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= 0476.0064.p (503 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value C0ZG67.1 C0ZG67_BREBN Probable DNA topoisomerase III EC=5.99.1.2 713 0.0 B3K6M5.1 B3K6M5_9BACI DNA topoisomerase EC=5.99.1.2 548 e-154 B1DLZ4.1 B1DLZ4_9BACL DNA topoisomerase EC=5.99.1.2 541 e-152 Q1AY08.1 Q1AY08_RUBXD DNA topoisomerase EC=5.99.1.2 311 1e-82 Q2YC17.1 Q2YC17_NITMU DNA topoisomerase EC=5.99.1.2 280 3e-73 >C0ZG67.1 C0ZG67_BREBN Probable DNA topoisomerase III EC=5.99.1.2 Length = 752 Score = 713 bits (1841), Expect = 0.0, Method: Compositional matrix adjust. Identities = 352/505 (69%), Positives = 397/505 (78%), Gaps = 15/505 (2%) Query: 1 VKETKEYPNKLYDLTLLQREANGKYAFSAKKTLDLAQALYEKHKVISYPRTNSNYVTEQN 60 VK+TKEYP KLYDLTLLQREANGKY FSAKKTLD+AQALYEKHKVISYPRTNSNYVTEQN Sbjct: 260 VKDTKEYPFKLYDLTLLQREANGKYGFSAKKTLDIAQALYEKHKVISYPRTNSNYVTEQN 319 Query: 61 IPEMHKTLSALQGTTYDEWVKGANRNLVHKGNKFVCNPSKVEDHHAILPTNRKASGLSTD 120 IPEMH TLS+LQGT YD VKGANR+LVHKGNKF+CNP+KV+DHHAILPTNRKASGL+ D Sbjct: 320 IPEMHNTLSSLQGTGYDALVKGANRSLVHKGNKFICNPAKVDDHHAILPTNRKASGLTPD 379 Query: 121 EAKLYDLIVRRFLSQFYPAAEYKVHTVITEVEGENFKTTVKELLSLGWKVIYXXXXXXXX 180 E KLYDLIVRRFLSQFYP AEYK+HTVIT+VE E F+T+VKE SLGWK+IY Sbjct: 380 EQKLYDLIVRRFLSQFYPPAEYKMHTVITDVENEFFRTSVKEQKSLGWKIIYADQQKEKP 439 Query: 181 XX-XXXXXXXXXXXXXXVNEPFSIDPHAGVLCSDAVVKEKDTQPPKHYTEGTLLKAMESA 239 VNEPF I A V+CSDA+VKEK+TQPPKH+TEGTLLKAMESA Sbjct: 440 KNGKGTAKEEEDKEEIEVNEPFIIQSDASVVCSDAMVKEKETQPPKHFTEGTLLKAMESA 499 Query: 240 GKQIEDEELRDAMKDSGLGTPATRAATIERLKNVGYVEMQGKKIAITQKGRTAIELIRGA 299 GKQIEDEELRDAMK+SGLGTPATRAATIERLK VGYVEMQGKK+ +T KGRT IELIRGA Sbjct: 500 GKQIEDEELRDAMKESGLGTPATRAATIERLKKVGYVEMQGKKVQLTLKGRTVIELIRGA 559 Query: 300 GVELLTSPEMTGQWERRLNEIARGTAADSQFMANVKRFASMIVDKVRVQSRADRTSFEGE 359 G+ELLTSPEMTG WERRLNEI+RGTAAD QFM NVK+FA+MIV+KVRVQSRA++T FE E Sbjct: 560 GIELLTSPEMTGHWERRLNEISRGTAADGQFMENVKKFATMIVEKVRVQSRAEKTLFESE 619 Query: 360 TPSLRGGAKGRSTAGSSKPAGKAAPGKRSGE-GGKTAAVKPXXXXXXXXXXXXXXXPKII 418 + + +G +K R AG G+ +G+ GG TA + Sbjct: 620 STTQKGSSKTRGRAG----------GRSTGKSGGSTATTRASTRSAAKTATTTSSIIT-- 667 Query: 419 