RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy11598
         (457 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 = 31.1 bits (70), Expect = 0.082
 Identities = 18/104 (17%), Positives = 35/104 (33%), Gaps = 14/104 (13%)

Query: 265 YTDGSKNDNFTGGAY--ILNETIEQFQLNQIASIYTAELMAIDLCLNAILTYVQNNFCFK 322
           Y DG+ N     G    + N   ++       +    EL AI L L              
Sbjct: 12  YVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTELQAIYLALQD---------SGL 62

Query: 323 DFVICSDSKSSLQALKFNLNDSFKRWEEIWTQNAVLGRQLRQIK 366
           +  I +DS+ +L  ++   +   +   E+  Q      +  ++ 
Sbjct: 63  EVNIVTDSQYALGIIQAQPD---QSESELVNQIIEQLIKKEKVY 103


>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 = 27.2 bits (59), Expect = 2.5
 Identities = 15/100 (15%), Positives = 31/100 (31%), Gaps = 11/100 (11%)

Query: 265 YTDGSKNDN--FTGGAYILNETIEQFQLNQIASIYTAELMAIDLCLNAILTYVQNNFCFK 322
           YTDGS N         Y+ +   ++ +  +  +   AEL A           +       
Sbjct: 11  YTDGSCNRQSKEGKAGYVTDRGKDKVKKLEQTTNQQAELEAF---------AMALTDSGP 61

Query: 323 DFVICSDSKSSLQALKFNLNDSFKRWEEIWTQNAVLGRQL 362
              I  DS+  +  +     +S  +      +  +    +
Sbjct: 62  KVNIIVDSQYVMGIVASQPTESESKIVNQIIEEMIKKEAI 101


  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
   0.324    0.136    0.427 

Gapped
Lambda     K      H
   0.267   0.0635    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 1,719,743
Number of extensions: 80967
Number of successful extensions: 237
Number of sequences better than 10.0: 1
Number of HSP's gapped: 237
Number of HSP's successfully gapped: 6
Length of query: 457
Length of database: 2,407,596
Length adjustment: 88
Effective length of query: 369
Effective length of database: 1,199,356
Effective search space: 442562364
Effective search space used: 442562364
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 54 (24.8 bits)