RPS-BLAST 2.2.22 [Sep-27-2009] Database: scop70_1_75 13,730 sequences; 2,407,596 total letters Searching..................................................done Query= gi|254780353|ref|YP_003064766.1| DNA topoisomerase IV subunit A [Candidatus Liberibacter asiaticus str. psy62] (753 letters) >d1ab4a_ e.11.1.1 (A:) DNA Gyrase A {Escherichia coli [TaxId: 562]} Length = 493 Score = 450 bits (1158), Expect = e-127 Identities = 210/496 (42%), Positives = 297/496 (59%), Gaps = 45/496 (9%) Query: 40 ERAIPDLRDGFKPVHRRIIHAMSEMGLDFGAAFKKSARIVGEVIGKLHPHGDQSVYDSLV 99 RA+PD+RDG KPVHRR+++AM+ +G D+ A+KKSAR+VG+VIGK HPHGD +VYD++V Sbjct: 2 GRALPDVRDGLKPVHRRVLYAMNVLGNDWNKAYKKSARVVGDVIGKYHPHGDSAVYDTIV 61 Query: 100 RLAQPFVQRYPLISGQGNFGNIDGDSAAAYRYTEARMTQVAELILQGVDEDAVDFRDTYN 159 R+AQPF RY L+ GQGNFG+IDGDSAAA RYTE R+ ++A ++ ++++ VDF D Y+ Sbjct: 62 RMAQPFSLRYMLVDGQGNFGSIDGDSAAAMRYTEIRLAKIAHELMADLEKETVDFVDNYD 121 Query: 160 EEDSEPVVFPSKFPNLLANGTSGIAVGMATSIPSHNVQEICEAALALIDNPEISIEKLLE 219 + P V P+K PNLL NG+SGIAVGMAT+IP HN+ E+ LA ID+ +ISIE L+E Sbjct: 122 GTEKIPDVMPTKIPNLLVNGSSGIAVGMATNIPPHNLTEVINGCLAYIDDEDISIEGLME 181 Query: 220 YIIGPDFPTGGIIVESRESIVESYRLGRGGFRVRARWCVEEVGR-GSWCIVVTEIPYQVQ 278 +I GPDFPT II R I E+YR GRG +RAR VE + G I+V EIPYQV Sbjct: 182 HIPGPDFPTAAIIN-GRRGIEEAYRTGRGKVYIRARAEVEVDAKTGRETIIVHEIPYQVN 240 Query: 279 KSRLIEKIAELIIAKRIPLLEDIRDESAEDVRIVLFPKNRSLDPDLLMESIFMLSDMETR 338 K+RLIEKIAEL+ KR+ + +RDES +D ++ R ++++ +++ + ++ Sbjct: 241 KARLIEKIAELVKEKRVEGISALRDESDKDGMRIVIEVKRDAVGEVVLNNLYSQTQLQVS 300 Query: 339 FPLNMNVLSMGRVPQVMPLDGILKEWLAHRREVLFRRSSFRMQAIDRRVEILKGLLIAYL 398 F +NM L G+ P++M L I+ ++ HRREV+ RR+ F ++ R IL+ L +A Sbjct: 301 FGINMVALHHGQ-PKIMNLKDIIAAFVRHRREVVTRRTIFELRKARDRAHILEALAVALA 359 Query: 399 NIDEIIAIIRNEDKPKPVMV-------------------------------------SRF 421 NID II +IR+ P + Sbjct: 360 NIDPIIELIRHAPTPAEAKTALVANPWQLGNVAAMLERAGDDAARPEWLEPEFGVRDGLY 419 Query: 422 SLTENQVDAILNLRLRSLRKLEEYQIKSELDNLLAEKEKIDSLLNSGKQQWNQIACEIRE 481 LTE Q AIL+LRL+ L LE ++ E LL + ++ +L S + I E+ Sbjct: 420 YLTEQQAQAILDLRLQKLTGLEHEKLLDEYKELLDQIAELLRILGSADRLMEVIREELEL 479 Query: 482 VKEIFSKSTDLGRRRT 497 V+E F +RRT Sbjct: 480 VREQFGD-----KRRT 490 >d1bjta_ e.11.1.1 (A:) DNA topoisomerase II, C-terminal fragment (residues 410-1202) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 760 Score = 225 bits (573), Expect = 1e-59 Identities = 93/539 (17%), Positives = 194/539 (35%), Gaps = 90/539 (16%) Query: 10 