Saccharomyces cerevisiae Reference Assembly Panel Database (ScRAPdb)
Saccharomyces cerevisiae Reference Assembly Panel Database (ScRAPdb)
A searchable table of the S. cerevisiae pangenome ORFs defined in Peter et al. (2018) Nature (LINK) is provided below. The listed core/accessory classification and origin assignment are based on the original study. Click on the PanORF ID to find out the detailed presence/absence pattern of the corresponding pangenome ORF in both ScRAPdb and the 1002ScGP strain collections (which were recalculated by ScRAPdb).
| PanORF ID | SGD systematic Name | SGD standard name | Alias | Description | Type | Origin assignment | Mostly likely origin species | NCBI megablast hit |
|---|---|---|---|---|---|---|---|---|
| 7493-YPL146C | YPL146C | NOP53 | RRP16 | Nucleolar protein; involved in biogenesis of the 60S subunit of the ribosome; interacts with rRNA processing factors Cbf5p and Nop2p and with the nucleolar proteins Nop17p and Nip7p; null mutant is viable but growth is severely impaired | Core | NA | NA | NA |
| 7494-YPL147W | YPL147W | PXA1 | ATP-binding cassette long-chain fatty acid transporter PXA1|SSH2|PAT2|PAL1|LPI1 | Subunit of heterodimeric peroxisomal ABC transport complex, with Pxa2p; required for import of long-chain fatty acids into peroxisomes; similar to human adrenoleukodystrophy transporters ABCD1and ABCD2, and ALD-related proteins; mutations in ABCD1 cause X-linked adrenoleukodystrophy (X-ALD), a peroxisomal disorder; human ABCD1 and ABCD2 can each partially complement yeast pxa1 pxa2 double null mutant | Core | NA | NA | NA |
| 7495-YPL148C | YPL148C | PPT2 | holo-[acyl-carrier-protein] synthase | Phosphopantetheine:protein transferase (PPTase); activates mitochondrial acyl carrier protein (Acp1p) by phosphopantetheinylation | Core | NA | NA | NA |
| 7496-YPL149W | YPL149W | ATG5 | APG5 | Conserved protein involved in autophagy and the Cvt pathway; undergoes conjugation with Atg12p to form a complex involved in Atg8p lipidation; Atg5p-Atg12p conjugate enhances E2 activity of Atg3 by rearranging its catalytic site, also forms a complex with Atg16p; the Atg5-Atg12/Atg16 complex binds to membranes and is essential for autophagosome formation; also involved in methionine restriction extension of chronological lifespan in an autophagy-dependent manner | Core | NA | NA | NA |
| 7497-YPL150W | YPL150W | NA | non-specific serine/threonine protein kinase | Protein kinase of unknown cellular role; binds phosphatidylinositols and cardiolipin in a large-scale study | Core | NA | NA | NA |
| 7498-YPL151C | YPL151C | PRP46 | mRNA splicing protein PRP46|NTC50 | Member of the NineTeen Complex (NTC); this complex contains Prp19p and stabilizes U6 snRNA in catalytic forms of the spliceosome containing U2, U5, and U6 snRNAs | Core | NA | NA | NA |
| 7499-YPL152W | YPL152W | RRD2 | peptidylprolyl isomerase RRD2|YPA2 | Peptidyl-prolyl cis/trans-isomerase; also activates the phosphotyrosyl phosphatase activity of protein phosphatase 2A (PP2A); regulates G1 phase progression, the osmoresponse, microtubule dynamics; subunit of the Tap42p-Pph21p-Rrd2p complex; protein abundance increases in response to DNA replication stress | Core | NA | NA | NA |
| 7500-YPL152W-A | YPL152W-A | NA | NA | Protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching | Core | NA | NA | NA |
| 7501-YPL153C | YPL153C | RAD53 | serine/threonine/tyrosine protein kinase RAD53|SPK1|MEC2|LSD1 | DNA damage response protein kinase; required for cell-cycle arrest, regulation of copper genes in response to DNA damage; phosphorylates nuclear pores to counteract gene gating, preventing aberrant transitions at forks approaching transcribed genes; activates downstream kinase Dun1p; differentially senses mtDNA depletion, mitochondrial ROS; relocalizes to cytosol under hypoxia; human homolog CHEK2 implicated in breast cancer can complement yeast null mutant | Core | NA | NA | NA |
| 7502-YPL154C | YPL154C | PEP4 | proteinase A|yscA|PRA1|PHO9 | Vacuolar aspartyl protease (proteinase A); required for posttranslational precursor maturation of vacuolar proteinases; important for protein turnover after oxidative damage; plays a protective role in acetic acid induced apoptosis; synthesized as a zymogen, self-activates | Core | NA | NA | NA |
| 7503-YPL155C | YPL155C | KIP2 | NA | Kinesin-related motor protein involved in mitotic spindle positioning; stabilizes microtubules by targeting Bik1p to the plus end; functions as a microtubule polymerase and catastrophe inhibitor in vitro; Kip2p levels are controlled during the cell cycle | Core | NA | NA | NA |
| 7504-YPL156C | YPL156C | PRM4 | pheromone-regulated protein PRM4 | Pheromone-regulated protein proposed to be involved in mating; predicted to have 1 transmembrane segment; transcriptionally regulated by Ste12p during mating and by Cat8p during the diauxic shift | Core | NA | NA | NA |
| 7505-YPL157W | YPL157W | TGS1 | RNA methyltransferase | Trimethyl guanosine synthase, conserved nucleolar methyl transferase; converts the m(7)G cap structure of snRNAs, snoRNAs, and telomerase TLC1 RNA to m(2,2,7)G; also required for nucleolar assembly and splicing of meiotic pre-mRNAs; interacts with Swm2p, which may confer substrate specificity on Tgs1p | Core | NA | NA | NA |
| 7506-YPL158C | YPL158C | AIM44 | GPS1 | Protein that regulates Cdc42p and Rho1p; functions in the late steps of cytokinesis and cell separation; sustains Rho1p at the cell division site after actomyosin ring contraction; inhibits the activation of Cdc42-Cla4 at the cell division site to prevent budding inside the old bud neck; transcription is regulated by Swi5p; null mutant displays elevated frequency of mitochondrial genome loss; relocalizes from bud neck to cytoplasm upon DNA replication stress | Core | NA | NA | NA |
| 7507-YPL159C | YPL159C | PET20 | NA | Mitochondrial protein; required for respiratory growth under some conditions and for stability of the mitochondrial genome | Core | NA | NA | NA |