RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy2786
         (198 letters)



>d1mu2a1 c.55.3.1 (A:430-555) HIV RNase H (Domain of reverse
           transcriptase) {Human immunodeficiency virus type 2
           [TaxId: 11709]}
          Length = 126

 Score = 34.9 bits (79), Expect = 0.002
 Identities = 11/77 (14%), Positives = 24/77 (31%), Gaps = 5/77 (6%)

Query: 1   MSYAVKIASCPANPTYSLLFPDNIDADIY-----PPNKPKPLCLRVHLLCYGKQLAFLWC 55
                   +   +     +  D+             ++ K +   +  +   + +   W 
Sbjct: 47  AELEAFAMALTDSGPKVNIIVDSQYVMGIVASQPTESESKIVNQIIEEMIKKEAIYVAWV 106

Query: 56  PSHTGIQGNEAVDRAAR 72
           P+H GI GN+ VD    
Sbjct: 107 PAHKGIGGNQEVDHLVS 123


>d1rila_ c.55.3.1 (A:) RNase H (RNase HI) {Thermus thermophilus
           [TaxId: 274]}
          Length = 147

 Score = 33.0 bits (74), Expect = 0.009
 Identities = 12/34 (35%), Positives = 16/34 (47%)

Query: 40  RVHLLCYGKQLAFLWCPSHTGIQGNEAVDRAARN 73
            + L     ++ F +   HTG   NE VDR AR 
Sbjct: 106 ALLLAMAPHRVRFHFVKGHTGHPENERVDREARR 139


>d1jl1a_ c.55.3.1 (A:) RNase H (RNase HI) {Escherichia coli [TaxId:
           562]}
          Length = 152

 Score = 32.3 bits (72), Expect = 0.020
 Identities = 9/31 (29%), Positives = 11/31 (35%)

Query: 42  HLLCYGKQLAFLWCPSHTGIQGNEAVDRAAR 72
                  Q+ + W   H G   NE  D  AR
Sbjct: 106 DAALGQHQIKWEWVKGHAGHPENERADELAR 136


>d2gycd1 d.77.1.1 (D:2-178) Ribosomal protein L5 {Escherichia coli
           [TaxId: 562]}
          Length = 177

 Score = 24.9 bits (54), Expect = 5.5
 Identities = 11/77 (14%), Positives = 24/77 (31%), Gaps = 3/77 (3%)

Query: 95  KLIKDLWQNSWSNIPNCNKLKSIKPVIGPWPSSDRQNRHEEVVICRMRIGHTRATHGHLF 154
           KL+ +   NS   +P   +++ I   +G   +   +   +        I   +       
Sbjct: 13  KLMTEFNYNSVMQVP---RVEKITLNMGVGEAIADKKLLDNAAADLAAISGQKPLITKAR 69

Query: 155 KRAPPSTCRCGETLSVQ 171
           K       R G  +  +
Sbjct: 70  KSVAGFKIRQGYPIGCK 86


>d1dcea2 b.7.4.1 (A:242-350) Rab geranylgeranyltransferase
           alpha-subunit, insert domain {Rat (Rattus norvegicus)
           [TaxId: 10116]}
          Length = 109

 Score = 24.1 bits (52), Expect = 6.6
 Identities = 7/22 (31%), Positives = 11/22 (50%)

Query: 118 KPVIGPWPSSDRQNRHEEVVIC 139
            P+   W + D +NR   V +C
Sbjct: 40  APLSVEWRTPDGRNRPSHVWLC 61


  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    0.137    0.456 

Gapped
Lambda     K      H
   0.267   0.0608    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 800,530
Number of extensions: 37025
Number of successful extensions: 87
Number of sequences better than 10.0: 1
Number of HSP's gapped: 87
Number of HSP's successfully gapped: 9
Length of query: 198
Length of database: 2,407,596
Length adjustment: 81
Effective length of query: 117
Effective length of database: 1,295,466
Effective search space: 151569522
Effective search space used: 151569522
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: 50 (23.3 bits)