GACPRPGCGGMIFMGRKGYGCSHYKEGCKFVIWKETYGRTLTDAQVKALIEKGKTGKLKL 478 CPRPGCGG IFMGRKGYGCS+Y GCKFVIWKE YGR LTD Q+KALIEKGKTGK+KL Sbjct: 668 -KCPRPGCGGSIFMGRKGYGCSNYNVGCKFVIWKENYGRMLTDTQIKALIEKGKTGKMKL 726 Query: 479 TAEDGSPLEGKLVLKSSDTGQLGIE 503 +DG+P + KL+LKS ++G+L E Sbjct: 727 ERQDGTPFQAKLILKSVESGELTFE 751 >B3K6M5.1 B3K6M5_9BACI DNA topoisomerase EC=5.99.1.2 Length = 762 Score = 548 bits (1411), Expect = e-154, Method: Compositional matrix adjust. Identities = 285/504 (56%), Positives = 341/504 (67%), Gaps = 12/504 (2%) Query: 1 VKETKEYPNKLYDLTLLQREANGKYAFSAKKTLDLAQALYEKHKVISYPRTNSNYVTEQN 60 VKETKEYP KLYDLTLLQREAN KY +SAKKTLDLAQALYE+HKVISYPRTNSNYV EQN Sbjct: 260 VKETKEYPFKLYDLTLLQREANAKYGYSAKKTLDLAQALYERHKVISYPRTNSNYVNEQN 319 Query: 61 IPEMHKTLSALQGTTYDEWVKGANRNLVHKGNKFVCNPSKVEDHHAILPTNRKASGLSTD 120 I MHK L L+ T+Y GA+ + VH NK VCNP +VEDHHAILPT ++ LS + Sbjct: 320 IEGMHKALHMLKSTSYASMAAGADPSRVHVNNKAVCNPQRVEDHHAILPTLKRPGTLSKE 379 Query: 121 EAKLYDLIVRRFLSQFYPAAEYKVHTVITEVEGENFKTTVKELLSLGWKV-IYXXXXXXX 179 E +YDL++ RFLS FYP A YK HTV+TEVEGE FKT +KELLSLGWKV I Sbjct: 380 EQHIYDLVITRFLSHFYPPAMYKQHTVLTEVEGETFKTGIKELLSLGWKVLIQDTEKKKS 439 Query: 180 XXXXXXXXXXXXXXXXXVNEPFSIDPHAGVLCSDAVVKEKDTQPPKHYTEGTLLKAMESA 239 + F + P V C + VKEK TQPPK YTEGTLLKAMESA Sbjct: 440 KSSKKGKEDEEEENQEWNDRSFDLTPDKPVQCKKSEVKEKATQPPKSYTEGTLLKAMESA 499 Query: 240 GKQIEDEELRDAMKDSGLGTPATRAATIERLKNVGYVEMQGKKIAITQKGRTAIELIRGA 299 GK IEDE LRDAMKDSGLGTPATRAATIERLK VGY+ MQGKKI +TQKGRTA+ELIR A Sbjct: 500 GKSIEDEALRDAMKDSGLGTPATRAATIERLKKVGYITMQGKKITVTQKGRTAVELIRHA 559 Query: 300 GVELLTSPEMTGQWERRLNEIARGTAADSQFMANVKRFASMIVDKVRVQSRADRTSFEGE 359 GVELL SPEMTGQWERRL++I++G A+ FM NV++F I++KV Q A + F G+ Sbjct: 560 GVELLASPEMTGQWERRLHQISKGEASADVFMQNVQKFTVSIINKVSSQRPAPSSLFGGD 619 Query: 360 TPSLRGGAKGRSTAGSSKPAGKAAPGKRSGEGGKTAAVKPXXXXXXXXXXXXXXXPKIIG 419 +G K RST+ KAAP ++ + +T+ P P +G Sbjct: 620 EDKSKGRGK-RSTS-------KAAPASKAKD-ERTSKPTPKSAPAASNEAPSVRSP--LG 668 Query: 420 ACPRPGCGGMIFMGRKGYGCSHYKEGCKFVIWKETYGRTLTDAQVKALIEKGKTGKLKLT 479 CPRPGC G I GRKGYGC+++K GC +VIWKE G+ ++ A +K+L+ +GKT L Sbjct: 669 RCPRPGCDGHIIEGRKGYGCANFKTGCSYVIWKEFAGKQISHAMLKSLLLQGKTQVLSFK 