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 |
|---|---|---|---|---|---|---|---|---|
| 7583-YPL235W | YPL235W | RVB2 | RuvB family ATP-dependent DNA helicase reptin|TIP48|TIH2|TIP49B | ATP-dependent DNA helicase, also known as reptin; member of the AAA+ and RuvB protein families, similar to Rvb1p; conserved component of multiple complexes including the INO80 complex, the Swr1 complex, and the R2TP complex (Rvb1-Rvb2-Tah1-Pih1); involved in multiple processes such as chromatin remodeling, box C/D snoRNP assembly, and RNA polymerase II assembly | Core | NA | NA | NA |
| 7584-YPL236C | YPL236C | ENV7 | putative serine/threonine protein kinase ENV7 | Vacuolar membrane protein kinase; negatively regulates membrane fusion; associates with vacuolar membrane through palmitoylation of one or more cysteines in consensus sequence; vacuolar membrane association is essential to its kinase activity; mutant shows defect in CPY processing; ortholog of human serine/threonine kinase 16 (STK16) | Core | NA | NA | NA |
| 7585-YPL237W_NumOfGenes_2 | YPL237W | SUI3 | translation initiation factor eIF2 subunit beta | Beta subunit of the translation initiation factor eIF2; involved in the identification of the start codon; proposed to be involved in mRNA binding | Core | NA | NA | NA |
| 7586-YPL239W | YPL239W | YAR1 | NA | Ankyrin-repeat containing, nucleocytoplasmic shuttling chaperone; prevents aggregation of Rps3p in the cytoplasm, associates with nascent Rps3p during its translation in the cytoplasm and delivers it to the 90S in the nucleus; required for 40S ribosomal subunit export, biogenesis and adaptation to osmotic and oxidative stress; expression repressed by heat shock | Core | NA | NA | NA |
| 7587-YPL240C | YPL240C | HSP82 | Hsp90 family chaperone HSP82|HSP90 | Hsp90 chaperone; redundant in function with Hsc82p; required for pheromone signaling, negative regulation of Hsf1p; docks with Tom70p for mitochondrial preprotein delivery; promotes telomerase DNA binding, nucleotide addition; protein abundance increases in response to DNA replication stress; contains two acid-rich unstructured regions that promote solubility of chaperone-substrate complexes; HSP82 has a paralog, HSC82, that arose from the whole genome duplication | Accessory | Ancestral | NA | NA |
| 7588-YPL241C | YPL241C | CIN2 | GTPase-activating protein CIN2 | GTPase-activating protein (GAP) for Cin4p; tubulin folding factor C involved in beta-tubulin (Tub2p) folding; mutants display increased chromosome loss and benomyl sensitivity; human homolog RP2 complements yeast null mutant | Core | NA | NA | NA |
| 7589-YPL242C | YPL242C | IQG1 | CYK1 | Essential protein required for determination of budding pattern; promotes localization of axial markers Bud4p and Cdc12p and functionally interacts with Sec3p, localizes to the contractile ring during anaphase, member of the IQGAP family; relocalizes from bud neck to cytoplasm upon DNA replication stress | Core | NA | NA | NA |
| 7590-YPL243W | YPL243W | SRP68 | signal recognition particle subunit SRP68 | Core component of the signal recognition particle (SRP) complex; SRP complex functions in targeting nascent secretory proteins to the endoplasmic reticulum (ER) membrane; relocalizes from cytoplasm to the nuclear periphery upon DNA replication stress | Core | NA | NA | NA |
| 7591-YPL244C | YPL244C | HUT1 | NA | Protein with a role in UDP-galactose transport to the Golgi lumen; has similarity to human UDP-galactose transporter UGTrel1, exhibits a genetic interaction with S. cerevisiae ERO1 | Core | NA | NA | NA |
| 7592-YPL245W | YPL245W | NA | NA | Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to both the nucleus and the cytoplasm | Core | NA | NA | NA |
| 7593-YPL246C | YPL246C | RBD2 | putative rhomboid protease RBD2 | Possible rhomboid protease; has similarity to eukaryotic rhomboid proteases including Pcp1p | Core | NA | NA | NA |
| 7594-YPL247C | YPL247C | NA | NA | Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus; similar to the petunia WD repeat protein an11; overexpression causes a cell cycle delay or arrest | Core | NA | NA | NA |
| 7595-YPL248C | YPL248C | GAL4 | galactose-responsive transcription factor GAL4|GAL81 | DNA-binding transcription factor required for activating GAL genes; responds to galactose; repressed by Gal80p and activated by Gal3p | Core | NA | NA | NA |
| 7596-YPL249C | YPL249C | GYP5 | NA | GTPase-activating protein (GAP) for yeast Rab family members; involved in ER to Golgi trafficking; exhibits GAP activity toward Ypt1p that is stimulated by Gyl1p, also acts on Sec4p; interacts with Gyl1p, Rvs161p and Rvs167p; involved in recruiting Rvs167p to the bud tip during polarized growth; relocalizes from bud neck to cytoplasm upon DNA replication stress; GYP5 has a paralog, GYL1, that arose from the whole genome duplication | Core | NA | NA | NA |
| 7597-YPL249C-A_NumOfGenes_2 | YPL249C-A | RPL36B | eL36|ribosomal 60S subunit protein L36B|L36e|YL39|L39|L36B | Ribosomal 60S subunit protein L36B; binds to 5.8 S rRNA; homologous to mammalian ribosomal protein L36, no bacterial homolog; RPL36B has a paralog, RPL36A, that arose from the whole genome duplication | Core | NA | NA | NA |