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PR01343

Identifier
YEASTERF  [View Relations]  [View Alignment]  
Accession
PR01343
No. of Motifs
5
Creation Date
16-MAY-2000
Title
Yeast eukaryotic release factor signature
Database References
Literature References
1. LEBLANC, D.J., LEE, L.N., TITMAS, B.M., SMITH, C.J. AND TENOVER, F.C.
Nucleotide sequence analysis of tetracycline resistance gene tetO from
Streptococcus mutans DLS.
J.BACTERIOL. 170 3618-3626 (1988).
 
2. SERIO, T.R. AND LINDQUIST, S.L.	 
Protein only inheritance in yeast: something to get [PSI+]-ched about.  
TRENDS CELL BIOL. 10 98-105 (2000).

Documentation
Elongation factors belong to a family of proteins that promote the GTP-
dependent binding of aminoacyl tRNA to the A site of ribosomes during
protein biosynthesis, and catalyse the translocation of the synthesised
protein chain from the A to the P site. The proteins are all relatively
similar in the vicinity of their C-termini, and are also highly similar
to a range of proteins that includes the nodulation Q protein from 
Rhizobium meliloti, bacterial tetracycline resistance proteins [1]
and yeast elongation factors.
 
Although the yeast elongation factors, or omnipotent suppressor proteins,
share a large degree of similarity with other eukaryotic elongation factors,
the chief difference is that they possess an N-terminal extension rich in 
repetitive, glutamine-rich elements, and a central charged unit.
Saccharomyces cerevisiae ERF2 expression has been shown to cause non-
mendelian (all progeny to the first and second generation exhibit the
phenotype) inheritance of nonsense suppression (stop-codon read-through),
mediated by the N-terminal and charged regions. This observation has led to
the hypothesis that the yeast elongation factors are 'yeast prions',
showing the same properties as those theorised to exist in mammalian
prions [2].
 
YEASTERF is a 5-element fingerprint that provides a signature for the yeast
eukaryotic release factors. The fingerprint was derived from an initial
alignment of 4 sequences: motif 1 was drawn from the central, charge-rich
region; and motifs 2-5 reside at the C-terminus. Three iterations on
SPTR37_10f were required to reach convergence, at which point a true set
comprising 5 sequences was identified. 
Summary Information
5 codes involving  5 elements
0 codes involving 4 elements
0 codes involving 3 elements
0 codes involving 2 elements
Composite Feature Index
555555
400000
300000
200000
12345
True Positives
ERF2_CANAL    ERF2_PICPI    ERF2_SCHPO    ERF2_YEAST    
O42787
Sequence Titles
ERF2_CANAL  EUKARYOTIC PEPTIDE CHAIN RELEASE FACTOR GTP-BINDING SUBUNIT (ERF2) (TRANSLATION RELEASE FACTOR 3) (ERF3) (ERF-3) - CANDIDA ALBICANS (YEAST). 
ERF2_PICPI EUKARYOTIC PEPTIDE CHAIN RELEASE FACTOR GTP-BINDING SUBUNIT (ERF2) (TRANSLATION RELEASE FACTOR 3) (ERF3) (ERF-3) (OMNIPOTENT SUPPRESSOR PROTEIN 2) - PICHIA PINUS (YEAST).
ERF2_SCHPO EUKARYOTIC PEPTIDE CHAIN RELEASE FACTOR GTP-BINDING SUBUNIT (ERF2) (TRANSLATION RELEASE FACTOR 3) (ERF3) (ERF-3) - SCHIZOSACCHAROMYCES POMBE (FISSION YEAST).
ERF2_YEAST EUKARYOTIC PEPTIDE CHAIN RELEASE FACTOR GTP-BINDING SUBUNIT (ERF2) (TRANSLATION RELEASE FACTOR 3) (ERF3) (ERF-3) (OMNIPOTENT SUPPRESSOR PROTEIN 2) (G1 TO S PHASE TRANSITION PROTEIN 1) - SACCHAROMYCES CEREVISIAE (BAKER'S YEAST).
O42787 TRANSLATION RELEASE FACTOR ERF3 - PODOSPORA ANSERINA.
Scan History
SPTR37_10f 3  100  NSINGLE    
Initial Motifs
Motif 1  width=17
Element Seqn Id St Int Rpt
IKEQEEEVDDEVVNDMF ERF2_YEAST 239 239 -
VKEQEDEIDEEVVKDMF ERF2_CANAL 271 271 -
VKEQEEQIDASIVNDMF ERF2_PICPI 297 297 -
ATDLQNEVDQELLKDMY ERF2_SCHPO 218 218 -

