RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy556
         (435 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 = 41.8 bits (97), Expect = 2e-05
 Identities = 11/49 (22%), Positives = 23/49 (46%)

Query: 252 LTPPWSDDMSEVIDLWRNLTSNNIKLTFIWCPSHCGIEGNEEVDRAANR 300
           +    ++  S++++           +   W P+H GI GN+EVD   ++
Sbjct: 76  VASQPTESESKIVNQIIEEMIKKEAIYVAWVPAHKGIGGNQEVDHLVSQ 124


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

 Score = 42.2 bits (98), Expect = 2e-05
 Identities = 17/88 (19%), Positives = 24/88 (27%), Gaps = 4/88 (4%)

Query: 217 IYEFTRTPKPLFVRFRAIEAY----VQELDRCDMMEYKDLTPPWSDDMSEVIDLWRNLTS 272
           I       +P  V       Y      E       +    T       +  +     L  
Sbjct: 52  IEGLKALKEPCEVDLYTDSHYLKKAFTEGWLEGWRKRGWRTAEGKPVKNRDLWEALLLAM 111

Query: 273 NNIKLTFIWCPSHCGIEGNEEVDRAANR 300
              ++ F +   H G   NE VDR A R
Sbjct: 112 APHRVRFHFVKGHTGHPENERVDREARR 139


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

 Score = 36.1 bits (82), Expect = 0.002
 Identities = 7/34 (20%), Positives = 11/34 (32%)

Query: 267 WRNLTSNNIKLTFIWCPSHCGIEGNEEVDRAANR 300
             +      ++ + W   H G   NE  D  A  
Sbjct: 104 RLDAALGQHQIKWEWVKGHAGHPENERADELARA 137


>d2io8a3 d.142.1.8 (A:201-378,A:497-615) Glutathionylspermidine
           synthase, synthetase domain {Escherichia coli [TaxId:
           562]}
          Length = 297

 Score = 29.8 bits (67), Expect = 0.62
 Identities = 19/121 (15%), Positives = 41/121 (33%), Gaps = 16/121 (13%)

Query: 244 CDMMEYKDLTPPWSDDMSEVIDLWRNLTSNNIKLTFIW--CPSH-----CGIEGNEEVDR 296
            +     +   P    ++E+   W++  +N   L  +W   P H          N+E+ +
Sbjct: 150 AEQGYKGNGFNPAEGLINELAGAWKHSRANKAILPILWSLFPHHRYLLDTDFTVNDELVK 209

Query: 297 -------AANRDGHTQAINICSPDDLKTMVKKLAYNNWQVLWNQTDPLNKLKQIKPIIST 349
                   A R G    I++ S  +         +   + ++ Q   L K+      + T
Sbjct: 210 TGYAVKPIAGRCGSN--IDLVSHHEEVLDKTSGKFAEQKNIYQQLWCLPKVDGKYIQVCT 267

Query: 350 W 350
           +
Sbjct: 268 F 268


>d2ar0a1 c.66.1.45 (A:6-529) M.EcoKI {Escherichia coli [TaxId: 562]}
          Length = 524

 Score = 26.1 bits (56), Expect = 9.4
 Identities = 12/119 (10%), Positives = 29/119 (24%), Gaps = 14/119 (11%)

Query: 181 IRRQKLLLNYVTKISACPSNPVYNILFPTS---LRRRLGIYEFTRTPKPLFVRFRAIEAY 237
           IRR  +   ++  I   P+   Y     T+     +               V    +   
Sbjct: 321 IRRDLMDKCHLHTILRLPTGIFYAQGVKTNVLFFTKGTVANPNQDKNCTDDVWVYDLRTN 380

Query: 238 VQELDRCDMMEYKDLTPPWSDDMSEVIDLWRNLTSNNIKLT---FIWCPSHCGIEGNEE 293
           +    +         T    + +     ++          T   + +      +  +EE
Sbjct: 381 MPSFGK-----RTPFTD---EHLQPFERVYGEDPHGLSPRTEGEWSFNAEETEVADSEE 431


  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    0.419 

Gapped
Lambda     K      H
   0.267   0.0630    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 1,653,773
Number of extensions: 78558
Number of successful extensions: 154
Number of sequences better than 10.0: 1
Number of HSP's gapped: 154
Number of HSP's successfully gapped: 6
Length of query: 435
Length of database: 2,407,596
Length adjustment: 88
Effective length of query: 347
Effective length of database: 1,199,356
Effective search space: 416176532
Effective search space used: 416176532
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: 54 (24.8 bits)