RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy12036
         (236 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 = 39.1 bits (90), Expect = 8e-05
 Identities = 16/84 (19%), Positives = 27/84 (32%), Gaps = 1/84 (1%)

Query: 13  TIHHMGIRLISRALKSSP-VNSLYAESAILPLSVRRRLLFSNIIAKQEYYFASTNGSQIS 71
           T     +   + AL  S    ++  +S  +   V  +   S      +          I 
Sbjct: 43  TNQQAELEAFAMALTDSGPKVNIIVDSQYVMGIVASQPTESESKIVNQIIEEMIKKEAIY 102

Query: 72  FMWIPSHSNIALNDKADQLAKNSI 95
             W+P+H  I  N + D L    I
Sbjct: 103 VAWVPAHKGIGGNQEVDHLVSQGI 126


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

 Score = 38.1 bits (87), Expect = 3e-04
 Identities = 11/43 (25%), Positives = 23/43 (53%)

Query: 59  EYYFASTNGSQISFMWIPSHSNIALNDKADQLAKNSINSKLLD 101
           +   A+    QI + W+  H+    N++AD+LA+ +  +  L+
Sbjct: 103 QRLDAALGQHQIKWEWVKGHAGHPENERADELARAAAMNPTLE 145


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

 Score = 37.2 bits (85), Expect = 5e-04
 Identities = 6/38 (15%), Positives = 17/38 (44%)

Query: 61  YFASTNGSQISFMWIPSHSNIALNDKADQLAKNSINSK 98
              +    ++ F ++  H+    N++ D+ A+    S+
Sbjct: 107 LLLAMAPHRVRFHFVKGHTGHPENERVDREARRQAQSQ 144


  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    0.133    0.388 

Gapped
Lambda     K      H
   0.267   0.0659    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 857,217
Number of extensions: 38529
Number of successful extensions: 94
Number of sequences better than 10.0: 1
Number of HSP's gapped: 94
Number of HSP's successfully gapped: 8
Length of query: 236
Length of database: 2,407,596
Length adjustment: 83
Effective length of query: 153
Effective length of database: 1,268,006
Effective search space: 194004918
Effective search space used: 194004918
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: 51 (23.6 bits)