RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy5156
         (389 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 = 40.3 bits (93), Expect = 6e-05
 Identities = 11/56 (19%), Positives = 20/56 (35%)

Query: 155 TYSSAQISIKFLWCPSHPCWYFWKRSSSQISIKFLWCPSHVGISGNDQADTEAKKA 210
            Y    ++ +     S       +    + +I   W P+H GI GN + D    + 
Sbjct: 70  QYVMGIVASQPTESESKIVNQIIEEMIKKEAIYVAWVPAHKGIGGNQEVDHLVSQG 125


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

 Score = 39.9 bits (92), Expect = 1e-04
 Identities = 12/87 (13%), Positives = 26/87 (29%), Gaps = 8/87 (9%)

Query: 124 KKVLIISDSLSSFQAISNLYHPNPLVKEIQETYSSAQISIKFLWCPSHPCWYFWKRSSSQ 183
            +V + +DS    +A +  +      +  +        +                R    
Sbjct: 62  CEVDLYTDSHYLKKAFTEGWLEGWRKRGWRTAEGKPVKNRDLWEALLLAMAPHRVR---- 117

Query: 184 ISIKFLWCPSHVGISGNDQADTEAKKA 210
               F +   H G   N++ D EA++ 
Sbjct: 118 ----FHFVKGHTGHPENERVDREARRQ 140


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

 Score = 38.1 bits (87), Expect = 4e-04
 Identities = 13/42 (30%), Positives = 18/42 (42%)

Query: 173 CWYFWKRSSSQISIKFLWCPSHVGISGNDQADTEAKKATSEP 214
            W     +  Q  IK+ W   H G   N++AD  A+ A   P
Sbjct: 101 LWQRLDAALGQHQIKWEWVKGHAGHPENERADELARAAAMNP 142


>d1bdga2 c.55.1.3 (A:223-460) Hexokinase {Blood fluke (Schistosoma
           mansoni) [TaxId: 6183]}
          Length = 237

 Score = 31.7 bits (72), Expect = 0.12
 Identities = 9/36 (25%), Positives = 17/36 (47%), Gaps = 4/36 (11%)

Query: 1   MLQNRFREILHENYKDFLKIYTDGSKDETGVGCALI 36
            + +   ++  +N +  L++  DGS    G G A I
Sbjct: 202 RMTDMVDKLKPKNTRFCLRLSEDGS----GKGAAAI 233


>d1d4ua2 g.39.1.5 (A:1-36) DNA repair factor XPA DNA- and
           RPA-binding domain, N-terminal subdomain {Human (Homo
           sapiens) [TaxId: 9606]}
          Length = 36

 Score = 25.5 bits (56), Expect = 1.5
 Identities = 7/18 (38%), Positives = 9/18 (50%)

Query: 288 SYLFKREERPICDSCHEP 305
           SYL    + P CD C + 
Sbjct: 18  SYLMDHFDLPTCDDCRDA 35


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

 Score = 27.5 bits (59), Expect = 3.0
 Identities = 26/198 (13%), Positives = 55/198 (27%), Gaps = 4/198 (2%)

Query: 167 WCPSHPCWYFWKRSSSQISIKFLWCPSHVGISGNDQADTEAKKATSEPITNHSLLLEEMK 226
               +          +   +  ++  ++      D   +         I      L+ + 
Sbjct: 145 IAAGNNQLEELPELQNLPFLTAIYADNNSLKKLPDLPLSLESIVAGNNILEELPELQNLP 204

Query: 227 SLAKKHFYQKWNTTWSNVNPNENKLRRIKSTTTPWKTSSQKARLDEVCLMRMRIGHTKIT 286
            L   +       T  ++ P+   L    +  T      Q     +V             
Sbjct: 205 FLTTIYADNNLLKTLPDLPPSLEALNVRDNYLTDLPELPQSLTFLDVSENIFSGLSELPP 264

Query: 287 HSYLFKREERPICDSCHEPVTVEHIILHCNKLRFRPPSFLG----NSLANILSDNPDSIS 342
           + Y        I   C  P ++E + +  NKL   P          +  N L++ P+   
Sbjct: 265 NLYYLNASSNEIRSLCDLPPSLEELNVSNNKLIELPALPPRLERLIASFNHLAEVPELPQ 324

Query: 343 SLMRFLKQNNFLKHIGDS 360
           +L +   + N L+   D 
Sbjct: 325 NLKQLHVEYNPLREFPDI 342


>d1czan2 c.55.1.3 (N:223-465) Mammalian type I hexokinase {Human
           (Homo sapiens) [TaxId: 9606]}
          Length = 243

 Score = 27.2 bits (60), Expect = 3.3
 Identities = 5/35 (14%), Positives = 15/35 (42%), Gaps = 3/35 (8%)

Query: 5   RFREILHENYKDFL---KIYTDGSKDETGVGCALI 36
           ++    H+  +  +    +    S+  +G G A++
Sbjct: 200 QYSRRFHKTLRRLVPDSDVRFLLSESGSGKGAAMV 234


>d1np3a1 a.100.1.2 (A:183-327) Class I ketol-acid reductoisomerase
           {Pseudomonas aeruginosa [TaxId: 287]}
          Length = 145

 Score = 26.0 bits (57), Expect = 5.0
 Identities = 10/68 (14%), Positives = 23/68 (33%), Gaps = 2/68 (2%)

Query: 198 SGNDQADTEAKKATSEPITNHS--LLLEEMKSLAKKHFYQKWNTTWSNVNPNENKLRRIK 255
           S ++ A+        E I   S   +   +K +    + + + T  +   P+    RR  
Sbjct: 67  SISNNAEYGEYVTGPEVINAESRAAMRNALKRIQDGEYAKMFITEGAANYPSMTAYRRNN 126

Query: 256 STTTPWKT 263
           +     + 
Sbjct: 127 AAHPIEQI 134


  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    0.133    0.408 

Gapped
Lambda     K      H
   0.267   0.0413    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 1,461,826
Number of extensions: 66116
Number of successful extensions: 227
Number of sequences better than 10.0: 1
Number of HSP's gapped: 225
Number of HSP's successfully gapped: 17
Length of query: 389
Length of database: 2,407,596
Length adjustment: 87
Effective length of query: 302
Effective length of database: 1,213,086
Effective search space: 366351972
Effective search space used: 366351972
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 (25.4 bits)