 181 A +R R FQEL + + + A A+ Q +M +Y +V+ EQLA +A + Sbjct: 149 ALERFRGQHTFQELWYHIVKHAHFSATDAG-MALEQARAHMEEHYSENVTIEQLARIAEV 207 Query: 182 SADYYSRLFKKKLGQTPVEYLTGIRLKHAKQALLSTKESFRAIAQSVGFADEFYFSRKFR 241 S Y+ LFKK G + ++YL +R+ AKQ ++ + R IA VG+ DEFYFSRKF+ Sbjct: 208 SPKYFVDLFKKTYGISAMDYLAELRISRAKQMMVQSHAKLRDIAHQVGYNDEFYFSRKFK 267 Query: 242 TATGVSPSHYVRQVKAAQRIVSLQHHLTGHLLALGIEPYAALVN----SYY--------P 289 A GVSP+ Y++ + ++I + + GHLLAL + PYAA ++ +YY P Sbjct: 268 KAVGVSPTLYMKSRQ--RKIAAYGSTIIGHLLALKMIPYAAPLHPKWTAYYHHSYRNDIP 325 Query: 290 LRLKEVRDIGHFRPDLDKLAAVGPDVIFTCEVYDEETQQKARMFEHIAQTVTIPFFE-DW 348 + L R +++ +++ L PDVI DE + ++ IA T+ +PF E W Sbjct: 326 VHLSAFRINQNWKANIETLRDAMPDVIIGL---DETSLEEQEQLNEIAPTLYVPFEERGW 382 Query: 349 RTQLRKVAVATGREDEAEDWLQHYELKAQQTRAALSPFTEGKSVLIVGVGNGRICLFGHR 408 + QL+ +A G EA WL YE K ++ R L ++VLIV V +I + +R Sbjct: 383 KEQLQLMADFLGESVEANHWLCEYEKKVKRARTKLQQVLGDETVLIVRVLKNQIFVHCNR 442 Query: 409 NVGAVLYGDLGLQAPDGLGDIRLYRE-IDYSEIYSYDPDLLLLTSFRNDGSPLTKLAIRE 467 ++ V + DL ++ P + + Y + + E+ + PD LLL + + LA + Sbjct: 443 SMNEVFFQDLQVK-PAFVSKQKEYDQLVTAQELAALAPDRLLLLVCQEAET----LACFQ 497 Query: 468 KIRQIESDPRWKAMKAVRSSKVYSLFEEQHLYTLYSAYSHNLLLDKLLELW 518 ++ S P W+ ++AVR+++ + + + + YSA +H ++++ ++L+ Sbjct: 498 ALK--ASGP-WQEIEAVRNNRAHVITSDP--WREYSATAHERIVEESVKLF 543 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 0.136 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: 3,135,822,718 Number of extensions: 131025359 Number of successful extensions: 333323 Number of sequences better than 1.0e-05: 4784 Number of HSP's gapped: 332303 Number of HSP's successfully gapped: 4786 Length of query: 524 Length of database: 3,060,696,203 Length adjustment: 140 Effective length of query: 384 Effective length of database: 1,741,754,103 Effective search space: 668833575552 Effective search space used: 668833575552 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: 134 (56.2 bits)