RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy16758
         (186 letters)



>d1ekea_ c.55.3.1 (A:) Class II ribonuclease H (RNase HII) {Archaeon
           Methanococcus jannaschii [TaxId: 2190]}
          Length = 225

 Score = 27.9 bits (61), Expect = 0.66
 Identities = 18/124 (14%), Positives = 34/124 (27%), Gaps = 8/124 (6%)

Query: 13  HEKQMKELCALHALNNLFQNPKTFSKADLDEICINLSPQTWLNPHRSILGLGNYDINVIM 72
            +  +++      ++    N K F  +  D+I   +  +       +          V  
Sbjct: 98  EKLNIRDDEIEIYIDACSTNTKKFEDSFKDKIEDIIKERNLNIKIIAEHKADAKYPVVSA 157

Query: 73  TALQKKGFESNWFDRRKDPKCIDQQKVEGY-----ILNIPSQFKIGKYVPTPIKRRHWLT 127
            ++  K       D  K    I      GY      +     +         I R HW T
Sbjct: 158 ASIIAKAERDEIIDYYKK---IYGDIGSGYPSDPKTIKFLEDYFKKHKKLPDIARTHWKT 214

Query: 128 VRNI 131
            + I
Sbjct: 215 CKRI 218


>d2heqa1 b.34.20.1 (A:1-71) Uncharacterized protein YorP {Bacillus
           subtilis [TaxId: 1423]}
          Length = 71

 Score = 25.8 bits (56), Expect = 1.0
 Identities = 13/49 (26%), Positives = 25/49 (51%), Gaps = 5/49 (10%)

Query: 137 NLDSKLDNPEHIGREEDLVEYLRDVLSDIDKELFVVTRIENSKSYFKEN 185
           N +++   P H+GR+  ++E+L     D     + V+      +YFKE+
Sbjct: 21  NNNARYGCPHHVGRKGKIIEHLHSATYD-----YAVSDETGDITYFKEH 64


>d1i39a_ c.55.3.1 (A:) Class II ribonuclease H (RNase HII) {Archaeon
           Archaeoglobus fulgidus [TaxId: 2234]}
          Length = 200

 Score = 25.6 bits (55), Expect = 3.5
 Identities = 6/20 (30%), Positives = 7/20 (35%)

Query: 112 IGKYVPTPIKRRHWLTVRNI 131
           I         R  W TV N+
Sbjct: 178 IASGRIPSCVRMRWKTVSNL 197


>d2etja1 c.55.3.1 (A:1-221) Class II ribonuclease H (RNase HII)
           {Thermotoga maritima [TaxId: 2336]}
          Length = 221

 Score = 25.0 bits (54), Expect = 5.4
 Identities = 6/20 (30%), Positives = 8/20 (40%)

Query: 112 IGKYVPTPIKRRHWLTVRNI 131
           I K    PI R  +  V  +
Sbjct: 172 IRKNGVLPIHRLSFEPVLEL 191


>d1d4ta_ d.93.1.1 (A:) The Xlp protein Sap {Human (Homo sapiens)
           [TaxId: 9606]}
          Length = 104

 Score = 23.9 bits (51), Expect = 7.8
 Identities = 9/83 (10%), Positives = 25/83 (30%), Gaps = 7/83 (8%)

Query: 84  WF----DRRKDPKCIDQQKVEGYILNIPSQFKIGKYV---PTPIKRRHWLTVRNINGIYY 136
            +     R    K +    ++G  L   S+   G Y            +   +   G + 
Sbjct: 6   VYHGKISRETGEKLLLATGLDGSYLLRDSESVPGVYCLCVLYHGYIYTYRVSQTETGSWS 65

Query: 137 NLDSKLDNPEHIGREEDLVEYLR 159
              +   +  +  + ++L+   +
Sbjct: 66  AETAPGVHKRYFRKIKNLISAFQ 88


>d1k77a_ c.1.15.5 (A:) Hypothetical protein YgbM (EC1530)
           {Escherichia coli [TaxId: 562]}
          Length = 260

 Score = 24.6 bits (52), Expect = 8.7
 Identities = 4/27 (14%), Positives = 9/27 (33%)

Query: 55  NPHRSILGLGNYDINVIMTALQKKGFE 81
            P R     G  +   +     + G++
Sbjct: 208 LPDRHEPDDGEINYPWLFRLFDEVGYQ 234


  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    0.412 

Gapped
Lambda     K      H
   0.267   0.0429    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 749,011
Number of extensions: 35573
Number of successful extensions: 103
Number of sequences better than 10.0: 1
Number of HSP's gapped: 103
Number of HSP's successfully gapped: 15
Length of query: 186
Length of database: 2,407,596
Length adjustment: 80
Effective length of query: 106
Effective length of database: 1,309,196
Effective search space: 138774776
Effective search space used: 138774776
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: 41 (21.7 bits)
S2: 50 (23.8 bits)