RPS-BLAST 2.2.26 [Sep-21-2011]

Database: pdb70 
           27,921 sequences; 6,701,793 total letters

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

Query= psy4036
         (93 letters)



>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
           vesicle, membrane, Ca structural protein; 7.94A {Bos
           taurus}
          Length = 190

 Score = 27.4 bits (60), Expect = 0.52
 Identities = 7/37 (18%), Positives = 18/37 (48%), Gaps = 1/37 (2%)

Query: 29  VSRQSSLEKKEEKLRVIRA-QKKAIKDAKLAEEKKRA 64
           +++   L ++ E +R  R  Q+K +++   A +    
Sbjct: 74  IAQADRLTQEPESIRKWREEQRKRLQELDAASKVMEQ 110



 Score = 26.3 bits (57), Expect = 1.6
 Identities = 8/46 (17%), Positives = 21/46 (45%), Gaps = 4/46 (8%)

Query: 31  RQSSLEKKEEKLRVIRAQKKAIKDAKLAEEKKRANEVSRISLKKNH 76
           ++  L++ +   +V+  + +      L E  +R +E     ++KN 
Sbjct: 94  QRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSE----QVEKNK 135


>1ois_A DNA topoisomerase I; DNA-binding protein; HET: DNA; 1.90A
           {Saccharomyces cerevisiae} SCOP: e.15.1.1
          Length = 223

 Score = 26.8 bits (59), Expect = 1.0
 Identities = 7/28 (25%), Positives = 15/28 (53%)

Query: 35  LEKKEEKLRVIRAQKKAIKDAKLAEEKK 62
             +KE+K ++   +KK I+  +   E+ 
Sbjct: 102 QLQKEQKKQLTSQEKKQIRLEREKFEED 129


>2b9s_A Topoisomerase I-like protein; vanadate complex, isomerase/DNA
           complex; HET: DNA; 2.27A {Leishmania donovani}
          Length = 432

 Score = 26.5 bits (58), Expect = 1.4
 Identities = 11/28 (39%), Positives = 19/28 (67%)

Query: 35  LEKKEEKLRVIRAQKKAIKDAKLAEEKK 62
           L ++E+KL   + +KKAIK+ + AE + 
Sbjct: 112 LVQREKKLSRTKEEKKAIKEKQDAEAEP 139


>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
           programmed cell death; HET: DTP; 6.90A {Drosophila
           melanogaster} PDB: 3iz8_A*
          Length = 1221

 Score = 25.6 bits (55), Expect = 3.5
 Identities = 15/79 (18%), Positives = 26/79 (32%), Gaps = 21/79 (26%)

Query: 27  YGVSRQSSLEKKEEKLRVIRAQK-----------K------AIKDAKLAEEKKRANEVSR 69
           Y VSR     K  + L  +R  K           K           K+  + K   ++  
Sbjct: 129 YNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKV--QCKMDFKIFW 186

Query: 70  ISLKKNH--VAIFIIHQDL 86
           ++LK  +    +  + Q L
Sbjct: 187 LNLKNCNSPETVLEMLQKL 205


>1a31_A Protein (topoisomerase I); topoisomerase I/DNA, DNA, isomerase/DNA
           complex; HET: DNA 5IU PTR; 2.10A {Homo sapiens} SCOP:
           d.163.1.2 e.15.1.1 PDB: 1k4t_A* 1k4s_A* 1sc7_A* 1t8i_A*
           1tl8_A* 1seu_A* 1a35_A* 1a36_A* 1r49_A* 1rrj_A* 1nh3_A*
           1lpq_A* 1rr8_C* 1ej9_A*
          Length = 591

 Score = 25.1 bits (54), Expect = 5.0
 Identities = 5/27 (18%), Positives = 13/27 (48%)

Query: 36  EKKEEKLRVIRAQKKAIKDAKLAEEKK 62
            + E + ++ + +K  IK+      K+
Sbjct: 137 AQTEARKQMSKEEKLKIKEENEKLLKE 163


  Database: pdb70
    Posted date:  Sep 4, 2012  3:40 AM
  Number of letters in database: 6,701,793
  Number of sequences in database:  27,921
  
Lambda     K      H
   0.318    0.131    0.351 

Gapped
Lambda     K      H
   0.267   0.0545    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,313,610
Number of extensions: 63726
Number of successful extensions: 200
Number of sequences better than 10.0: 1
Number of HSP's gapped: 195
Number of HSP's successfully gapped: 18
Length of query: 93
Length of database: 6,701,793
Length adjustment: 60
Effective length of query: 33
Effective length of database: 5,026,533
Effective search space: 165875589
Effective search space used: 165875589
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 (21.8 bits)
S2: 51 (23.8 bits)