Motif 2 width=8
Element Seqn Id St Int Rpt
VGVLVISA ERF2_YEAST 364 108 -
VGILVISA ERF2_CANAL 396 108 -
VGVLVISS ERF2_PICPI 422 108 -
IGVLVISA ERF2_SCHPO 342 107 -

Motif 3 width=8
Element Seqn Id St Int Rpt
NKMVVVVN ERF2_YEAST 399 27 -
NKIIVVVN ERF2_CANAL 431 27 -
NKLVVVIN ERF2_PICPI 457 27 -
NHLVVVIN ERF2_SCHPO 377 27 -

Motif 4 width=12
Element Seqn Id St Int Rpt
HINAPFMLPIAA ERF2_YEAST 485 78 -
KINGPFMMPVSG ERF2_CANAL 516 77 -
KINDPFMLPISS ERF2_PICPI 542 77 -
KVNAPFIMPIAS ERF2_SCHPO 464 79 -

Motif 5 width=10
Element Seqn Id St Int Rpt
TNRKSKKPPA ERF2_YEAST 625 128 -
TNRKSKKPPA ERF2_CANAL 656 128 -
TNRRSKKAPA ERF2_PICPI 682 128 -
TNRKSKKPPM ERF2_SCHPO 602 126 -
Final Motifs
Motif 1  width=17
Element Seqn Id St Int Rpt
IKEQEEEVDDEVVNDMF ERF2_YEAST 239 239 -
VKEQEDEIDEEVVKDMF ERF2_CANAL 271 271 -
VKEQEEQIDASIVNDMF ERF2_PICPI 297 297 -
EKEQSADVDDETLKEVY O42787 279 279 -
ATDLQNEVDQELLKDMY ERF2_SCHPO 218 218 -

Motif 2 width=8
Element Seqn Id St Int Rpt
VGVLVISA ERF2_YEAST 364 108 -
VGILVISA ERF2_CANAL 396 108 -
VGVLVISS ERF2_PICPI 422 108 -
VGILVISA O42787 403 107 -
IGVLVISA ERF2_SCHPO 342 107 -

Motif 3 width=8
Element Seqn Id St Int Rpt
NKMVVVVN ERF2_YEAST 399 27 -
NKIIVVVN ERF2_CANAL 431 27 -
NKLVVVIN ERF2_PICPI 457 27 -
NKLIVAIN O42787 438 27 -
NHLVVVIN ERF2_SCHPO 377 27 -

Motif 4 width=12
Element Seqn Id St Int Rpt
HINAPFMLPIAA ERF2_YEAST 485 78 -
KINGPFMMPVSG ERF2_CANAL 516 77 -
KINDPFMLPISS ERF2_PICPI 542 77 -
KINAPFMMAVAG O42787 524 78 -
KVNAPFIMPIAS ERF2_SCHPO 464 79 -

Motif 5 width=10
Element Seqn Id St Int Rpt
TNRKSKKPPA ERF2_YEAST 625 128 -
TNRKSKKPPA ERF2_CANAL 656 128 -
TNRRSKKAPA ERF2_PICPI 682 128 -
TNRKSKLPPS O42787 664 128 -
TNRKSKKPPM ERF2_SCHPO 602 126 -