NTLVEENVKAVSLRFALEERYLAYALSTIKERAIPDLRDGFKPVHRRIIHAMSEMGLDFG 69 T+++ +K + + + + + ++L+ R+IP++ DGFKP R++++ + L Sbjct: 242 GTVLDPTLKEIPISDFINKELILFSLADN-IRSIPNVLDGFKPGQRKVLYGCFKKNLKSE 300 Query: 70 AAFKKSARIVGEVIGKLHPHGDQSVYDSLVRLAQPFVQR----YPLISGQGNFGNIDGDS 125 + A V E + HG+QS+ +++ LAQ FV L +G G Sbjct: 301 LKVAQLAPYVSECTA--YHHGEQSLAQTIIGLAQNFVGSNNIYLLLPNGAFGTRATGGKD 358 Query: 126 AAAYRYTEARMTQVAELILQGVDEDAVDFRDTYNEEDSEPVVFPSKFPNLLANGTSGIAV 185 AAA RY + ++ I D+ + + EP + P +L NG GI Sbjct: 359 AAAARYIYTELNKLTRKIFHPADDPLYKYIQEDEKT-VEPEWYLPILPMILVNGAEGIGT 417 Query: 186 GMATSIPSHNVQEICEAALALIDNPEISIEKLLEYIIGPDFPTGGIIVESRESIVESYRL 245 G +T IP N EI + L+++ E +E++ + G I Sbjct: 418 GWSTYIPPFNPLEIIKNIRHLMNDEE--LEQMHPWFRGWTGTIEEI-------------- 461 Query: 246 GRGGFRVRARWCVEEVGRGSWCIVVTEIPYQVQKSRLIEKIAELIIAKR--IPLLEDIRD 303 +R+ R G + +TE+P + S + E + + P ++D+ + Sbjct: 462 EPLRYRMYGRI----EQIGDNVLEITELPARTWTSTIKEYLLLGLSGNDKIKPWIKDMEE 517 Query: 304 ESAEDVRIVLFPKNRSLDPDLLMESIFMLSDMETRFPLNMNVLSM-GRVPQVMPLDGILK 362 + ++++ ++ + + + +NM G++ + ++ IL Sbjct: 518 QHDDNIKFIITLSPEEMAKTRKIGFYERFKLISPISLMNMVAFDPHGKIKKYNSVNEILS 577 Query: 363 EWLAHRREVLFRRSSFRMQAIDRRVEILKG------------LLIAYLNIDEIIAIIRNE 410 E+ R E +R + + VE L + + II + N Sbjct: 578 EFYYVRLEYYQKRKDHMSERLQWEVEKYSFQVKFIKMIIEKELTVTNKPRNAIIQELENL 637 Query: 411 DKPK----------------------------------------PVMVSRFSLTENQVDA 430 P+ +++ + Sbjct: 638 GFPRFNKEGKPYYGSPNDEIAEQINDVKGATSDEEDEESSHEDTENVINGPEELYGTYEY 697 Query: 431 ILNLRLRSLRKLEEYQIKSELDNLLAEKEKIDSLLN-SGKQQWNQIACEIREVKEIFSK 488 +L +R+ SL K ++ + E +++LL S K WN +++ + + + Sbjct: 698 LLGMRIWSLTKERYQKLLKQKQEKETE---LENLLKLSAKDIWNT---DLKAFEVGYQE 750 >d1x75a1 e.11.1.1 (A:363-494) DNA Gyrase A {Escherichia coli [TaxId: 562]} Length = 132 Score = 75.9 bits (186), Expect = 1e-14 Identities = 34/131 (25%), Positives = 50/131 (38%), Gaps = 37/131 (28%) Query: 374 RRSSFRMQAIDRRVEILKGLLIAYLNIDEIIAIIRNEDKPKPVMVSRF------------ 421 RR+ F ++ R IL+ L +A NID II +IR+ P + Sbjct: 2 RRTIFELRKARDRAHILEALAVALANIDPIIELIRHAPTPAEAKTALVANPWQLGNVAAM 61 Query: 422 -------------------------SLTENQVDAILNLRLRSLRKLEEYQIKSELDNLLA 456 LTE Q AIL+LRL+ L LE ++ E LL Sbjct: 62 LERAGDDAARPEWLEPEFGVRDGLYYLTEQQAQAILDLRLQKLTGLEHEKLLDEYKELLD 121 Query: 457 EKEKIDSLLNS 467 + ++ +L S Sbjct: 122 QIAELLRILGS 132 >d1wp5a_ b.68.10.1 (A:) Topoisomerase IV subunit A, ParC, C-terminal domain {Bacillus stearothermophilus [TaxId: 1422]} Length = 323 Score = 71.5 bits (174), Expect = 