RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy17815
         (599 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 = 38.4 bits (88), Expect = 4e-04
 Identities = 26/120 (21%), Positives = 41/120 (34%), Gaps = 8/120 (6%)

Query: 341 FTDGS--KTIQNTSCAVYAGGSAKSYILNNINSIFTAELLALVFCLDSVKNRPDVNTLIV 398
           +TDGS  +  +                     +   AEL A    L            I+
Sbjct: 11  YTDGSCNRQSKEGKAGYVTDRGKDKVKKLEQTTNQQAELEAFAMALTDSGP----KVNII 66

Query: 399 CDSMSALTSIANKNTSIPLIAHILNTWHTLKSCGKKVAFLWCPSHTGISGNEIVDRATRQ 458
            DS   +  +A++ T     + I+N         + +   W P+H GI GN+ VD    Q
Sbjct: 67  VDSQYVMGIVASQPTESE--SKIVNQIIEEMIKKEAIYVAWVPAHKGIGGNQEVDHLVSQ 124


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

 Score = 36.1 bits (82), Expect = 0.004
 Identities = 28/136 (20%), Positives = 43/136 (31%), Gaps = 21/136 (15%)

Query: 341 FTDGSKTIQNTSCAVYA------GGSAKSYILNNINSIFTAELLALVFCLDSVKNRPDVN 394
           FTDG+  + N     +A                   +    EL A +  L ++K   +V+
Sbjct: 7   FTDGA-CLGNPGPGGWAALLRFHAHEKLLSGGEACTTNNRMELKAAIEGLKALKEPCEVD 65

Query: 395 TLIVCDSMSALTSIAN------------KNTSIPLIAHILNTWHTLKSCGKKVAFLWCPS 442
             +  DS     +                    P+    L     L     +V F +   
Sbjct: 66  --LYTDSHYLKKAFTEGWLEGWRKRGWRTAEGKPVKNRDLWEALLLAMAPHRVRFHFVKG 123

Query: 443 HTGISGNEIVDRATRQ 458
           HTG   NE VDR  R+
Sbjct: 124 HTGHPENERVDREARR 139


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

 Score = 32.7 bits (73), Expect = 0.060
 Identities = 7/34 (20%), Positives = 10/34 (29%)

Query: 425 WHTLKSCGKKVAFLWCPSHTGISGNEIVDRATRQ 458
                    ++ + W   H G   NE  D   R 
Sbjct: 104 RLDAALGQHQIKWEWVKGHAGHPENERADELARA 137


  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    0.415 

Gapped
Lambda     K      H
   0.267   0.0601    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 2,211,204
Number of extensions: 102426
Number of successful extensions: 260
Number of sequences better than 10.0: 1
Number of HSP's gapped: 260
Number of HSP's successfully gapped: 8
Length of query: 599
Length of database: 2,407,596
Length adjustment: 90
Effective length of query: 509
Effective length of database: 1,171,896
Effective search space: 596495064
Effective search space used: 596495064
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: 56 (25.6 bits)