RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy3916
         (103 letters)



>d1dkgd1 c.55.1.1 (D:3-185) Heat shock protein 70kDa, ATPase
           fragment {Escherichia coli, gene dnaK [TaxId: 562]}
          Length = 183

 Score =  103 bits (259), Expect = 3e-30
 Identities = 52/93 (55%), Positives = 73/93 (78%)

Query: 1   MEGKQAKVIENSEGSRTTPSVVAFTKDGERLVGTPARRQAVTNSANTFYATKRLIGRRFD 60
           M+G   +V+EN+EG RTTPS++A+T+DGE LVG PA+RQAVTN  NT +A KRLIGRRF 
Sbjct: 17  MDGTTPRVLENAEGDRTTPSIIAYTQDGETLVGQPAKRQAVTNPQNTLFAIKRLIGRRFQ 76

Query: 61  DPEIKKDMKNLSYKIVRASNGDAWVQGKNIRIS 93
           D E+++D+  + +KI+ A NGDAWV+ K  +++
Sbjct: 77  DEEVQRDVSIMPFKIIAADNGDAWVEVKGQKMA 109


>d1bupa1 c.55.1.1 (A:4-188) Heat shock protein 70kDa, ATPase
           fragment {Cow (Bos taurus) [TaxId: 9913]}
          Length = 185

 Score = 84.7 bits (209), Expect = 9e-23
 Identities = 39/86 (45%), Positives = 53/86 (61%), Gaps = 2/86 (2%)

Query: 1   MEGKQAKVIENSEGSRTTPSVVAFTKDGERLVGTPARRQAVTNSANTFYATKRLIGRRFD 60
            +  + ++I N +G+RTTPS VAFT D ERL+G  A+ Q   N  NT +  KRLIGRRFD
Sbjct: 18  FQHGKVEIIANDQGNRTTPSYVAFT-DTERLIGDAAKNQVAMNPTNTVFDAKRLIGRRFD 76

Query: 61  DPEIKKDMKNLSYKIVRASNGDAWVQ 86
           D  ++ DMK+  + +V    G   VQ
Sbjct: 77  DAVVQSDMKHWPFMVVN-DAGRPKVQ 101


>d2ja9a2 d.51.1.1 (A:152-236) Ribosomal RNA-processing protein 40,
          RRP40 {Saccharomyces cerevisiae [TaxId: 4932]}
          Length = 85

 Score = 25.9 bits (57), Expect = 0.46
 Identities = 8/44 (18%), Positives = 19/44 (43%), Gaps = 1/44 (2%)

Query: 53 RLIGRRFDDPEIKKDMKNLSYKIVRASNGDAWVQGKNIRISEVV 96
          +L+    D P +K    +  +++    NG  WV+ + +  +   
Sbjct: 14 QLLFNN-DFPLLKVLAAHTKFEVAIGLNGKIWVKCEELSNTLAC 56


>d1fafa_ a.2.3.1 (A:) Large T antigen, the N-terminal J domain
          {Murine polyomavirus [TaxId: 10634]}
          Length = 79

 Score = 24.6 bits (53), Expect = 1.2
 Identities = 4/40 (10%), Positives = 11/40 (27%), Gaps = 3/40 (7%)

Query: 60 DDPEIKKDMKNLSYKIVRASNGDAWVQGKNIRISEVVEVL 99
          D   +++  K  S  +     G          ++ +    
Sbjct: 26 DFGRMQQAYKQQSLLLHPDKGGSHA---LMQELNSLWGTF 62


>d1ep5a_ b.47.1.3 (A:) Viral capsid protein {Venezuelan equine
           encephalitis virus [TaxId: 11036]}
          Length = 156

 Score = 24.1 bits (52), Expect = 3.5
 Identities = 11/23 (47%), Positives = 14/23 (60%)