2e-13 Identities = 31/180 (17%), Positives = 59/180 (32%), Gaps = 8/180 (4%) Query: 514 MIEKEPITVVISNRGWIRSLKSHSV---DLSALHFKEGDSLKIALHAHTTDRILLLSTDG 570 M+ E + V ++ G+++ S + K+ D L L +T D +LL + G Sbjct: 1 MVASEDVIVTVTKDGYVKRTSLRSYAASNGQDFAMKDTDRLLAMLEMNTKDVLLLFTNKG 60 Query: 571 KAYTLPAGNLLSGRGH--GEAIQLLIDLNHNQDIVTAF---VYDSTCKLLVVSSKGNAFI 625 P L R G+ I +I ++ +++I+ A ++ L V+ G Sbjct: 61 NYLYCPVHELPDIRWKDLGQHIANIIPIDRDEEIIKAIPINDFELNGYFLFVTRNGMVKK 120 Query: 626 VEESEIIANTRKGKTFLKVSSEEKMKLVVKVTGDHVAVVGENRKLLIFSIDQIPEMSRGK 685 E A + + V +T + D+ G Sbjct: 121 TELKHYKAQRYSKPLTGINLKNDDQVVDVHLTDGMNELFLVTHNGYALWFDESEVSIVGV 180 Score = 29.2 bits (64), Expect = 1.4 Identities = 8/45 (17%), Positives = 15/45 (33%), Gaps = 1/45 (2%) Query: 653 VVKVTGDHVAVVGENRKLLIFSIDQIPEMSR-GKGVRLQSYKDGG 696 VV D + + E + + I R G + ++ G Sbjct: 253 VVAQDSDTIYLQTEKSFIETIKVGDIRFSDRYSNGSFVLDEEENG 297 >d1suua_ b.68.10.1 (A:) DNA gyrase A C-terminal domain {Lyme disease spirochete (Borrelia burgdorferi) [TaxId: 139]} Length = 304 Score = 41.8 bits (97), Expect = 2e-04 Identities = 35/181 (19%), Positives = 73/181 (40%), Gaps = 14/181 (7%) Query: 518 EPITVVISNRGWI--------RSLKSHSVDLSALHFKEGDSLKIALHAHTTDRILLLSTD 569 E I V+++ +G++ + + LS+ +GD + IAL +T D + ++S + Sbjct: 1 ENIVVMLTKKGFLKRLSQNEYKLQGTGGKGLSSFDLNDGDEIVIALCVNTHDYLFMISNE 60 Query: 570 GKAYTLPAGNLLSGRGHGEAIQL-----LIDLNHNQDIVTAFVYDSTCKLLVVSSKGNAF 624 GK Y + A + + + L D I + LL+ ++ G Sbjct: 61 GKLYLINAYEIKDSSRASKGQNISELINLGDQEEILTIKNSKDLTDDAYLLLTTASGKIA 120 Query: 625 IVEESEIIANTRKGKTFLKVSSEEKMKLVVKVTGD-HVAVVGENRKLLIFSIDQIPEMSR 683 E ++ A +G +K++ ++ + V D V + + IF+ + +R Sbjct: 121 RFESTDFKAVKSRGVIVIKLNDKDFVTSAEIVFKDEKVICLSKKGSAFIFNSRDVRLTNR 180 Query: 684 G 684 G Sbjct: 181 G 181 Score = 39.1 bits (90), Expect = 0.001 Identities = 28/168 (16%), Positives = 58/168 (34%), Gaps = 7/168 (4%) Query: 540 LSALHFKEGDSLKIALHAHTTDRILLLSTDGKAYTLPAGNLLSGRGHGEAIQLLIDLNHN 599 + + + D + A ++++ LS G A+ + ++ G + L Sbjct: 135 VIVIKLNDKDFVTSAEIVFKDEKVICLSKKGSAFIFNSRDVRL-TNRGTQGVCGMKLKEG 193 Query: 600 QDIVTAFVYDSTCKLLVVSSKGNAFIVEESEIIANTRKG-KTFLKVSSEEKMKLVVKV-- 656 V LL+VS G + S+I R S++K VV Sbjct: 194 DLFVKVLSVKENPYLLIVSENGYGKRLNMSKISELKRGATGYTSYKKSDKKAGSVVDAIA 253 Query: 657 --TGDHVAVVGENRKLLIFSIDQIPEMSR-GKGVRLQSYKDGGISDVI 701 D + +V + K L ++ E + +G+++ + + V Sbjct: 254 VSEDDEILLVSKRSKALRTVAGKVSEQGKDARGIQVLFLDNDSLVSVS 301 Score = 34.1 bits (77), Expect = 0.036 Identities = 21/116 (18%), Positives = 39/116 (33%), Gaps = 4/116 (3%) Query: 544 HFKEGDSLKIALHAHTTDRILLLSTDGKAYTLPAGNLL-SGRGHGEAIQLLIDLNHNQDI 602 KEGD L +L++S +G L + RG + Sbjct: 189 KLKEGDLFVKVLSVKENPYLLIVSENGYGKRLNMSKISELKRGATGYTSYKKSDKKAGSV 248 Query: 603 VTAFVYDSTCKLLVVSSKGNAFIVEESEIIANTR--KGKTFLKVSSEEKMKLVVKV 656 V A ++L+VS + A ++ + +G L + ++ + V K Sbjct: 249 VDAIAVSEDDEILLVSKRSKALRTVAGKVSEQGKDARGIQVLFLDNDSLVS-VSKF 303 Score = 28.7 bits (63), Expect = 1.8 Identities = 24/141 (17%), Positives = 48/141 (34%), Gaps = 13/141 (9%) Query: 457 EKEKIDSLLNSGKQQWNQIACEIREVKEIFSKSTDLGRRRTT--FCEVSRADKATLQQAM 514 +K+ + S K + + S+ L R T + ++ Sbjct: 142 DKDFVTSAEIVFKDEKVICLSKKGSAFIFNSRDVRLTNRGTQGVCGMKLKEGDLFVKVLS 201 Query: 515 IEKEPITVVISNRGWIRSLKSHSVDLSA----------LHFKEGDSLKIALHAHTTDRIL 564 +++ P +++S G+ + L + K+ S+ A+ D IL Sbjct: 202 VKENPYLLIVSENGYGKRLNMSKISELKRGATGYTSYKKSDKKAGSVVDAIAVSEDDEIL 261 Query: 565 LLSTDGKAYTLPAGNL-LSGR 584 L+S KA AG + G+ Sbjct: 262 LVSKRSKALRTVAGKVSEQGK 282 >d1sxja1 a.80.1.1 (A:548-693) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 146 Score = 26.7 bits (59), Expect = 6.5 Identities = 9/49 (18%), Positives = 21/49 (42%), Gaps = 3/49 (6%) Query: 425 ENQVDAILNLRLRSLRKLEEYQIKSELDNLLAEKEKIDSLLNSGKQQWN 473 EN + ++ LE +E N ++ + ++ + S +Q W+ Sbjct: 47 ENYLSTRPSVLKPGQSHLEAV---AEAANCISLGDIVEKKIRSSEQLWS 92 >d1cjaa_ d.144.1.3 (A:) Actin-fragmin kinase, catalytic domain {Physarum polycephalum [TaxId: 5791]} Length = 342 Score = 26.8 bits (59), Expect = 6.9 Identities = 9/50 (18%), Positives = 16/50 (32%), Gaps = 2/50 (4%) Query: 350 RVPQVMPLDGILKEWLAHRREVLFRRSSFRMQAIDRRVEILKGLLIAYLN 399 P+V + +E + SFR+ I LL+ + Sbjct: 118 HAPKVRVVSSNSEEGTNMLECLAAIDKSFRV--ITTLANQANILLMELVR 165 Database: scop70_1_75 Posted date: Mar 27, 2010 6:21 PM Number of letters in database: 2,407,596 Number of sequences in database: 13,730 Lambda K H 0.319 0.137 0.389 Gapped Lambda K H 0.267 0.0576 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 13730 Number of Hits to DB: 2,793,414 Number of extensions: 137618 Number of successful extensions: 372 Number of sequences better than 10.0: 1 Number of HSP's gapped: 362 Number of HSP's successfully gapped: 17 Length of query: 753 Length of database: 2,407,596 Length adjustment: 92 Effective length of query: 661 Effective length of database: 1,144,436 Effective search space: 756472196 Effective search space used: 756472196 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: 56 (25.7 bits)