728 Query: 480 AEDGSPLEGKLVLKSSDTGQLGIE 503 EDGS +G+LVL + GQL ++ Sbjct: 729 NEDGSTYKGRLVLAAGGNGQLAVQ 752 >B1DLZ4.1 B1DLZ4_9BACL DNA topoisomerase EC=5.99.1.2 Length = 770 Score = 541 bits (1393), Expect = e-152, Method: Compositional matrix adjust. Identities = 277/511 (54%), Positives = 351/511 (68%), Gaps = 14/511 (2%) Query: 3 ETKEYPNKLYDLTLLQREANGKYAFSAKKTLDLAQALYEKHKVISYPRTNSNYVTEQNIP 62 E+KEYP +L+DLTLLQREANG+Y +SAKKTLD+AQALYEKHK I+YPRTNSNYVTE+N+P Sbjct: 262 ESKEYPFRLHDLTLLQREANGRYGYSAKKTLDIAQALYEKHKAITYPRTNSNYVTEENLP 321 Query: 63 EMHKTLSALQGT-TYDEWVKGANRNLVHKGNKFVCNPSKVEDHHAILPTNRKASGLSTDE 121 M K L+ LQG+ +Y E GA+R VHKGNK VCNPSKVEDHHAI+PT ++ SGLS +E Sbjct: 322 VMQKVLTMLQGSDSYRELANGADRGRVHKGNKAVCNPSKVEDHHAIMPTPKRPSGLSPEE 381 Query: 122 AKLYDLIVRRFLSQFYPAAEYKVHTVITEVEGENFKTTVKELLSLGWKVIYXXXXXXXXX 181 +YD+IVRRFLSQ+YP A YK HTV+TEVE E F+T KELL LGWKV+ Sbjct: 382 QNIYDMIVRRFLSQYYPPAVYKNHTVLTEVESEIFRTKAKELLELGWKVVLQDQGQAAKK 441 Query: 182 XXXXXXXXXXXXXXX-----VNEPFSIDPHAGVLCSDAVVKEKDTQPPKHYTEGTLLKAM 236 ++PF+I+P GV C + EK TQPPK +TEGTLLKAM Sbjct: 442 TSKKKSSEKDEAESDDEELLTDKPFAIEPQQGVKCVKSESLEKTTQPPKSFTEGTLLKAM 501 Query: 237 ESAGKQIEDEELRDAMKDSGLGTPATRAATIERLKNVGYVEMQGKKIAITQKGRTAIELI 296 ESAGK +ED+ELR+AMKD+GLGTPATRAATIERLK VGYV++ GKK+ I+ KG AIELI Sbjct: 502 ESAGKSMEDDELREAMKDTGLGTPATRAATIERLKQVGYVDLTGKKLEISSKGCAAIELI 561 Query: 297 RGAGVELLTSPEMTGQWERRLNEIARGTAADSQFMANVKRFASMIVDKVRVQSRADRTSF 356 RGAGV+LL SPEMTG+WE+RL++I+RG A+D QF+ VK+FA+MIVDKVR Q A +F Sbjct: 562 RGAGVDLLASPEMTGRWEQRLHQISRGEASDDQFIMKVKQFAAMIVDKVRQQRPAAPGTF 621 Query: 357 -EGETPSLRGGAKGRSTAGSSKPAGKAAPGKRSGEGGKTAAVKPXXXXXXXXXXXXXXXP 415 E E+ RG A + + +SKP+G G R + + P Sbjct: 622 EERESGGKRGAAGTKRGSRTSKPSG----GGRPSSTRSSTSASATATAAPKAASRTAASP 677 Query: 416 KI---IGACPRPGCGGMIFMGRKGYGCSHYKEGCKFVIWKETYGRTLTDAQVKALIEKGK 472 + I ACPR GC G I G++G+GCS +++GC FVIWKE G+T++ V++L+EKG Sbjct: 678 TVREPIAACPRAGCSGHIIEGKRGFGCSSFRDGCTFVIWKEQQGKTISIPMVRSLLEKGA 737 Query: 473 TGKLKLTAEDGSPLEGKLVLKSSDTGQLGIE 503 T +L +DGS + KLVL D G + ++ Sbjct: 738 TSQLTFKRQDGSSTKAKLVLTDRDKGTVSVQ 768 >Q1AY08.1 Q1AY08_RUBXD DNA topoisomerase EC=5.99.1.2 Length = 701 Score = 311 bits (796), Expect = 1e-82, Method: Compositional matrix adjust. Identities = 199/500 (39%), Positives = 265/500 (53%), Gaps = 87/500 (17%) Query: 2 KETKEYPNKLYDLTLLQREANGKYAFSAKKTLDLAQALYEKHKVISYPRTNSNYVTEQNI 61 + T E P LYDLT LQR AN +Y F+A++TL AQALYE+ K+I+YPRT+S Y++ + Sbjct: 267 RRTSERPPLLYDLTELQRNANARYGFTAERTLRAAQALYEERKLITYPRTSSRYLSGDMV 326 Query: 62 PEMHKTLSALQGTTYDEWVKGANRNLVHKG---NKFVCNPSKVEDHHAILPTNRKAS-GL 117 + + + A G E A R L + V + SKV DHHAI+PT+RK S GL Sbjct: 327 GTLKRRVEAAGG--LPELAPFAGRLLAAGSLPVGRRVVDDSKVTDHHAIVPTDRKPSGGL 384 Query: 118 STDEAKLYDLIVRRFLSQFYPAAEYKVHTVITEVEGENFKTTVKELLSLGWKVIYXXXXX 177 DEAK+YDL+ RRFL+ F+PAA ++ TV+TE GE F + + +L GW+ +Y Sbjct: 385 PPDEAKVYDLVARRFLAVFFPAARFENTTVVTEARGETFLSKGRVVLEAGWRELYPDGVG 444 Query: 178 XXXXXXXXXXXXXXXXXXXVNEPFSIDP-HAG--VLCSDAVVKEKDTQPPKHYTEGTLLK 234 EP ++ P AG + VKE +T+PP Y+E LL Sbjct: 445 GRKE----------------KEPPALPPVEAGQEWRVAKVGVKEGETKPPPRYSESALLG 488 Query: 235 AMESAGKQIEDEELRDAMKDSGLGTPATRAATIERLKNVGYVEMQGKKIAITQKGRTAIE 294 AME+AGK +EDEELR MKDSGLGTPATRAA IERL VGYVE + K + T KGR I Sbjct: 489 AMETAGKLVEDEELRQQMKDSGLGTPATRAAIIERLIKVGYVEREKKALVPTAKGRALIS 548 Query: 295 LIRGAGVELLTSPEMTGQWERRLNEIARGTAADSQFMANVKRFASMIVDKVRVQSRADRT 354 L+ + L+SPEMT +WERRL I RG FM+++ FA+ +V+ VR Sbjct: 549 LLADSP---LSSPEMTARWERRLARIERGEERRPDFMSDISGFAASVVEGVR-------- 597 Query: 355 SFEGETPSLRGGAKGRSTAGSSKPAGKAAPGKRSGEGGKTAAVKPXXXXXXXXXXXXXXX 414 EGE AAPG GG A Sbjct: 598 RMEGEK--------------------IAAPG-----GGGEA------------------- 613 Query: 415 PKIIGACPRPGCGGMIFMGRKGYGCSHY-KEGCKFVIWKETYGRTLTDAQVKALIEKGKT 473 +GACP+ CG + +K YGCS + K GC F IWK G+ ++++Q + L+ KG+T Sbjct: 614 ---LGACPK--CGSPVVETKKAYGCSAWRKTGCDFAIWKRVAGKRVSESQARQLLAKGRT 668 Query: 474 GKLK-LTAEDGSPLEGKLVL 492 +LK + G P LVL Sbjct: 669 ARLKGFKSRAGKPFSAALVL 688 >Q2YC17.1 Q2YC17_NITMU DNA topoisomerase EC=5.99.1.2 Length = 846 Score = 280 bits (715), Expect = 3e-73, Method: Compositional matrix adjust. Identities = 175/467 (37%), Positives = 239/467 (51%), Gaps = 76/467 (16%) Query: 11 LYDLTLLQREANGKYAFSAKKTLDLAQALYEKHKVISYPRTNSNYVTEQNIPEMHKTLSA 70 LYDLT LQR+ANG++ FSAK TL