RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy8689
         (72 letters)



>d1qypa_ g.41.3.1 (A:) RBP9 subunit of RNA polymerase II {Archaeon
          Thermococcus celer [TaxId: 2264]}
          Length = 57

 Score = 70.6 bits (173), Expect = 5e-19
 Identities = 23/50 (46%), Positives = 31/50 (62%), Gaps = 2/50 (4%)

Query: 23 WENVDTTEEKCPKCEHPRAYFMQIQTRSADEPMTTFYKCCNIKCGFRWRE 72
           + + TT+  CPKC +  AY+ ++QTR+ DEP T FYKC    CG  WR 
Sbjct: 8  LKTLPTTKITCPKCGNDTAYWWEMQTRAGDEPSTIFYKCTK--CGHTWRS 55


>d1twfi2 g.41.3.1 (I:50-121) RBP9 subunit of RNA polymerase II
          {Baker's yeast (Saccharomyces cerevisiae) [TaxId:
          4932]}
          Length = 72

 Score = 61.8 bits (150), Expect = 2e-15
 Identities = 13/45 (28%), Positives = 19/45 (42%), Gaps = 2/45 (4%)

Query: 28 TTEEKCPKCEHPRAYFMQIQTRSADEPMTTFYKCCNIKCGFRWRE 72
           ++ +CPKC      F Q Q R  D  M  F+ C +  C   +  
Sbjct: 21 RSDRECPKCHSRENVFFQSQQRRKDTSMVLFFVCLS--CSHIFTS 63


>d1tfia_ g.41.3.1 (A:) Transcriptional factor SII, C-terminal
          domain {Human (Homo sapiens) [TaxId: 9606]}
          Length = 50

 Score = 59.4 bits (144), Expect = 1e-14
 Identities = 22/44 (50%), Positives = 26/44 (59%), Gaps = 2/44 (4%)

Query: 28 TTEEKCPKCEHPRAYFMQIQTRSADEPMTTFYKCCNIKCGFRWR 71
          T    C KC+     + Q+QTRSADEPMTTF  C    CG RW+
Sbjct: 7  TDLFTCGKCKKKNCTYTQVQTRSADEPMTTFVVCNE--CGNRWK 48


>d1lkoa2 g.41.5.1 (A:148-191) Rubrerythrin, C-terminal domain
          {Desulfovibrio vulgaris [TaxId: 881]}
          Length = 44

 Score = 26.2 bits (58), Expect = 0.098
 Identities = 8/13 (61%), Positives = 10/13 (76%)

Query: 31 EKCPKCEHPRAYF 43
          E CP C HP+A+F
Sbjct: 25 ELCPACAHPKAHF 37


>d1nnqa2 g.41.5.1 (A:135-171) Rubrerythrin, C-terminal domain
          {Archaeon Pyrococcus furiosus [TaxId: 2261]}
          Length = 37

 Score = 25.1 bits (55), Expect = 0.24
 Identities = 8/22 (36%), Positives = 11/22 (50%)

Query: 26 VDTTEEKCPKCEHPRAYFMQIQ 47
          VD   E CP C  P+  F+  +
Sbjct: 16 VDEAPEYCPVCGAPKEKFVVFE 37


>d1yuza2 g.41.5.1 (A:167-202) Nigerythrin, C-terminal domain
          {Desulfovibrio vulgaris [TaxId: 881]}
          Length = 36

 Score = 24.3 bits (53), Expect = 0.40
 Identities = 7/13 (53%), Positives = 8/13 (61%)

Query: 31 EKCPKCEHPRAYF 43
          EKCP C  P+  F
Sbjct: 21 EKCPICFRPKDTF 33


>d1xw8a_ c.6.2.5 (A:) Hypothetical protein YbgL {Escherichia coli
          [TaxId: 562]}
          Length = 247

 Score = 22.2 bits (47), Expect = 7.3
 Identities = 7/17 (41%), Positives = 8/17 (47%)

Query: 52 DEPMTTFYKCCNIKCGF 68
          D  + T     NI CGF
Sbjct: 16 DAELLTLVSSANIACGF 32


>d1dx8a_ g.41.5.1 (A:) Rubredoxin {Guillardia theta [TaxId:
          55529]}
          Length = 70

 Score = 21.6 bits (46), Expect = 8.2
 Identities = 7/20 (35%), Positives = 9/20 (45%)

Query: 32 KCPKCEHPRAYFMQIQTRSA 51
           CP C  P+  F  I+   A
Sbjct: 42 MCPACRSPKNQFKSIKKVIA 61


>d1v6ta_ c.6.2.5 (A:) Hypothetical protein PH0986 {Pyrococcus
          horikoshii [TaxId: 53953]}
          Length = 254

 Score = 22.2 bits (47), Expect = 8.6
 Identities = 5/17 (29%), Positives = 9/17 (52%)

Query: 52 DEPMTTFYKCCNIKCGF 68
          DE +  +    N+ CG+
Sbjct: 21 DEEVMKYITSANVACGW 37


  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
   0.324    0.136    0.473 

Gapped
Lambda     K      H
   0.267   0.0575    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 300,090
Number of extensions: 10748
Number of successful extensions: 59
Number of sequences better than 10.0: 1
Number of HSP's gapped: 56
Number of HSP's successfully gapped: 15
Length of query: 72
Length of database: 2,407,596
Length adjustment: 40
Effective length of query: 32
Effective length of database: 1,858,396
Effective search space: 59468672
Effective search space used: 59468672
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 47 (22.2 bits)