RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy13868
         (128 letters)



>d1s1ta1 c.55.3.1 (A:430-539) HIV RNase H (Domain of reverse
           transcriptase) {Human immunodeficiency virus type 1
           [TaxId: 11676]}
          Length = 110

 Score = 41.1 bits (96), Expect = 2e-06
 Identities = 23/100 (23%), Positives = 38/100 (38%), Gaps = 8/100 (8%)

Query: 31  KGAVVWYTDGSKTEAGSGAGIHCVKPRVNISLPLGTYTGVYQAEVLAIRNCAEENINMGL 90
            GA  +Y DG+            V  R    +   T T   + E+ AI    ++      
Sbjct: 6   VGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTELQAIYLALQD------ 59

Query: 91  SKREIYIFSDSQAALRAIGNFQTKS--KITWESTQAICGK 128
           S  E+ I +DSQ AL  I     +S  ++  +  + +  K
Sbjct: 60  SGLEVNIVTDSQYALGIIQAQPDQSESELVNQIIEQLIKK 99


>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 = 31.4 bits (70), Expect = 0.012
 Identities = 18/77 (23%), Positives = 26/77 (33%), Gaps = 6/77 (7%)

Query: 32  GAVVWYTDGSKTEAGSGAGIHCVKPRVNISLPLGTYTGVYQAEVLAIRNCAEENINMGLS 91
           GA  +YTDGS            V  R    +     T   QAE+ A      ++      
Sbjct: 6   GAETFYTDGSCNRQSKEGKAGYVTDRGKDKVKKLEQTTNQQAELEAFAMALTDSGPK--- 62

Query: 92  KREIYIFSDSQAALRAI 108
              + I  DSQ  +  +
Sbjct: 63  ---VNIIVDSQYVMGIV 76


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

 Score = 23.8 bits (50), Expect = 6.3
 Identities = 14/85 (16%), Positives = 27/85 (31%), Gaps = 9/85 (10%)

Query: 34  VVWYTDGS----KTEAGSGAGIHCVKPRVNISLPLGTYTGVYQAEVLAIRNCAEENINMG 89
           V  +TDG+        G  A +        +S      T   + E+ A     +      
Sbjct: 4   VALFTDGACLGNPGPGGWAALLRFHAHEKLLSGGEACTT-NNRMELKAAIEGLKALKE-- 60

Query: 90  LSKREIYIFSDSQAALRAIGNFQTK 114
               E+ +++DS    +A      +
Sbjct: 61  --PCEVDLYTDSHYLKKAFTEGWLE 83


>d1ofda3 d.153.1.1 (A:1-430) Alpha subunit of glutamate synthase,
          N-terminal domain {Synechocystis sp. [TaxId: 1143]}
          Length = 430

 Score = 23.8 bits (51), Expect = 8.5
 Identities = 12/48 (25%), Positives = 18/48 (37%), Gaps = 14/48 (29%)

Query: 32 GAVVWYTDGSKTEAGSGAGIHCVKPR---------VNISLPLGTYTGV 70
          G        +  ++G GAG+    PR          N+ +P G   GV
Sbjct: 32 GGC-----SADNDSGDGAGVMTAIPRELLAQWFNTRNLPMPDGDRLGV 74


>d1u6ea2 c.95.1.2 (A:175-317) Ketoacyl-ACP synthase III (FabH)
          {Mycobacterium tuberculosis [TaxId: 1773]}
          Length = 148

 Score = 23.5 bits (50), Expect = 9.0
 Identities = 5/14 (35%), Positives = 8/14 (57%)

Query: 32 GAVVWYTDGSKTEA 45
          G  V  +DG + +A
Sbjct: 1  GPTVAGSDGEQADA 14


  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    0.131    0.387 

Gapped
Lambda     K      H
   0.267   0.0521    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 466,411
Number of extensions: 18893
Number of successful extensions: 24
Number of sequences better than 10.0: 1
Number of HSP's gapped: 23
Number of HSP's successfully gapped: 5
Length of query: 128
Length of database: 2,407,596
Length adjustment: 75
Effective length of query: 53
Effective length of database: 1,377,846
Effective search space: 73025838
Effective search space used: 73025838
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: 48 (22.8 bits)