RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy5607
         (769 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 = 36.8 bits (84), Expect = 0.002
 Identities = 14/73 (19%), Positives = 32/73 (43%), Gaps = 4/73 (5%)

Query: 637 CIYLPHSKFLLVSDSMSAIQAIANICSSYKNSLTSKIYSAWMDLKSGGKEVTLMWCPSHC 696
            +     K  ++ DS   +  +A+  +  ++ + ++I    +      + + + W P+H 
Sbjct: 55  ALTDSGPKVNIIVDSQYVMGIVASQPTESESKIVNQIIEEMIK----KEAIYVAWVPAHK 110

Query: 697 GISGNEAVDMAAK 709
           GI GN+ VD    
Sbjct: 111 GIGGNQEVDHLVS 123


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

 Score = 32.7 bits (73), Expect = 0.072
 Identities = 15/95 (15%), Positives = 26/95 (27%), Gaps = 4/95 (4%)

Query: 621 VFQKHFLDAISSKYNDCIYLPHSKFLLVSDSMSAIQAIANICSSYKNSLTSKIYSAWMDL 680
           +     L+A+       +                        ++ K  + +      +D 
Sbjct: 48  MAAIVALEALKEHAEVILSTDSQYVRQGITQWIHNWKKRGWKTADKKPVKNVDLWQRLDA 107

Query: 681 KSGGKEVTLMWCPSHCGISGNEAVD----MAAKNP 711
             G  ++   W   H G   NE  D     AA NP
Sbjct: 108 ALGQHQIKWEWVKGHAGHPENERADELARAAAMNP 142


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

 Score = 30.3 bits (67), Expect = 0.45
 Identities = 7/22 (31%), Positives = 9/22 (40%)

Query: 689 LMWCPSHCGISGNEAVDMAAKN 710
             +   H G   NE VD  A+ 
Sbjct: 118 FHFVKGHTGHPENERVDREARR 139


>d1no7a_ e.48.1.1 (A:) Major capsid protein VP5 {Herpes simplex
           virus 1 [TaxId: 10298]}
          Length = 562

 Score = 29.8 bits (67), Expect = 1.3
 Identities = 12/60 (20%), Positives = 24/60 (40%), Gaps = 14/60 (23%)

Query: 395 ARNPTFPPLFY------NGSELKFESNIKFLGL----YWDAKMNWALHINHTKSRAMVAL 444
             +  +P +FY      +GSE  F +  + +      YW+     A  +N     ++V+ 
Sbjct: 135 FDDRNYPAVFYLLQAAIHGSEHVFCALARLVVQCITSYWNNTRCAAF-VN---DYSLVSY 190


>d1owla1 a.99.1.1 (A:205-475) C-terminal domain of DNA photolyase
           {Synechococcus elongatus [TaxId: 32046]}
          Length = 271

 Score = 27.3 bits (59), Expect = 6.2
 Identities = 13/104 (12%), Positives = 27/104 (25%)

Query: 641 PHSKFLLVSDSMSAIQAIANICSSYKNSLTSKIYSAWMDLKSGGKEVTLMWCPSHCGISG 700
           P  KF  +    +   A A    S  +   + I     +L         ++         
Sbjct: 41  PALKFGAIGIRQAWQAASAAHALSRSDEARNSIRVWQQELAWREFYQHALYHFPSLADGP 100

Query: 701 NEAVDMAAKNPCTSTQPLKLCSACDFKPLVAKIIHNMWQTSWNN 744
             ++                  A    P+V   +  + +T W +
Sbjct: 101 YRSLWQQFPWENREALFTAWTQAQTGYPIVDAAMRQLTETGWMH 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
   0.321    0.136    0.420 

Gapped
Lambda     K      H
   0.267   0.0640    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 2,960,335
Number of extensions: 143676
Number of successful extensions: 299
Number of sequences better than 10.0: 1
Number of HSP's gapped: 299
Number of HSP's successfully gapped: 8
Length of query: 769
Length of database: 2,407,596
Length adjustment: 92
Effective length of query: 677
Effective length of database: 1,144,436
Effective search space: 774783172
Effective search space used: 774783172
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: 57 (25.9 bits)