RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= 033505
         (118 letters)



>d2gy9s1 d.28.1.1 (S:2-80) Ribosomal protein S19 {Escherichia coli
          [TaxId: 562]}
          Length = 79

 Score = 89.0 bits (221), Expect = 2e-25
 Identities = 29/75 (38%), Positives = 41/75 (54%), Gaps = 1/75 (1%)

Query: 20 RGLKRKPMALIKKLRKAKREAPPGEKPEPVRTHLRNMIIVPEMIGSIIGVYNGKTFNQVE 79
          R LK+ P   +  L+K ++    G+K  P+RT  R   I P MIG  I V+NG+    V 
Sbjct: 1  RSLKKGPFIDLHLLKKVEKAVESGDKK-PLRTWSRRSTIFPNMIGLTIAVHNGRQHVPVF 59

Query: 80 IKPEMIGHYLAEFSI 94
          +  EM+GH L EF+ 
Sbjct: 60 VTDEMVGHKLGEFAP 74


>d2uubs1 d.28.1.1 (S:2-81) Ribosomal protein S19 {Thermus
          thermophilus [TaxId: 274]}
          Length = 80

 Score = 85.5 bits (212), Expect = 6e-24
 Identities = 30/75 (40%), Positives = 36/75 (48%), Gaps = 1/75 (1%)

Query: 20 RGLKRKPMALIKKLRKAKREAPPGEKPEPVRTHLRNMIIVPEMIGSIIGVYNGKTFNQVE 79
          R LK+        L K       GEK   ++T  R   IVPEM+G  I VYNGK    V 
Sbjct: 2  RSLKKGVFVDDHLLEKVLELNAKGEKR-LIKTWSRRSTIVPEMVGHTIAVYNGKQHVPVY 60

Query: 80 IKPEMIGHYLAEFSI 94
          I   M+GH L EF+ 
Sbjct: 61 ITENMVGHKLGEFAP 75


>d3ecga1 b.50.1.1 (A:1-99) Human immunodeficiency virus type 2
          (HIV-2) protease {Human immunodeficiency virus type 2
          [TaxId: 11709]}
          Length = 99

 Score = 25.2 bits (56), Expect = 1.4
 Identities = 10/28 (35%), Positives = 16/28 (57%), Gaps = 2/28 (7%)

Query: 60 PEMIGSIIGVYNGKTFNQVEIKPEMIGH 87
          P+++G I G  N K +  VEI  E++  
Sbjct: 44 PKIVGGIGGFINTKEYKNVEI--EVLNK 69


>d1hvca_ b.50.1.1 (A:) Human immunodeficiency virus type 1 protease
           {Human immunodeficiency virus type 1 [TaxId: 11676]}
          Length = 203

 Score = 25.7 bits (57), Expect = 1.6
 Identities = 11/28 (39%), Positives = 17/28 (60%), Gaps = 2/28 (7%)

Query: 60  PEMIGSIIGVYNGKTFNQVEIKPEMIGH 87
           P+MIG I G    + ++Q+ I  E+ GH
Sbjct: 148 PKMIGGIGGFIKVRQYDQILI--EICGH 173



 Score = 24.1 bits (53), Expect = 5.1
 Identities = 11/28 (39%), Positives = 17/28 (60%), Gaps = 2/28 (7%)

Query: 60 PEMIGSIIGVYNGKTFNQVEIKPEMIGH 87
          P+MIG I G    + ++Q+ I  E+ GH
Sbjct: 44 PKMIGGIGGFIKVRQYDQILI--EICGH 69


>d2nmza1 b.50.1.1 (A:1-99) Human immunodeficiency virus type 1
          protease {Human immunodeficiency virus type 1 [TaxId:
          11676]}
          Length = 99

 Score = 23.7 bits (52), Expect = 4.3
 Identities = 11/28 (39%), Positives = 17/28 (60%), Gaps = 2/28 (7%)

Query: 60 PEMIGSIIGVYNGKTFNQVEIKPEMIGH 87
          P+MIG I G    + ++Q+ I  E+ GH
Sbjct: 44 PKMIGGIGGFIKVRQYDQIII--EIAGH 69


>d1udxa2 c.37.1.8 (A:157-336) Obg GTP-binding protein middle domain
           {Thermus thermophilus [TaxId: 274]}
          Length = 180

 Score = 23.5 bits (49), Expect = 7.3
 Identities = 10/22 (45%), Positives = 12/22 (54%)

Query: 28  ALIKKLRKAKREAPPGEKPEPV 49
           AL + L    R  PP E P+PV
Sbjct: 158 ALKEALHALVRSTPPPEMPKPV 179


>d2arka1 c.23.5.8 (A:1-184) Flavodoxin FldA {Aquifex aeolicus
           [TaxId: 63363]}
          Length = 184

 Score = 23.5 bits (50), Expect = 8.6
 Identities = 3/22 (13%), Positives = 8/22 (36%)

Query: 29  LIKKLRKAKREAPPGEKPEPVR 50
            +      ++E     + +P R
Sbjct: 161 WVAIFVDGRKELLEKIRKDPAR 182


  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
   0.321    0.138    0.401 

Gapped
Lambda     K      H
   0.267   0.0760    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 465,371
Number of extensions: 21958
Number of successful extensions: 62
Number of sequences better than 10.0: 1
Number of HSP's gapped: 60
Number of HSP's successfully gapped: 16
Length of query: 118
Length of database: 2,407,596
Length adjustment: 74
Effective length of query: 44
Effective length of database: 1,391,576
Effective search space: 61229344
Effective search space used: 61229344
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: 47 (21.8 bits)