RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy13804
         (129 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 = 26.0 bits (56), Expect = 0.91
 Identities = 9/56 (16%), Positives = 15/56 (26%), Gaps = 1/56 (1%)

Query: 54  TDEEANAPPGPGGGAHLIHPGKDINKLYGI-TPSDIDKYSRIVFPVCFVCFNLMYW 108
           TD   N     G   ++   GKD  K     T    +  +  +          +  
Sbjct: 12  TDGSCNRQSKEGKAGYVTDRGKDKVKKLEQTTNQQAELEAFAMALTDSGPKVNIIV 67


>d1oede_ f.36.1.1 (E:) Acetylcholine receptor protein, gamma chain
           {Marbled electric ray (Torpedo marmorata) [TaxId: 7788]}
          Length = 260

 Score = 26.3 bits (57), Expect = 1.0
 Identities = 6/25 (24%), Positives = 10/25 (40%), Gaps = 3/25 (12%)

Query: 88  IDKYSRIVFPVCFVCFNLMYWIIYL 112
           IDK    +  + F    +    I+L
Sbjct: 229 IDKACFWIALLLFS---IGTLAIFL 250


>d1oeda_ f.36.1.1 (A:) Acetylcholine receptor protein, alpha chain
           {Marbled electric ray (Torpedo marmorata) [TaxId: 7788]}
          Length = 227

 Score = 25.8 bits (56), Expect = 1.4
 Identities = 5/25 (20%), Positives = 9/25 (36%)

Query: 88  IDKYSRIVFPVCFVCFNLMYWIIYL 112
           ID     VF +  +   +  +   L
Sbjct: 196 IDHILLCVFMLICIIGTVSVFAGRL 220


>d1eyba_ b.82.1.4 (A:) Homogentisate dioxygenase {Human (Homo
           sapiens) [TaxId: 9606]}
          Length = 439

 Score = 25.2 bits (55), Expect = 3.1
 Identities = 6/30 (20%), Positives = 8/30 (26%), Gaps = 2/30 (6%)

Query: 27  ATGHPGQLGLGHGPPGGTLENTINGRSTDE 56
            + H       HGP     E     +   E
Sbjct: 361 GSLHST--MTPHGPDADCFEKASKVKLAPE 388


>d1wida_ b.142.1.2 (A:) DNA-binding protein RAV1 {Thale cress
           (Arabidopsis thaliana) [TaxId: 3702]}
          Length = 117

 Score = 23.8 bits (51), Expect = 5.0
 Identities = 8/19 (42%), Positives = 12/19 (63%)

Query: 83  ITPSDIDKYSRIVFPVCFV 101
           +TPSD+ K +R+V P    
Sbjct: 11  VTPSDVGKLNRLVIPKHHA 29


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

 Score = 23.8 bits (50), Expect = 6.9
 Identities = 8/61 (13%), Positives = 17/61 (27%)

Query: 54  TDEEANAPPGPGGGAHLIHPGKDINKLYGITPSDIDKYSRIVFPVCFVCFNLMYWIIYLH 113
           T   A   PGPGG   ++                 +    ++  +  +     +  + L 
Sbjct: 7   TAGSALGNPGPGGYGAILRYRGREKTFSAGYTRTTNNRMELMAAIVALEALKEHAEVILS 66

Query: 114 I 114
            
Sbjct: 67  T 67


>d1jmxa3 b.1.18.14 (A:282-363) Quinohemoprotein amine
          dehydrogenase A chain, domains 4 and 5 {Pseudomonas
          putida [TaxId: 303]}
          Length = 82

 Score = 22.8 bits (49), Expect = 8.7
 Identities = 6/25 (24%), Positives = 9/25 (36%)

Query: 39 GPPGGTLENTINGRSTDEEANAPPG 63
             GG  E T+ G     + +   G
Sbjct: 13 IKAGGESEITLVGSGLAGKPDLGAG 37


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

 Score = 23.4 bits (49), Expect = 10.0
 Identities = 12/60 (20%), Positives = 19/60 (31%)

Query: 54  TDEEANAPPGPGGGAHLIHPGKDINKLYGITPSDIDKYSRIVFPVCFVCFNLMYWIIYLH 113
           TD      PGPGG A L+        L G      +    +   +  +        + L+
Sbjct: 8   TDGACLGNPGPGGWAALLRFHAHEKLLSGGEACTTNNRMELKAAIEGLKALKEPCEVDLY 67


  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
   0.319    0.141    0.432 

Gapped
Lambda     K      H
   0.267   0.0663    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 528,157
Number of extensions: 24362
Number of successful extensions: 62
Number of sequences better than 10.0: 1
Number of HSP's gapped: 62
Number of HSP's successfully gapped: 11
Length of query: 129
Length of database: 2,407,596
Length adjustment: 76
Effective length of query: 53
Effective length of database: 1,364,116
Effective search space: 72298148
Effective search space used: 72298148
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 (21.7 bits)
S2: 48 (22.4 bits)