RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= 028836
         (203 letters)



>d2gy9m1 a.156.1.1 (M:1-114) Ribosomal protein S13 {Escherichia coli
           [TaxId: 562]}
          Length = 114

 Score = 26.7 bits (59), Expect = 1.1
 Identities = 15/35 (42%), Positives = 20/35 (57%), Gaps = 2/35 (5%)

Query: 101 LPDLTKAVSELTVLKGVGPATASAVLAAYAPGVAP 135
           +PD   AV  LT + GVG   + A+LAA   G+A 
Sbjct: 8   IPDHKHAVIALTSIYGVGKTRSKAILAAA--GIAE 40


>d1kfta_ a.60.2.3 (A:) Excinuclease UvrC C-terminal domain
           {Escherichia coli [TaxId: 562]}
          Length = 56

 Score = 25.5 bits (56), Expect = 1.3
 Identities = 7/21 (33%), Positives = 10/21 (47%)

Query: 109 SELTVLKGVGPATASAVLAAY 129
           S L  ++GVGP     +L   
Sbjct: 2   SSLETIEGVGPKRRQMLLKYM 22


>d2uubm1 a.156.1.1 (M:2-126) Ribosomal protein S13 {Thermus
           thermophilus [TaxId: 274]}
          Length = 125

 Score = 25.9 bits (57), Expect = 1.9
 Identities = 8/29 (27%), Positives = 12/29 (41%)

Query: 101 LPDLTKAVSELTVLKGVGPATASAVLAAY 129
           +P   +    LT + G+G A A   L   
Sbjct: 8   IPRNKRVDVALTYIYGIGKARAKEALEKT 36


>d2edua1 a.60.2.7 (A:8-98) KIF22, C-terminal domain {Human (Homo
           sapiens) [TaxId: 9606]}
          Length = 91

 Score = 25.6 bits (56), Expect = 2.1
 Identities = 11/43 (25%), Positives = 18/43 (41%), Gaps = 2/43 (4%)

Query: 99  KSLPDLTKA-VSELTVLKGVGPATASAVLAAYAPGVAPFMSDE 140
           K L  L +    +L  L+ +GP  A  ++  +     PF   E
Sbjct: 22  KILDLLNEGSARDLRSLQRIGPKKAQLIV-GWRELHGPFSQVE 63


>d1gm5a2 b.40.4.9 (A:106-285) RecG "wedge" domain {Thermotoga
           maritima [TaxId: 2336]}
          Length = 180

 Score = 26.3 bits (57), Expect = 2.5
 Identities = 5/16 (31%), Positives = 8/16 (50%)

Query: 109 SELTVLKGVGPATASA 124
           +++   KGVGP     
Sbjct: 10  TDIQYAKGVGPNRKKK 25


>d2duya1 a.60.2.7 (A:11-75) Uncharacterized protein TTHA1967
           {Thermus thermophilus [TaxId: 274]}
          Length = 65

 Score = 23.5 bits (51), Expect = 5.8
 Identities = 9/26 (34%), Positives = 14/26 (53%), Gaps = 1/26 (3%)

Query: 103 DLTKA-VSELTVLKGVGPATASAVLA 127
            L +A + EL  L G+GP  A  ++ 
Sbjct: 10  SLNEASLEELMALPGIGPVLARRIVE 35


>d2fmpa2 a.60.12.1 (A:92-148) DNA polymerase beta {Human (Homo
           sapiens) [TaxId: 9606]}
          Length = 57

 Score = 23.4 bits (51), Expect = 6.6
 Identities = 7/20 (35%), Positives = 14/20 (70%)

Query: 103 DLTKAVSELTVLKGVGPATA 122
           D + +++ LT + G+GP+ A
Sbjct: 1   DTSSSINFLTRVSGIGPSAA 20


>d2fmpa1 a.60.6.1 (A:10-91) DNA polymerase beta, N-terminal (8
           kD)-domain {Human (Homo sapiens) [TaxId: 9606]}
          Length = 82

 Score = 23.6 bits (51), Expect = 7.8
 Identities = 8/30 (26%), Positives = 11/30 (36%)

Query: 96  KAFKSLPDLTKAVSELTVLKGVGPATASAV 125
                 P   K+ +E   L GVG   A  +
Sbjct: 35  SVIAKYPHKIKSGAEAKKLPGVGTKIAEKI 64


>d3bzka1 a.60.2.6 (A:474-563) Transcriptional accessory factor Tex
           {Pseudomonas aeruginosa [TaxId: 287]}
          Length = 90

 Score = 23.9 bits (52), Expect = 7.9
 Identities = 5/23 (21%), Positives = 11/23 (47%)

Query: 105 TKAVSELTVLKGVGPATASAVLA 127
           T + + L  + G+    A  ++A
Sbjct: 31  TASAALLARISGLNSTLAQNIVA 53


>d2axpa1 c.37.1.1 (A:2-165) Hypothetical protein YorR {Bacillus
           subtilis [TaxId: 1423]}
          Length = 164

 Score = 24.2 bits (52), Expect = 9.8
 Identities = 13/24 (54%), Positives = 16/24 (66%), Gaps = 3/24 (12%)

Query: 150 KDYSL---RQYLLFADKLQAKAKV 170
           KDYS+   RQ     DK++AKAKV
Sbjct: 74  KDYSILTERQLRFIEDKIKAKAKV 97


  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
   0.320    0.134    0.393 

Gapped
Lambda     K      H
   0.267   0.0692    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 710,335
Number of extensions: 29957
Number of successful extensions: 112
Number of sequences better than 10.0: 1
Number of HSP's gapped: 112
Number of HSP's successfully gapped: 13
Length of query: 203
Length of database: 2,407,596
Length adjustment: 81
Effective length of query: 122
Effective length of database: 1,295,466
Effective search space: 158046852
Effective search space used: 158046852
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: 51 (23.5 bits)