RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy16263
         (112 letters)



>d1vi6a_ c.23.15.1 (A:) Ribosomal protein S2 {Archaeon
          Archaeoglobus fulgidus [TaxId: 2234]}
          Length = 193

 Score = 42.7 bits (100), Expect = 1e-06
 Identities = 14/78 (17%), Positives = 29/78 (37%), Gaps = 3/78 (3%)

Query: 15 VTKMLGAQTHIGSENSDYQMEQYVYKRRNDGEIFVLVICYRVSLILCNNIWQHMAELLDG 74
              L A  HIG++     M+++++K R DG   + V+  R          + ++     
Sbjct: 8  PDDYLAAGVHIGTQIKTGDMKKFIFKVRQDG---LYVLDIRKLDERIRVAAKFLSRYEPS 64

Query: 75 SKQVWWFHGQVLEVLTMF 92
             +        + + MF
Sbjct: 65 KILLVAARQYAHKPVQMF 82


>d2uubb1 c.23.15.1 (B:7-240) Ribosomal protein S2 {Thermus
          thermophilus [TaxId: 274]}
          Length = 234

 Score = 32.4 bits (73), Expect = 0.007
 Identities = 12/70 (17%), Positives = 28/70 (40%), Gaps = 6/70 (8%)

Query: 15 VTKMLGAQTHIG--SENSDYQMEQYVYKRRNDGEIFVLVICYRVSLILCNNIWQHMAELL 72
          V ++L A  H G   +  + +  +Y+Y  RN   I  L    + ++      ++ + +L 
Sbjct: 1  VKELLEAGVHFGHERKRWNPKFARYIYAERNGIHIIDL----QKTMEELERTFRFIEDLA 56

Query: 73 DGSKQVWWFH 82
               + +  
Sbjct: 57 MRGGTILFVG 66


>d2gy9b1 c.23.15.1 (B:8-225) Ribosomal protein S2 {Escherichia
          coli [TaxId: 562]}
          Length = 218

 Score = 29.7 bits (66), Expect = 0.058
 Identities = 11/67 (16%), Positives = 27/67 (40%), Gaps = 6/67 (8%)

Query: 18 MLGAQTHIG--SENSDYQMEQYVYKRRNDGEIFVLVICYRVSLILCNNIWQHMAELLDGS 75
          ML A  H G  +   + +M+ +++  RN   I  L      ++ + N     + ++    
Sbjct: 1  MLKAGVHFGHQTRYWNPKMKPFIFGARNKVHIINL----EKTVPMFNEALAELNKIASRK 56

Query: 76 KQVWWFH 82
           ++ +  
Sbjct: 57 GKILFVG 63


>d1oq1a_ b.29.1.17 (A:) Hypothetical protein YesU {Bacillus subtilis
           [TaxId: 1423]}
          Length = 223

 Score = 25.1 bits (54), Expect = 2.0
 Identities = 5/71 (7%), Positives = 22/71 (30%)

Query: 26  GSENSDYQMEQYVYKRRNDGEIFVLVICYRVSLILCNNIWQHMAELLDGSKQVWWFHGQV 85
             + ++ +  +    R++ G     +    +      +    M  + D     +  +G  
Sbjct: 121 RRKYAEERAFRTCNLRKSRGFHLAAMGADPLPSPDDADSPYRMKLIKDKGYVHFSINGLP 180

Query: 86  LEVLTMFHNSW 96
           +       +++
Sbjct: 181 ILEWMDDGSTY 191


>d1yhta1 c.1.8.6 (A:16-359) Dispersin B, DspB {Actinobacillus
           actinomycetemcomitans [TaxId: 714]}
          Length = 344

 Score = 24.8 bits (53), Expect = 3.0
 Identities = 5/33 (15%), Positives = 14/33 (42%)

Query: 9   SLKEDDVTKMLGAQTHIGSENSDYQMEQYVYKR 41
             +  +  ++ GA   I  E++    ++ + K 
Sbjct: 298 KNRVQNTHEIAGAALSIWGEDAKALKDETIQKN 330


>d2duca1 b.47.1.4 (A:2-301) Coronavirus main proteinase (3Cl-pro,
           putative coronavirus nsp2) {SARS coronavirus [TaxId:
           227859]}
          Length = 300

 Score = 24.4 bits (53), Expect = 3.6
 Identities = 8/38 (21%), Positives = 17/38 (44%)

Query: 17  KMLGAQTHIGSENSDYQMEQYVYKRRNDGEIFVLVICY 54
            M      +  + S+ +  +Y + R   G+ F ++ CY
Sbjct: 80  SMQNCLLRLKVDTSNPKTPKYKFVRIQPGQTFSVLACY 117


>d1p9sa_ b.47.1.4 (A:) Coronavirus main proteinase (3Cl-pro,
           putative coronavirus nsp2) {Human coronavirus 229E
           [TaxId: 11137]}
          Length = 300

 Score = 24.0 bits (52), Expect = 5.0
 Identities = 8/38 (21%), Positives = 16/38 (42%)

Query: 17  KMLGAQTHIGSENSDYQMEQYVYKRRNDGEIFVLVICY 54
            M G    I    ++    ++ ++    GE F ++ CY
Sbjct: 80  TMHGVTLKIKVSQTNMHTPRHSFRTLKSGEGFNILACY 117


>d1lvoa_ b.47.1.4 (A:) Coronavirus main proteinase (3Cl-pro,
           putative coronavirus nsp2) {Transmissible
           gastroenteritis virus [TaxId: 11149]}
          Length = 299

 Score = 23.6 bits (51), Expect = 6.2
 Identities = 7/38 (18%), Positives = 15/38 (39%)

Query: 17  KMLGAQTHIGSENSDYQMEQYVYKRRNDGEIFVLVICY 54
           +  G    +     +    ++ +K    GE F ++ CY
Sbjct: 80  RYKGVNLVLKVNQVNPNTPEHKFKSIKAGESFNILACY 117


>d1uw4b_ a.118.1.14 (B:) Regulator of nonsense transcripts 2, UPF2
           {Human (Homo sapiens) [TaxId: 9606]}
          Length = 248

 Score = 23.8 bits (51), Expect = 7.0
 Identities = 9/67 (13%), Positives = 22/67 (32%), Gaps = 1/67 (1%)

Query: 7   ILSLKEDDVTKMLGAQTHIGSENSDYQMEQYVYKRRNDGEIFVLVICYRVSLILCNNIWQ 66
            L L ++DV   +     +       ++ Q  + +R       L   Y   ++    I++
Sbjct: 66  GLVLYQEDVGIHVVDGV-LEDIRLGMEVNQPKFNQRRISSAKFLGELYNYRMVESAVIFR 124

Query: 67  HMAELLD 73
            +     
Sbjct: 125 TLYSFTS 131


  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    0.135    0.421 

Gapped
Lambda     K      H
   0.267   0.0527    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 425,463
Number of extensions: 16795
Number of successful extensions: 32
Number of sequences better than 10.0: 1
Number of HSP's gapped: 31
Number of HSP's successfully gapped: 11
Length of query: 112
Length of database: 2,407,596
Length adjustment: 71
Effective length of query: 41
Effective length of database: 1,432,766
Effective search space: 58743406
Effective search space used: 58743406
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: 47 (22.4 bits)