RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy10399
         (442 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 = 34.1 bits (77), Expect = 0.010
 Identities = 10/41 (24%), Positives = 17/41 (41%)

Query: 263 KMQLNQHTWLDLVACGKEISFMWCPSHCGISGNEAVDVAAK 303
                 +  ++ +   + I   W P+H GI GN+ VD    
Sbjct: 83  SESKIVNQIIEEMIKKEAIYVAWVPAHKGIGGNQEVDHLVS 123


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

 Score = 33.5 bits (75), Expect = 0.021
 Identities = 19/85 (22%), Positives = 28/85 (32%), Gaps = 9/85 (10%)

Query: 231 WQRPKMNHLLPAFKIDAMSDRLLEMKK---FTNNDKMQLNQHTWLDLVA--CGKEISFMW 285
                +      +    ++  +   KK    T + K   N   W  L A     +I + W
Sbjct: 59  EHAEVILSTDSQYVRQGITQWIHNWKKRGWKTADKKPVKNVDLWQRLDAALGQHQIKWEW 118

Query: 286 CPSHCGISGNEAVD----VAAKNPS 306
              H G   NE  D     AA NP+
Sbjct: 119 VKGHAGHPENERADELARAAAMNPT 143


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

 Score = 32.6 bits (73), Expect = 0.037
 Identities = 13/52 (25%), Positives = 18/52 (34%), Gaps = 2/52 (3%)

Query: 255 MKKFTNNDKMQLNQHTWLDLVACGKE--ISFMWCPSHCGISGNEAVDVAAKN 304
               T   K   N+  W  L+       + F +   H G   NE VD  A+ 
Sbjct: 88  RGWRTAEGKPVKNRDLWEALLLAMAPHRVRFHFVKGHTGHPENERVDREARR 139


>d2cx1a2 d.17.6.4 (A:1-90) Hypothetical protein APE0525,
          N-terminal domain {Archaeon Aeropyrum pernix [TaxId:
          56636]}
          Length = 90

 Score = 25.8 bits (56), Expect = 4.3
 Identities = 12/26 (46%), Positives = 18/26 (69%), Gaps = 1/26 (3%)

Query: 53 LESR-ISKNHVSSLLRSLRPYHPQLP 77
          LE+R +SK    SLL  L+PY+ ++P
Sbjct: 12 LEARALSKKERRSLLERLKPYYTRIP 37


>d1r7aa2 c.1.8.1 (A:1-434) Sucrose phosphorylase {Bifidobacterium
           adolescentis [TaxId: 1680]}
          Length = 434

 Score = 26.3 bits (56), Expect = 8.1
 Identities = 20/122 (16%), Positives = 39/122 (31%), Gaps = 12/122 (9%)

Query: 238 HLLPAFKIDAMSDRLLEMKKFTNNDKMQLNQH--TWLDLVACGKEISFM--WCPSHCGIS 293
           H+LP F     +D       F   D  ++++   +W D+    K  + M     +H    
Sbjct: 38  HILPFFTPFDGADA-----GFDPIDHTKVDERLGSWDDVAELSKTHNIMVDAIVNHMSWE 92

Query: 294 GNEAVDVAAKNPSPSFPPLKLCSASDYKPLIKKIVQRNWQSSWNSVPNGNKLKSIKPNIE 353
             +  DV AK     + P+ L  +S +        + +    +   P             
Sbjct: 93  SKQFQDVLAKGEESEYYPMFLTMSSVFPN---GATEEDLAGIYRPRPGLPFTHYKFAGKT 149

Query: 354 KW 355
           + 
Sbjct: 150 RL 151


  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    0.134    0.413 

Gapped
Lambda     K      H
   0.267   0.0548    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 1,661,455
Number of extensions: 77918
Number of successful extensions: 157
Number of sequences better than 10.0: 1
Number of HSP's gapped: 157
Number of HSP's successfully gapped: 5
Length of query: 442
Length of database: 2,407,596
Length adjustment: 88
Effective length of query: 354
Effective length of database: 1,199,356
Effective search space: 424572024
Effective search space used: 424572024
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 (21.8 bits)
S2: 54 (25.0 bits)