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)