RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy11248
         (227 letters)



>d2fdia1 b.82.2.10 (A:15-214) Alkylated DNA repair protein AlkB
           {Escherichia coli [TaxId: 562]}
          Length = 200

 Score = 52.8 bits (126), Expect = 3e-09
 Identities = 24/109 (22%), Positives = 43/109 (39%), Gaps = 9/109 (8%)

Query: 26  PIPAWIQSLVITKLEQMGVVPPNYINSAVINDYQPGGCIVSHIDP-PHIFDRPIISLSLF 84
            +P    +L        G  P    ++ +IN Y PG  +  H D        PI+S+SL 
Sbjct: 77  AMPQSFHNLCQRAATAAGY-PDFQPDACLINRYAPGAKLSLHQDKDEPDLRAPIVSVSLG 135

Query: 85  SDSALCFGCKFNFKPIRVSEPVLYLPVQRGCVTLLRDFAANGITHCVRP 133
                     F F  ++ ++P+  L ++ G V +     +    H ++P
Sbjct: 136 L------PAIFQFGGLKRNDPLKRLLLEHGDVVVWGGE-SRLFYHGIQP 177


>d2iuwa1 b.82.2.10 (A:70-279) AlkB homolog 3 {Human (Homo sapiens)
           [TaxId: 9606]}
          Length = 210

 Score = 36.4 bits (83), Expect = 0.001
 Identities = 22/137 (16%), Positives = 39/137 (28%), Gaps = 5/137 (3%)

Query: 19  YPEGEVDPIPAWIQSLVITKLEQMGVVPPNYINSAVINDYQPGGCIVSHID--PPHIFDR 76
           Y    ++P P W   L   K          + +            +  H D  P      
Sbjct: 74  YSRITMEPNPHWHPVLRTLKNRIEENTGHTFNSLLCNLYRNEKDSVDWHSDDEPSLGRCP 133

Query: 77  PIISLSLFSDSALCFGCKFNFKP--IRVSEPVLYLPVQRGCVTLLRDFAANGITHCVRPQ 134
            I SLS  +        K   +          + +P+  G + ++         H V  +
Sbjct: 134 IIASLSFGATRTFEMRKKPPPEENGDYTYVERVKIPLDHGTLLIMEGATQADWQHRVPKE 193

Query: 135 -DTQYRRAVILLRRVLP 150
             ++  R  +  R V P
Sbjct: 194 YHSREPRVNLTFRTVYP 210


>d1prtb1 b.40.2.1 (B:90-199) Pertussis toxin S2/S3 subunits,
           C-terminal domain {Bordetella pertussis [TaxId: 520]}
          Length = 110

 Score = 26.5 bits (58), Expect = 1.5
 Identities = 12/44 (27%), Positives = 17/44 (38%), Gaps = 1/44 (2%)

Query: 106 VLYLPVQRGCVTLLRDFAANGITHCVRPQDTQYRRAVILLRRVL 149
           +L     R C   +R      I  C  P D +Y      LR++L
Sbjct: 22  LLSSTNSRLCAVFVRS-GQPVIGACTSPYDGKYWSMYSRLRKML 64


>d1rmda2 g.44.1.1 (A:1-86) V(D)J recombination activating protein 1
           (RAG1), dimerization domain {Mouse (Mus musculus)
           [TaxId: 10090]}
          Length = 86

 Score = 23.7 bits (51), Expect = 7.9
 Identities = 10/35 (28%), Positives = 15/35 (42%)

Query: 72  HIFDRPIISLSLFSDSALCFGCKFNFKPIRVSEPV 106
           H+F R  I   L    + C  C++   P  +  PV
Sbjct: 43  HLFCRICILRCLKVMGSYCPSCRYPCFPTDLESPV 77


  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
   0.318    0.137    0.418 

Gapped
Lambda     K      H
   0.267   0.0462    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 849,552
Number of extensions: 38705
Number of successful extensions: 61
Number of sequences better than 10.0: 1
Number of HSP's gapped: 60
Number of HSP's successfully gapped: 4
Length of query: 227
Length of database: 2,407,596
Length adjustment: 82
Effective length of query: 145
Effective length of database: 1,281,736
Effective search space: 185851720
Effective search space used: 185851720
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 (21.7 bits)
S2: 51 (24.1 bits)