RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy6025
         (89 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 = 25.6 bits (55), Expect = 0.71
 Identities = 8/18 (44%), Positives = 10/18 (55%)

Query: 27  IEFLLCPSHVGIAGNEEA 44
           I     P+H GI GN+E 
Sbjct: 101 IYVAWVPAHKGIGGNQEV 118


>d1v5oa_ d.15.1.1 (A:) 1700011n24rik protein {Mouse (Mus musculus)
          [TaxId: 10090]}
          Length = 102

 Score = 25.0 bits (54), Expect = 1.1
 Identities = 4/40 (10%), Positives = 18/40 (45%)

Query: 48 TNDDVTHQELFFDEIKINIEKKYLEEWNIQNGPILLVQTK 87
          +       ++ + E  +  +   L  + +++G ++++  K
Sbjct: 45 SGVPAEEAQIVYMEQLLTDDHCSLGSYGLKDGDMVVLLQK 84


>d1h6za3 d.142.1.5 (A:1-405) Pyruvate phosphate dikinase, N-terminal
           domain {Trypanosoma brucei [TaxId: 5691]}
          Length = 405

 Score = 25.3 bits (54), Expect = 1.2
 Identities = 11/89 (12%), Positives = 32/89 (35%), Gaps = 6/89 (6%)

Query: 3   INMFHENPLVKRVQEEELSSTDSSIEFLLCPSHVGIAGNEEAKQATNDDVTHQELFFDEI 62
           +N   E+ +      ++++ + S                            ++ L   ++
Sbjct: 278 VNAQGEDVVAGIRTPQQINHSLSLRWAKAHGVGEEERRKRYPSMEEAMPENYRLL--CDV 335

Query: 63  KINIEKKYLE----EWNIQNGPILLVQTK 87
           +  +E  Y +    E+ +Q+G + L+Q +
Sbjct: 336 RKRLENHYRDMQDLEFTVQDGRLWLLQCR 364


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

 Score = 25.0 bits (53), Expect = 1.3
 Identities = 6/18 (33%), Positives = 8/18 (44%)

Query: 27  IEFLLCPSHVGIAGNEEA 44
           I++     H G   NE A
Sbjct: 114 IKWEWVKGHAGHPENERA 131


>d1kbla3 d.142.1.5 (A:2-376) Pyruvate phosphate dikinase, N-terminal
           domain {Clostridium symbiosum [TaxId: 1512]}
          Length = 375

 Score = 25.0 bits (53), Expect = 1.7
 Identities = 7/42 (16%), Positives = 21/42 (50%), Gaps = 6/42 (14%)

Query: 50  DDVTHQELFFDEIKINIEKKYLE----EWNIQNGPILLVQTK 87
               +++    ++ + +EK + +    E+ I+ G +  +QT+
Sbjct: 297 MPDCYKQFM--DLAMKLEKHFRDMQDMEFTIEEGKLYFLQTR 336


>d1vbga3 d.142.1.5 (A:3-382) Pyruvate phosphate dikinase, N-terminal
           domain {Maize (Zea mays) [TaxId: 4577]}
          Length = 380

 Score = 24.6 bits (52), Expect = 2.2
 Identities = 7/38 (18%), Positives = 14/38 (36%), Gaps = 4/38 (10%)

Query: 54  HQELFFDEIKINIEKKYLE----EWNIQNGPILLVQTK 87
                  E    +E  Y E    E+ +Q   + ++Q +
Sbjct: 301 QAYDELVENCNILESHYKEMQDIEFTVQENRLWMLQCR 338


>d1yovb1 c.111.1.2 (B:12-437) UBA3 {Human (Homo sapiens) [TaxId:
           9606]}
          Length = 426

 Score = 23.9 bits (51), Expect = 3.3
 Identities = 8/30 (26%), Positives = 14/30 (46%), Gaps = 1/30 (3%)

Query: 60  DEIKINIEKKYLEEWNIQNGPILLVQTKTN 89
           +  + N+ K  L+E  + +G  L V   T 
Sbjct: 391 ERTRPNLSKT-LKELGLVDGQELAVADVTT 419


>d1wiaa_ d.15.1.1 (A:) Ubiquitin-like protein bab25500
          (2010008E23Rik) {Mouse (Mus musculus) [TaxId: 10090]}
          Length = 95

 Score = 22.9 bits (49), Expect = 4.9
 Identities = 5/30 (16%), Positives = 11/30 (36%)

Query: 55 QELFFDEIKINIEKKYLEEWNIQNGPILLV 84
           +L +    +    + L   NI N  ++  
Sbjct: 45 MKLIYQGRLLQDPARTLSSLNITNNCVIHC 74


>d1qhda1 a.115.1.2 (A:1-148,A:333-397) vp6, the major capsid protein
           of group A rotavirus {Bovine rotavirus [TaxId: 10927]}
          Length = 213

 Score = 23.4 bits (50), Expect = 5.5
 Identities = 8/20 (40%), Positives = 12/20 (60%)

Query: 59  FDEIKINIEKKYLEEWNIQN 78
           F  I  +   +Y+E WN+QN
Sbjct: 124 FKRINFDNSSEYIENWNLQN 143


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

 Score = 23.0 bits (48), Expect = 6.9
 Identities = 4/13 (30%), Positives = 4/13 (30%)

Query: 32  CPSHVGIAGNEEA 44
              H G   NE  
Sbjct: 121 VKGHTGHPENERV 133


  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
   0.313    0.132    0.372 

Gapped
Lambda     K      H
   0.267   0.0600    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 321,692
Number of extensions: 12628
Number of successful extensions: 33
Number of sequences better than 10.0: 1
Number of HSP's gapped: 33
Number of HSP's successfully gapped: 12
Length of query: 89
Length of database: 2,407,596
Length adjustment: 53
Effective length of query: 36
Effective length of database: 1,679,906
Effective search space: 60476616
Effective search space used: 60476616
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 47 (22.2 bits)