RPS-BLAST 2.2.26 [Sep-21-2011]

Database: CDD.v3.10 
           44,354 sequences; 10,937,602 total letters

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

Query= psy8971
         (132 letters)



>gnl|CDD|147513 pfam05365, UCR_UQCRX_QCR9, Ubiquinol-cytochrome C reductase,
          UQCRX/QCR9 like.  The UQCRX/QCR9 protein is the 9/10
          subunit of complex III, encoding a protein of about
          7-kDa. Deletion of QCR9 results in the inability of
          cells to grow on grow on-fermentable carbon source n
          yeast.
          Length = 55

 Score = 69.6 bits (171), Expect = 4e-17
 Identities = 24/43 (55%), Positives = 32/43 (74%)

Query: 5  NTVYNLLFKKTSSFMLTVAVGAFAFERGFDKLTDYVWESHNKG 47
          +T+YN LF++ S F+ T+  GAF FER FD  TD +W+SHNKG
Sbjct: 2  STLYNTLFRRNSVFVGTIFAGAFFFERAFDTGTDALWDSHNKG 44


>gnl|CDD|147529 pfam05391, Lsm_interact, Lsm interaction motif.  This short motif
           is found at the C-terminus of Prp24 proteins and
           probably interacts with the Lsm proteins to promote
           U4/U6 formation.
          Length = 21

 Score = 29.1 bits (66), Expect = 0.071
 Identities = 10/18 (55%), Positives = 12/18 (66%)

Query: 113 SKTSTMKSNDDFRNMLLG 130
           S T+  KSNDDFR + L 
Sbjct: 4   SDTAPPKSNDDFRKLFLK 21


>gnl|CDD|217393 pfam03154, Atrophin-1, Atrophin-1 family.  Atrophin-1 is the
           protein product of the dentatorubral-pallidoluysian
           atrophy (DRPLA) gene. DRPLA OMIM:125370 is a progressive
           neurodegenerative disorder. It is caused by the
           expansion of a CAG repeat in the DRPLA gene on
           chromosome 12p. This results in an extended
           polyglutamine region in atrophin-1, that is thought to
           confer toxicity to the protein, possibly through
           altering its interactions with other proteins. The
           expansion of a CAG repeat is also the underlying defect
           in six other neurodegenerative disorders, including
           Huntington's disease. One interaction of expanded
           polyglutamine repeats that is thought to be pathogenic
           is that with the short glutamine repeat in the
           transcriptional coactivator CREB binding protein, CBP.
           This interaction draws CBP away from its usual nuclear
           location to the expanded polyglutamine repeat protein
           aggregates that are characteristic of the polyglutamine
           neurodegenerative disorders. This interferes with
           CBP-mediated transcription and causes cytotoxicity.
          Length = 979

 Score = 26.6 bits (58), Expect = 5.2
 Identities = 9/35 (25%), Positives = 15/35 (42%), Gaps = 1/35 (2%)

Query: 84  LSLLPRSLQVSTPATK-PSLNNNDSTPGSDSKTST 117
           L L+P+S  + +   + P L  + S P   S    
Sbjct: 406 LQLMPQSQPLQSVPAQPPVLTQSQSLPPKASTHPH 440


  Database: CDD.v3.10
    Posted date:  Mar 20, 2013  7:55 AM
  Number of letters in database: 10,937,602
  Number of sequences in database:  44,354
  
Lambda     K      H
   0.314    0.129    0.379 

Gapped
Lambda     K      H
   0.267   0.0671    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,145,423
Number of extensions: 493576
Number of successful extensions: 253
Number of sequences better than 10.0: 1
Number of HSP's gapped: 253
Number of HSP's successfully gapped: 5
Length of query: 132
Length of database: 10,937,602
Length adjustment: 86
Effective length of query: 46
Effective length of database: 7,123,158
Effective search space: 327665268
Effective search space used: 327665268
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 53 (24.3 bits)