Query: 13  EGSRTTPSVVAFTKDGERLVGTP 35
           EGSRT  SVV + + G  +  TP
Sbjct: 128 EGSRTALSVVMWNEKGVTVKYTP 150


>d2gkpa1 d.351.1.1 (A:1-164) Hypothetical protein NMB0488 {Neisseria
           meningitidis [TaxId: 487]}
          Length = 164

 Score = 23.6 bits (51), Expect = 5.5
 Identities = 11/36 (30%), Positives = 16/36 (44%), Gaps = 5/36 (13%)

Query: 63  EIKKDMKNLSYKIVRA-----SNGDAWVQGKNIRIS 93
            + K   NL YK  RA      + D W+    ++IS
Sbjct: 88  WVAKLCGNLGYKTRRALFKNMMSVDIWLHNGCLKIS 123


>d1ho8a_ a.118.1.9 (A:) Regulatory subunit H of the V-type ATPase
           {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}
          Length = 477

 Score = 23.7 bits (51), Expect = 6.3
 Identities = 7/19 (36%), Positives = 13/19 (68%)

Query: 54  LIGRRFDDPEIKKDMKNLS 72
           L  R++ D E+++D+ NL 
Sbjct: 324 LSERKYSDEELRQDISNLK 342


>d1t01a1 a.24.9.1 (A:1-125) Vinculin {Chicken (Gallus gallus)
          [TaxId: 9031]}
          Length = 125

 Score = 22.8 bits (49), Expect = 7.7
 Identities = 7/41 (17%), Positives = 17/41 (41%), Gaps = 1/41 (2%)

Query: 39 QAVTNSANTFYATKRLIGRRFDDPEIKKDMKNLSYKIVRAS 79
           AV  + +      +   +  +D  +K+DM   ++  V  +
Sbjct: 45 SAVQAAVSNLVRVGKETVQTTEDQILKRDM-PPAFIKVENA 84


>d1vcpa_ b.47.1.3 (A:) Viral capsid protein {Semliki forest virus
           [TaxId: 11033]}
          Length = 149

 Score = 22.9 bits (49), Expect = 7.7
 Identities = 10/16 (62%), Positives = 11/16 (68%)

Query: 13  EGSRTTPSVVAFTKDG 28
           EGSRT  SVV + KD 
Sbjct: 122 EGSRTALSVVTWNKDM 137


>d2nn6g3 d.51.1.1 (G:195-274) Ribosomal RNA-processing protein 40,
          RRP40 {Human (Homo sapiens) [TaxId: 9606]}
          Length = 80

 Score = 22.3 bits (48), Expect = 8.3
 Identities = 9/23 (39%), Positives = 12/23 (52%)

Query: 69 KNLSYKIVRASNGDAWVQGKNIR 91
          K    +IV   NG  WV+ K I+
Sbjct: 28 KLYPLEIVFGMNGRIWVKAKTIQ 50


>d1iu4a_ d.3.1.8 (A:) Microbial transglutaminase
          {Streptoverticillium mobaraense [TaxId: 35621]}
          Length = 331

 Score = 23.1 bits (49), Expect = 8.4
 Identities = 15/54 (27%), Positives = 23/54 (42%), Gaps = 7/54 (12%)

Query: 26 KDGERLVGTPARRQ-------AVTNSANTFYATKRLIGRRFDDPEIKKDMKNLS 72
          +DG +   T  +R+        VT   +  Y T RL    FD+   K ++KN  
Sbjct: 45 RDGRKQQMTEEQREWLSYGCVGVTWVNSGQYPTNRLAFASFDEDRFKNELKNGR 98


  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
   0.314    0.130    0.365 

Gapped
Lambda     K      H
   0.267   0.0705    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 371,172
Number of extensions: 15205
Number of successful extensions: 50
Number of sequences better than 10.0: 1
Number of HSP's gapped: 49
Number of HSP's successfully gapped: 12
Length of query: 103
Length of database: 2,407,596
Length adjustment: 64
Effective length of query: 39
Effective length of database: 1,528,876
Effective search space: 59626164
Effective search space used: 59626164
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: 42 (22.0 bits)
S2: 47 (21.9 bits)