RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy7629
         (468 letters)



>d1s1ta1 c.55.3.1 (A:430-539) HIV RNase H (Domain of reverse
           transcriptase) {Human immunodeficiency virus type 1
           [TaxId: 11676]}
          Length = 110

 Score = 41.1 bits (96), Expect = 2e-05
 Identities = 20/82 (24%), Positives = 27/82 (32%), Gaps = 6/82 (7%)

Query: 307 PSDDWLHIYTDGSLINPEDGAGAGIFCELFSFYKRLGTFTTNFDGEIAAIKIALLQILNR 366
           P       Y DG+         AG             T TTN   E+ AI +AL      
Sbjct: 4   PIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTELQAIYLALQDSG-- 61

Query: 367 TNQFERAVILSDSKAAIQSITN 388
                   I++DS+ A+  I  
Sbjct: 62  ----LEVNIVTDSQYALGIIQA 79


>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 = 36.0 bits (82), Expect = 0.002
 Identities = 17/82 (20%), Positives = 28/82 (34%), Gaps = 6/82 (7%)

Query: 307 PSDDWLHIYTDGSLINPEDGAGAGIFCELFSFYKRLGTFTTNFDGEIAAIKIALLQILNR 366
           P       YTDGS         AG   +      +    TTN   E+ A        +  
Sbjct: 3   PIPGAETFYTDGSCNRQSKEGKAGYVTDRGKDKVKKLEQTTNQQAELEAF------AMAL 56

Query: 367 TNQFERAVILSDSKAAIQSITN 388
           T+   +  I+ DS+  +  + +
Sbjct: 57  TDSGPKVNIIVDSQYVMGIVAS 78


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

 Score = 29.1 bits (64), Expect = 0.61
 Identities = 18/109 (16%), Positives = 31/109 (28%), Gaps = 3/109 (2%)

Query: 313 HIYTDGS-LINPEDGAGAGIFCELFSFYKRLGTFTTNFDGEIAAIKIALLQILNRTNQFE 371
            ++TDG+ L NP  G G        +  K L                A ++ L    +  
Sbjct: 5   ALFTDGACLGNPGPG-GWAALLRFHAHEKLLSGGEACTTN-NRMELKAAIEGLKALKEPC 62

Query: 372 RAVILSDSKAAIQSITNCSEDPSIKHNKRLRNEGQGKKWQQILNTHDII 420
              + +DS    ++ T    +   K   R       K           +
Sbjct: 63  EVDLYTDSHYLKKAFTEGWLEGWRKRGWRTAEGKPVKNRDLWEALLLAM 111


  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
   0.315    0.130    0.371 

Gapped
Lambda     K      H
   0.267   0.0686    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 1,668,816
Number of extensions: 76902
Number of successful extensions: 116
Number of sequences better than 10.0: 1
Number of HSP's gapped: 116
Number of HSP's successfully gapped: 7
Length of query: 468
Length of database: 2,407,596
Length adjustment: 89
Effective length of query: 379
Effective length of database: 1,185,626
Effective search space: 449352254
Effective search space used: 449352254
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 55 (25.1 bits)