RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= 033363
         (121 letters)



>d1ngna_ a.96.1.2 (A:) Mismatch-specific thymine glycosylase domain
           of the methyl-GpG binding protein mbd4 {Mouse (Mus
           musculus) [TaxId: 10090]}
          Length = 144

 Score = 63.2 bits (153), Expect = 2e-14
 Identities = 36/95 (37%), Positives = 55/95 (57%)

Query: 20  RVISDLFTLCPDAKTATEVDAEEIEKIISTLGLQKKRAPMIKRFSQEYLGESWTHVTQLH 79
            V+ +     P A+ A   D  ++ +++  LGL   RA  I +FS EYL + W +  +LH
Sbjct: 40  PVLWEFLEKYPSAEVARAADWRDVSELLKPLGLYDLRAKTIIKFSDEYLTKQWRYPIELH 99

Query: 80  GVGKYAADAFAIFCTGKWDRVRPTDHMLNYYWEFL 114
           G+GKY  D++ IFC  +W +V P DH LN Y ++L
Sbjct: 100 GIGKYGNDSYRIFCVNEWKQVHPEDHKLNKYHDWL 134


>d1pu6a_ a.96.1.5 (A:) 3-Methyladenine DNA glycosylase III (MagIII)
           {Helicobacter pylori [TaxId: 210]}
          Length = 217

 Score = 27.0 bits (59), Expect = 0.53
 Identities = 13/83 (15%), Positives = 29/83 (34%), Gaps = 11/83 (13%)

Query: 30  PDAKTATEVDAEEIEKIISTLGLQKKRAPMIKRFSQEYLGESWTH-----------VTQL 78
            + K    ++  ++ + +   G   ++A  +   S   L +  +            +   
Sbjct: 66  INLKKIAYIEFSKLAECVRPSGFYNQKAKRLIDLSGNILKDFQSFENFKQEVTREWLLDQ 125

Query: 79  HGVGKYAADAFAIFCTGKWDRVR 101
            G+GK +ADA   +   K   V 
Sbjct: 126 KGIGKESADAILCYACAKEVMVV 148


>d2shpa1 c.45.1.2 (A:219-525) Tyrosine phosphatase {Human (Homo
          sapiens), shp-2 [TaxId: 9606]}
          Length = 307

 Score = 26.0 bits (56), Expect = 1.3
 Identities = 9/33 (27%), Positives = 17/33 (51%), Gaps = 1/33 (3%)

Query: 36 TEVDAEEIEKIISTLG-LQKKRAPMIKRFSQEY 67
          T ++A EIE  +  L  L +    + + F +E+
Sbjct: 1  TRINAAEIESRVRELSKLAETTDKVKQGFWEEF 33


>d1tx3a1 c.52.1.19 (A:2-258) Restriction endonuclease HincII
           {Haemophilus influenzae [TaxId: 727]}
          Length = 257

 Score = 25.0 bits (54), Expect = 2.5
 Identities = 16/57 (28%), Positives = 21/57 (36%), Gaps = 5/57 (8%)

Query: 21  VISDLFTLCPDAKTATEVDAEEIEKIISTLGLQKKRAPMIK-----RFSQEYLGESW 72
           ++ D F    D KT     + +   IIS   L +  A MI       F   YL   W
Sbjct: 116 LVKDQFYELLDVKTRNISKSAQAPNIISAYKLAQTCAKMIDNKEFDLFDINYLEVDW 172


>d1muka_ e.8.1.4 (A:) Reovirus polymerase lambda3 {Reovirus [TaxId:
           10891]}
          Length = 1264

 Score = 24.9 bits (54), Expect = 3.9
 Identities = 5/28 (17%), Positives = 10/28 (35%), Gaps = 1/28 (3%)

Query: 88  AFAIFCTGKWDRVRPTDHMLNY-YWEFL 114
           A     + +   +  +   L Y  W F+
Sbjct: 843 ALCCAFSRQRTMIGESVGYLQYPMWSFV 870


>d1dzfa2 d.78.1.1 (A:144-215) Eukaryotic RPB5 C-terminal domain
          {Baker's yeast (Saccharomyces cerevisiae) [TaxId:
          4932]}
          Length = 72

 Score = 23.5 bits (51), Expect = 4.3
 Identities = 5/26 (19%), Positives = 15/26 (57%)

Query: 38 VDAEEIEKIISTLGLQKKRAPMIKRF 63
          + ++E  +++    L++ + P I+R 
Sbjct: 13 LSSDEKRELLKRYRLKESQLPRIQRA 38


>gi|150401221|ref|YP_001324987.1|(10-76:78) DNA-directed RNA
          polymerase subunit H [Methanococcus aeolicus Nankai-3] 
           gi|166229324|sp|A6UV53.1|RPOH_META3 RecName:
          Full=DNA-directed RNA polymerase subunit H 
          gi|150013924|gb|ABR56375.1| RNA polymerase Rpb5
          [Methanococcus aeolicus Nankai-3]  E=2e-17 s/c=1.37
          id=62% cov=100%
          Length = 67

 Score = 23.1 bits (50), Expect = 5.6
 Identities = 5/26 (19%), Positives = 15/26 (57%)

Query: 38 VDAEEIEKIISTLGLQKKRAPMIKRF 63
          +  EE++K+++   ++ ++ P I   
Sbjct: 6  ISKEEVQKLLAKYDIKIQQLPKIFDI 31


>d1eika_ d.78.1.1 (A:) RNA polymerase subunit RBP5 (RNA polymerase
          subunit H) {Archaeon Methanobacterium
          thermoautotrophicum [TaxId: 145262]}
          Length = 77

 Score = 23.1 bits (50), Expect = 6.2
 Identities = 5/26 (19%), Positives = 13/26 (50%)

Query: 38 VDAEEIEKIISTLGLQKKRAPMIKRF 63
          ++  E ++++  L    ++ P IK  
Sbjct: 17 LNESEAKRVLKELDAHPEQLPKIKTT 42


  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
   0.322    0.136    0.412 

Gapped
Lambda     K      H
   0.267   0.0471    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 472,946
Number of extensions: 20442
Number of successful extensions: 51
Number of sequences better than 10.0: 1
Number of HSP's gapped: 51
Number of HSP's successfully gapped: 9
Length of query: 121
Length of database: 2,407,596
Length adjustment: 75
Effective length of query: 46
Effective length of database: 1,377,846
Effective search space: 63380916
Effective search space used: 63380916
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: 47 (22.5 bits)