RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy9737
         (368 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 = 34.9 bits (79), Expect = 0.004
 Identities = 12/58 (20%), Positives = 20/58 (34%), Gaps = 2/58 (3%)

Query: 142 KYDCSSFQAISNLYHPNPLVKEIQERSSNSQISFKFLWCPSHVGISGNDQADAEAKKA 199
           +Y      +         + + I+E      I     W P+H GI GN + D    + 
Sbjct: 70  QYVMGIVASQPTESESKIVNQIIEEMIKKEAIYVA--WVPAHKGIGGNQEVDHLVSQG 125


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

 Score = 34.2 bits (77), Expect = 0.008
 Identities = 7/30 (23%), Positives = 14/30 (46%)

Query: 170 NSQISFKFLWCPSHVGISGNDQADAEAKKA 199
            +    +F +   H G   N++ D EA++ 
Sbjct: 111 MAPHRVRFHFVKGHTGHPENERVDREARRQ 140


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

 Score = 33.8 bits (76), Expect = 0.012
 Identities = 10/29 (34%), Positives = 14/29 (48%)

Query: 175 FKFLWCPSHVGISGNDQADAEAKKATSEP 203
            K+ W   H G   N++AD  A+ A   P
Sbjct: 114 IKWEWVKGHAGHPENERADELARAAAMNP 142


>d1w6va1 d.324.1.1 (A:1-120) Ubiquitin carboxyl-terminal hydrolase
           15 {Human (Homo sapiens) [TaxId: 9606]}
          Length = 120

 Score = 25.7 bits (56), Expect = 5.1
 Identities = 12/55 (21%), Positives = 20/55 (36%), Gaps = 3/55 (5%)

Query: 173 ISFKFL--WCPSHVGISGNDQADAEAKKATSEPITNHSLLLDEIKSLTKKHFYQK 225
           +  ++   W   +VG    D+     +     PI N  LL D      K+H   +
Sbjct: 33  VDSRWFKQWK-KYVGFDSWDKYQMGDQNVYPGPIDNSGLLKDGDAQSLKEHLIDE 86


>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia
           pestis [TaxId: 632]}
          Length = 353

 Score = 26.3 bits (56), Expect = 6.8
 Identities = 24/129 (18%), Positives = 37/129 (28%), Gaps = 7/129 (5%)

Query: 215 KSLTKKHFYQKWNTTWSNINPSENKLRRIKSTTTPWKTSSQKARLDEVCLMRMRIGHTKI 274
             LT  +       T  ++ PS   L    +  T      Q     +V            
Sbjct: 204 PFLTTIYADNNLLKTLPDLPPSLEALNVRDNYLTDLPELPQSLTFLDVSENIFSGLSELP 263

Query: 275 THSHLFKREERPICDSCHEPLTVEHIILHCNKLRFRPPSF--LEESTQDILSDQYGQLDT 332
            + +        I   C  P ++E + +  NKL   P     LE      L   +  L  
Sbjct: 264 PNLYYLNASSNEIRSLCDLPPSLEELNVSNNKLIELPALPPRLER-----LIASFNHLAE 318

Query: 333 VNNLNDSLT 341
           V  L  +L 
Sbjct: 319 VPELPQNLK 327


>d1aono_ b.35.1.1 (O:) Chaperonin-10 (GroES) {Escherichia coli
          [TaxId: 562]}
          Length = 97

 Score = 24.4 bits (53), Expect = 9.8
 Identities = 7/38 (18%), Positives = 14/38 (36%), Gaps = 2/38 (5%)

Query: 64 GKYEVGDEVRGVEYEVGDEVRGGKYEVGNEVR--GGKY 99
          G+     EV+ ++ +VGD V           +    + 
Sbjct: 46 GRILENGEVKPLDVKVGDIVIFNDGYGVKSEKIDNEEV 83


  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
   0.314    0.134    0.403 

Gapped
Lambda     K      H
   0.267   0.0534    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 1,390,354
Number of extensions: 65551
Number of successful extensions: 122
Number of sequences better than 10.0: 1
Number of HSP's gapped: 122
Number of HSP's successfully gapped: 10
Length of query: 368
Length of database: 2,407,596
Length adjustment: 87
Effective length of query: 281
Effective length of database: 1,213,086
Effective search space: 340877166
Effective search space used: 340877166
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: 42 (22.0 bits)
S2: 53 (24.6 bits)