RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy7793
         (316 letters)



>d1uw4b_ a.118.1.14 (B:) Regulator of nonsense transcripts 2, UPF2
           {Human (Homo sapiens) [TaxId: 9606]}
          Length = 248

 Score = 34.6 bits (79), Expect = 0.011
 Identities = 6/41 (14%), Positives = 15/41 (36%)

Query: 87  KGKLEKRVQYMIEVLAQVRKDNFKDFPDVIEDLDLVPEEDK 127
                  + YMI    ++ +   K    + E +  V + ++
Sbjct: 198 DHPFPIDIDYMISDTLELLRPKIKLCNSLEESIRQVQDLER 238


>d3bl2a1 f.1.4.1 (A:6-134) Bcl-2 homolog V-bcl-2 {Murid herpesvirus
           4 [TaxId: 33708]}
          Length = 129

 Score = 27.3 bits (60), Expect = 1.2
 Identities = 22/70 (31%), Positives = 33/70 (47%), Gaps = 11/70 (15%)

Query: 186 TIYLTIHSSLDFEDC-----LINKMYVAPLEQIFRESYSTVHRLDI-----NKLRNVAKF 235
           T +L   S ++  DC     L++   +  L Q FR  Y +V+R D      N  R+++K 
Sbjct: 10  TAFLKTVSKVEELDCVDSAVLVDVSKIITLTQEFRRHYDSVYRADYGPALKNWKRDLSKL 69

Query: 236 FAHQLFTDAI 245
           F   LF D I
Sbjct: 70  FT-SLFVDVI 78


>d1gqna_ c.1.10.1 (A:) Type I 3-dehydroquinate dehydratase
           {Salmonella typhi [TaxId: 90370]}
          Length = 252

 Score = 26.5 bits (58), Expect = 4.0
 Identities = 17/101 (16%), Positives = 30/101 (29%), Gaps = 14/101 (13%)

Query: 99  EVLAQVRKDNFKDFPDVIE-DLDLVPEEDKFTHLMTLDGVKDTQDILNVFQYDPEYLMNE 157
            V A+          D++E  +D                +  TQ +L   +   + + + 
Sbjct: 29  SVKAEALAYREAT-FDILEWRVDH------------FMDIASTQSVLTAARVIRDAMPDI 75

Query: 158 EKYTTLRREILGDEDEDDEETNLVALRRTIYLTIHSSLDFE 198
               T R    G E     +  L   R  I   +   +D E
Sbjct: 76  PLLFTFRSAKEGGEQTITTQHYLTLNRAAIDSGLVDMIDLE 116


>d1ls1a1 a.24.13.1 (A:1-88) Signal sequence recognition protein
          Ffh {Thermus aquaticus [TaxId: 271]}
          Length = 88

 Score = 25.0 bits (55), Expect = 4.2
 Identities = 11/49 (22%), Positives = 24/49 (48%), Gaps = 8/49 (16%)

Query: 20 VAKFFAHQLFTDAIGWHVLSCIHLNEEETTSSGRIFIKILFQELSEYMG 68
          VA+ F  ++  +A+G  VL        E+ +   + +  +++ L E +G
Sbjct: 47 VARDFVERVREEALGKQVL--------ESLTPAEVILATVYEALKEALG 87



 Score = 25.0 bits (55), Expect = 4.2
 Identities = 11/49 (22%), Positives = 24/49 (48%), Gaps = 8/49 (16%)

Query: 232 VAKFFAHQLFTDAIGWHVLSCIHLNEEETTSSGRIFIKILFQELSEYMG 280
           VA+ F  ++  +A+G  VL        E+ +   + +  +++ L E +G
Sbjct: 47  VARDFVERVREEALGKQVL--------ESLTPAEVILATVYEALKEALG 87


>d1hu3a_ a.118.1.14 (A:) Eukaryotic initiation factor eIF4G {Human
           (Homo sapiens) [TaxId: 9606]}
          Length = 243

 Score = 26.3 bits (57), Expect = 4.8
 Identities = 5/24 (20%), Positives = 14/24 (58%)

Query: 87  KGKLEKRVQYMIEVLAQVRKDNFK 110
           + K   R+++M++ +  +R  N+ 
Sbjct: 219 ERKTSSRIRFMLQDVIDLRLCNWV 242


>d1j8yf1 a.24.13.1 (F:3-86) Signal sequence recognition protein
          Ffh {Archaeon Acidianus ambivalens [TaxId: 2283]}
          Length = 84

 Score = 25.1 bits (55), Expect = 4.8
 Identities = 9/49 (18%), Positives = 16/49 (32%), Gaps = 8/49 (16%)

Query: 20 VAKFFAHQLFTDAIGWHVLSCIHLNEEETTSSGRIFIKILFQELSEYMG 68
          +     +++          + I             FIKI++ ELS   G
Sbjct: 43 LVFSLTNKIKERLKNEKPPTYI--------ERREWFIKIVYDELSNLFG 83



 Score = 25.1 bits (55), Expect = 4.8
 Identities = 9/49 (18%), Positives = 16/49 (32%), Gaps = 8/49 (16%)

Query: 232 VAKFFAHQLFTDAIGWHVLSCIHLNEEETTSSGRIFIKILFQELSEYMG 280
           +     +++          + I             FIKI++ ELS   G
Sbjct: 43  LVFSLTNKIKERLKNEKPPTYI--------ERREWFIKIVYDELSNLFG 83


>d1wgwa_ a.24.13.1 (A:) Signal recognition particle 54 kDa
          protein, SRP54 {Mouse (Mus musculus) [TaxId: 10090]}
          Length = 99

 Score = 25.1 bits (55), Expect = 6.1
 Identities = 4/49 (8%), Positives = 14/49 (28%), Gaps = 8/49 (16%)

Query: 20 VAKFFAHQLFTDAIGWHVLSCIHLNEEETTSSGRIFIKILFQELSEYMG 68
          + K     + +      +            +  ++    +F+EL +   
Sbjct: 52 LVKQLRENVKSAIDLEEMA--------SGLNKRKMIQHAVFKELVKVKV 92



 Score = 25.1 bits (55), Expect = 6.1
 Identities = 4/49 (8%), Positives = 14/49 (28%), Gaps = 8/49 (16%)

Query: 232 VAKFFAHQLFTDAIGWHVLSCIHLNEEETTSSGRIFIKILFQELSEYMG 280
           + K     + +      +            +  ++    +F+EL +   
Sbjct: 52  LVKQLRENVKSAIDLEEMA--------SGLNKRKMIQHAVFKELVKVKV 92


  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
   0.323    0.139    0.409 

Gapped
Lambda     K      H
   0.267   0.0622    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 1,218,148
Number of extensions: 59683
Number of successful extensions: 142
Number of sequences better than 10.0: 1
Number of HSP's gapped: 142
Number of HSP's successfully gapped: 18
Length of query: 316
Length of database: 2,407,596
Length adjustment: 85
Effective length of query: 231
Effective length of database: 1,240,546
Effective search space: 286566126
Effective search space used: 286566126
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 53 (24.4 bits)