RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= 040226
         (137 letters)



>d1wh9a_ d.52.3.1 (A:) Ribosomal protein S3 N-terminal domain {Mouse
           (Mus musculus) [TaxId: 10090]}
          Length = 92

 Score =  112 bits (283), Expect = 2e-34
 Identities = 70/87 (80%), Positives = 72/87 (82%)

Query: 14  DGVFFAELNEVLTRELAEDGYSGVEVRVTPVRTEIIIRATRTQNVLGEKGRRIRELTSVV 73
              F AELNE LTRELAEDGYSGVEVRVTP RTEIII ATRTQNVLGEKGRRIRELT+VV
Sbjct: 5   SSGFKAELNEFLTRELAEDGYSGVEVRVTPTRTEIIILATRTQNVLGEKGRRIRELTAVV 64

Query: 74  QKRFKFPENSVELYAEKVNNRGLCAIA 100
           QKRF FPE SVELYAEKV  RG    +
Sbjct: 65  QKRFGFPEGSVELYAEKVATRGSGPSS 91


>d2uubc1 d.52.3.1 (C:2-106) Ribosomal protein S3 N-terminal domain
          {Thermus thermophilus [TaxId: 274]}
          Length = 105

 Score = 36.4 bits (84), Expect = 2e-04
 Identities = 13/54 (24%), Positives = 22/54 (40%)

Query: 25 LTRELAEDGYSGVEVRVTPVRTEIIIRATRTQNVLGEKGRRIRELTSVVQKRFK 78
          L +EL   G + V++        + +   +   V+G  G RIR L   + K   
Sbjct: 42 LEKELYSAGLARVDIERAADNVAVTVHVAKPGVVIGRGGERIRVLREELAKLTG 95


>d2qalc1 d.52.3.1 (C:1-105) Ribosomal protein S3 N-terminal domain
          {Escherichia coli [TaxId: 562]}
          Length = 105

 Score = 34.0 bits (78), Expect = 0.001
 Identities = 15/54 (27%), Positives = 24/54 (44%)

Query: 25 LTRELAEDGYSGVEVRVTPVRTEIIIRATRTQNVLGEKGRRIRELTSVVQKRFK 78
          LT+ELA+   S + +        + I   R   V+G+KG  + +L  VV     
Sbjct: 42 LTKELAKASVSRIVIERPAKSIRVTIHTARPGIVIGKKGEDVEKLRKVVADIAG 95


>d2a3la1 c.1.9.1 (A:212-839) AMP deaminase (AMPD), catalytic domain
           {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}
          Length = 628

 Score = 29.1 bits (65), Expect = 0.17
 Identities = 7/30 (23%), Positives = 13/30 (43%)

Query: 14  DGVFFAELNEVLTRELAEDGYSGVEVRVTP 43
            G F  E+ + +  +L    Y   E R++ 
Sbjct: 276 QGRFLGEITKQVFSDLEASKYQMAEYRISI 305


>d1yx1a1 c.1.15.7 (A:3-252) Hypothetical protein PA2260
          {Pseudomonas aeruginosa [TaxId: 287]}
          Length = 250

 Score = 26.7 bits (58), Expect = 0.87
 Identities = 10/31 (32%), Positives = 12/31 (38%), Gaps = 1/31 (3%)

Query: 11 FVADGVFFAELNEVLTRELAEDGYSGVEVRV 41
          + AD V        L   LA  G   VE+R 
Sbjct: 11 YGADLVRSRGQASFL-PLLAMAGAQRVELRE 40


>d1ihna_ c.103.1.1 (A:) Hypothetical protein MT938 (MTH938)
           {Archaeon Methanobacterium thermoautotrophicum [TaxId:
           145262]}
          Length = 113

 Score = 24.1 bits (52), Expect = 5.3
 Identities = 7/31 (22%), Positives = 9/31 (29%), Gaps = 7/31 (22%)

Query: 36  GVEVRVTPVRTEIIIRATRTQNVLGEKGRRI 66
              V  T         A +  N     GRR+
Sbjct: 82  DATVLPTC-------EAIKRYNEERSAGRRV 105


>d2q4qa1 c.103.1.1 (A:2-122) Hypothetical protein PTD015 (C11orf67)
           {Human (Homo sapiens) [TaxId: 9606]}
          Length = 121

 Score = 23.7 bits (51), Expect = 7.0
 Identities = 10/41 (24%), Positives = 15/41 (36%), Gaps = 7/41 (17%)

Query: 26  TRELAEDGYSGVEVRVTPVRTEIIIRATRTQNVLGEKGRRI 66
           T E  +     V V  T        +A +  N L  +G R+
Sbjct: 80  TVEYLKKHGIDVRVLQTE-------QAVKEYNALVAQGVRV 113


>d2ctka1 d.51.1.1 (A:8-98) Vigilin {Human (Homo sapiens) [TaxId:
          9606]}
          Length = 91

 Score = 23.2 bits (50), Expect = 7.6
 Identities = 10/40 (25%), Positives = 18/40 (45%)

Query: 42 TPVRTEIIIRATRTQNVLGEKGRRIRELTSVVQKRFKFPE 81
           PV  E+ +     + V+G+KG  IR++    +     P 
Sbjct: 8  VPVTIEVEVPFDLHRYVIGQKGSGIRKMMDEFEVNIHVPA 47


>d1we8a_ d.51.1.1 (A:) Tudor and KH domain containing protein,
          Tdrkh {Mouse (Mus musculus) [TaxId: 10090]}
          Length = 104

 Score = 23.4 bits (50), Expect = 7.9
 Identities = 10/50 (20%), Positives = 19/50 (38%)

Query: 33 GYSGVEVRVTPVRTEIIIRATRTQNVLGEKGRRIRELTSVVQKRFKFPEN 82
          G SG+    TPV  ++ +       ++G  G  IR +      +    + 
Sbjct: 4  GSSGILTENTPVFEQLSVPQRSVGRIIGRGGETIRSICKASGAKITCDKE 53


  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
   0.322    0.137    0.368 

Gapped
Lambda     K      H
   0.267   0.0622    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 466,564
Number of extensions: 19724
Number of successful extensions: 78
Number of sequences better than 10.0: 1
Number of HSP's gapped: 78
Number of HSP's successfully gapped: 24
Length of query: 137
Length of database: 2,407,596
Length adjustment: 76
Effective length of query: 61
Effective length of database: 1,364,116
Effective search space: 83211076
Effective search space used: 83211076
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 (21.9 bits)
S2: 48 (22.5 bits)