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 |
|---|---|---|---|---|---|---|---|---|
| 4358-YHR102W | YHR102W | KIC1 | putative serine/threonine protein kinase KIC1|NRK1 | Protein kinase of the PAK/Ste20 family, required for cell integrity; physically interacts with Cdc31p (centrin), which is a component of the spindle pole body; part of the RAM network that regulates cellular polarity and morphogenesis | Core | NA | NA | NA |
| 4359-YHR103W | YHR103W | SBE22 | NA | Protein involved in bud growth; involved in the transport of cell wall components from the Golgi to the cell surface; similar in structure and functionally redundant with Sbe2p; SBE22 has a paralog, SBE2, that arose from the whole genome duplication | Core | NA | NA | NA |
| 4360-YHR104W | YHR104W | GRE3 | trifunctional aldehyde reductase/xylose reductase/glucose 1-dehydrogenase (NADP(+)) | Aldose reductase; involved in methylglyoxal, d-xylose, arabinose, and galactose metabolism; stress induced (osmotic, ionic, oxidative, heat shock, starvation and heavy metals); regulated by the HOG pathway; protein abundance increases in response to DNA replication stress | Core | NA | NA | NA |
| 4361-YHR105W | YHR105W | YPT35 | NA | Endosomal protein of unknown function; contains a phox (PX) homology domain; binds to both phosphatidylinositol-3-phosphate (PtdIns(3)P) and proteins involved in ER-Golgi or vesicular transport | Core | NA | NA | NA |
| 4362-YHR106W | YHR106W | TRR2 | thioredoxin-disulfide reductase TRR2 | Mitochondrial thioredoxin reductase; involved in protection against oxidative stress, required with Glr1p to maintain the redox state of Trx3p; contains active-site motif (CAVC) present in prokaryotic orthologs; binds NADPH and FAD; TRR2 has a paralog, TRR1, that arose from the whole genome duplication | Core | NA | NA | NA |
| 4363-YHR107C | YHR107C | CDC12 | septin CDC12|PSL7|CLA10 | Component of the septin ring that is required for cytokinesis; septins are GTP-binding proteins that assemble into rod-like hetero-oligomers that can associate with other rods to form filaments; septin rings at the mother-bud neck act as scaffolds for recruiting cell division factors and as barriers to prevent diffusion of specific proteins between mother and daughter cells | Core | NA | NA | NA |
| 4364-YHR108W | YHR108W | GGA2 | phosphatidylinositol 4-phosphate-binding protein | Protein that regulates Arf1p, Arf2p to facilitate Golgi trafficking; binds phosphatidylinositol 4-phosphate, which plays a role in TGN localization; has homology to gamma-adaptin; GGA2 has a paralog, GGA1, that arose from the whole genome duplication | Core | NA | NA | NA |
| 4365-YHR109W | YHR109W | CTM1 | cytochrome c lysine N-methyltransferase | Cytochrome c lysine methyltransferase; trimethylates residue 72 of apo-cytochrome c (Cyc1p) in the cytosol; not required for normal respiratory growth | Core | NA | NA | NA |
| 4366-YHR110W | YHR110W | ERP5 | NA | Protein with similarity to Emp24p and Erv25p; member of the p24 family involved in ER to Golgi transport | Core | NA | NA | NA |
| 4367-YHR111W | YHR111W | UBA4 | YHR1 | E1-like protein that activates Urm1p before urmylation; also acts in thiolation of the wobble base of cytoplasmic tRNAs by adenylating and then thiolating Urm1p; receives sulfur from Tum1p | Core | NA | NA | NA |
| 4368-YHR112C | YHR112C | NA | putative cystathionine beta-lyase | Protein of unknown function; localizes to the cytoplasm and nucleus; overexpression affects protein trafficking through the endocytic pathway | Core | NA | NA | NA |
| 4369-YHR113W | YHR113W | APE4 | aspartyl aminopeptidase | Cytoplasmic aspartyl aminopeptidase with possible vacuole function; Cvt pathway cargo protein; cleaves unblocked N-terminal acidic amino acids from peptide substrates; forms a 12-subunit homo-oligomer; M18 metalloprotease family | Core | NA | NA | NA |
| 4370-YHR114W | YHR114W | BZZ1 | LSB7 | SH3 domain protein implicated in regulating actin polymerization; able to recruit actin polymerization machinery through its SH3 domains; colocalizes with cortical actin patches and Las17p; interacts with type I myosins | Core | NA | NA | NA |
| 4371-YHR115C | YHR115C | DMA1 | ubiquitin-conjugating protein DMA1|CHF1 | Ubiquitin-protein ligase (E3); controls septin dynamics, spindle position checkpoint (SPOC) with ligase Dma2p by regulating recruitment of Elm1p to bud neck; regulates levels of eIF2 subunit Gcd11p, as well as abundance, localization, and ubiquitination of Cdk inhibitory kinase Swe1p; ubiquitinates cyclin Pcl1p; ortholog of human RNF8, similar to human Chfr; contains FHA, RING fingers; DMA1 has a paralog, DMA2, that arose from the whole genome duplication | Core | NA | NA | NA |
| 4372-YHR116W | YHR116W | COX23 | NA | Protein that functions in mitochondrial copper homeostasis; mitochondrial intermembrane space protein; essential for functional cytochrome oxidase expression; homologous to Cox17p; contains twin cysteine-x9-cysteine motifs | Core | NA | NA | NA |