LAQALYEKHKV++YPRT+S + E I + +TL + Sbjct: 290 LYDLTSLQRDANGRFGFSAKTTLSLAQALYEKHKVLTYPRTDSRALPEDYIATVKETLGS 349 Query: 71 LQGTTYDEWVKGANRNLVHKGNKFVCNPSKVEDHHAILPTNRKASGLSTDEAKLYDLIVR 130 LQ + Y + K NK + N +K+ DH AI+PT +A GL+ E+KLYDL+V+ Sbjct: 350 LQNSGYGAFAAQILGAGWVKPNKRIFNNAKISDHFAIIPTTIEARGLNEVESKLYDLVVK 409 Query: 131 RFLSQFYPAAEYKVHTVITEVEGENFKTTVKELLSLGWKVIYXXXXXXXXXXXXXXXXXX 190 RFL+ FYPAAE+ V T IT VE E FKT K L++ GW+ +Y Sbjct: 410 RFLAIFYPAAEFLVTTRITRVENEPFKTEGKVLINPGWQAVYGKEAQPSGTEDNSTL--- 466 Query: 191 XXXXXXVNEPFSIDPHAGVLCSDAVVKEKDTQPPKHYTEGTLLKAMESAGKQIEDEELRD 250 ++P V + V T+PP + E TLL AME AGK +EDEELR+ Sbjct: 467 ----------VKLEPDEPVTAEEIEVASHQTRPPPRFNEATLLSAMEGAGKWVEDEELRE 516 Query: 251 AMKDSGLGTPATRAATIERLKNVGYVEMQGKKIAITQKGRTAIELIRGAGVELLTSPEMT 310 AM GLGTPATRAA IE L + Y++ G+++ T K + I L+RG V LTSPE+T Sbjct: 517 AMSAKGLGTPATRAAIIEGLVSENYIQRVGRELHPTAKAFSLITLLRGLKVPELTSPELT 576 Query: 311 GQWERRLNEIARGTAADSQFMANVKRFASMIVDKVRVQSRADRTSFEGETPSLRGGAKGR 370 G WE +L +I +G ++FMA + S IV + + S GET S Sbjct: 577 GDWEYKLRQIEQGKLERNKFMAEIAEMTSHIVQQAK--------SHRGETIS-------- 620 Query: 371 STAGSSKPAGKAAPGKRSGEGGKTAAVKPXXXXXXXXXXXXXXXPKIIGACPRPGCGGMI 430 G + +K CP+ CGG+I Sbjct: 621 ---------------------GDFSTLK--------------------SPCPK--CGGVI 637 Query: 431 FMGRKGYGCSHYKEGCKFVIWKETYGRTLTDAQVKALIEKGKTGKLK 477 K + C + C F +WK GR A+++ LI + + G L+ Sbjct: 638 QETYKKFQC----QKCDFALWKILAGRQFETAEMEQLITRREVGPLQ 680 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 0.313 0.131 0.376 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: 2,777,350,620 Number of extensions: 109297132 Number of successful extensions: 277514 Number of sequences better than 1.0e-05: 1755 Number of HSP's gapped: 274273 Number of HSP's successfully gapped: 2849 Length of query: 503 Length of database: 3,060,696,203 Length adjustment: 140 Effective length of query: 363 Effective length of database: 1,741,754,103 Effective search space: 632256739389 Effective search space used: 632256739389 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.2 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 42 (21.9 bits) S2: 133 (55.8 bits)