RPS-BLAST 2.2.26 [Sep-21-2011]

Database: scop70_1_75 
           13,730 sequences; 2,407,596 total letters

Searching..................................................done

Query= psy4037
         (153 letters)



>d1k4ta3 e.15.1.1 (A:201-430) Eukaryotic DNA topoisomerase I,
           N-terminal DNA-binding fragment {Human (Homo sapiens)
           [TaxId: 9606]}
          Length = 230

 Score = 28.5 bits (64), Expect = 0.29
 Identities = 5/33 (15%), Positives = 15/33 (45%)

Query: 95  IWALMEEKKEEKLRVIRAQKKAIKDAKLAEEKK 127
           +    + + E + ++ + +K  IK+      K+
Sbjct: 105 MSQYFKAQTEARKQMSKEEKLKIKEENEKLLKE 137



 Score = 25.1 bits (55), Expect = 3.7
 Identities = 5/27 (18%), Positives = 13/27 (48%)

Query: 55  EKKEEKLRVIRAQKKAIKDAKLAEEKK 81
            + E + ++ + +K  IK+      K+
Sbjct: 111 AQTEARKQMSKEEKLKIKEENEKLLKE 137


>d1oisa_ e.15.1.1 (A:) Eukaryotic DNA topoisomerase I, N-terminal
           DNA-binding fragment {Baker's yeast (Saccharomyces
           cerevisiae) [TaxId: 4932]}
          Length = 223

 Score = 28.1 bits (63), Expect = 0.34
 Identities = 7/33 (21%), Positives = 18/33 (54%)

Query: 95  IWALMEEKKEEKLRVIRAQKKAIKDAKLAEEKK 127
           ++   + +KE+K ++   +KK I+  +   E+ 
Sbjct: 97  MFDYFQLQKEQKKQLTSQEKKQIRLEREKFEED 129



 Score = 25.4 bits (56), Expect = 3.2
 Identities = 7/28 (25%), Positives = 15/28 (53%)

Query: 54  LEKKEEKLRVIRAQKKAIKDAKLAEEKK 81
             +KE+K ++   +KK I+  +   E+ 
Sbjct: 102 QLQKEQKKQLTSQEKKQIRLEREKFEED 129


>d1ng6a_ a.182.1.1 (A:) Hypothetical protein YqeY {Bacillus subtilis
           [TaxId: 1423]}
          Length = 148

 Score = 25.0 bits (54), Expect = 3.7
 Identities = 8/45 (17%), Positives = 24/45 (53%)

Query: 99  MEEKKEEKLRVIRAQKKAIKDAKLAEEKKRANEVSRISLKKNHVA 143
           M+ ++++KL V+R  K ++++  +  +K    E   +++    + 
Sbjct: 15  MKNREKDKLTVVRMVKASLQNEAIKLKKDSLTEDEELTVLSRELK 59


>d1s2xa_ a.47.3.1 (A:) Cag-Z {Helicobacter pylori [TaxId: 210]}
          Length = 180

 Score = 24.3 bits (52), Expect = 6.7
 Identities = 12/51 (23%), Positives = 27/51 (52%)

Query: 97  ALMEEKKEEKLRVIRAQKKAIKDAKLAEEKKRANEVSRISLKKNHVAISPY 147
           +LM    E + + I+    ++KD+   ++  R  +  RI+++KN ++   Y
Sbjct: 20  SLMRNANEVRDKFIQNYATSLKDSNDPQDFLRRVQELRINMQKNFISFDAY 70


>d1svma_ c.37.1.20 (A:) Papillomavirus large T antigen helicase
           domain {Simian virus 40 [TaxId: 10633]}
          Length = 362

 Score = 24.2 bits (52), Expect = 8.3
 Identities = 7/86 (8%), Positives = 26/86 (30%), Gaps = 8/86 (9%)

Query: 51  QSSLEKKEEKLRVIRAQKKAIKDAKLAEEKKRANEGLLFKKGQSIWALMEEKKEEKLRVI 110
           ++  +     L +    + + +      +K++ +     +K                   
Sbjct: 14  ETKCDDVLLLLGMYLEFQYSFEMCLKCIKKEQPSHYKYHEK--------HYANAAIFADS 65

Query: 111 RAQKKAIKDAKLAEEKKRANEVSRIS 136
           + QK   + A      K+  +  +++
Sbjct: 66  KNQKTICQQAVDTVLAKKRVDSLQLT 91


  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
   0.318    0.131    0.363 

Gapped
Lambda     K      H
   0.267   0.0522    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 539,100
Number of extensions: 23363
Number of successful extensions: 112
Number of sequences better than 10.0: 1
Number of HSP's gapped: 108
Number of HSP's successfully gapped: 31
Length of query: 153
Length of database: 2,407,596
Length adjustment: 78
Effective length of query: 75
Effective length of database: 1,336,656
Effective search space: 100249200
Effective search space used: 100249200
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: 49 (23.1 bits)