VPS21/YOR089C Summary Help

Standard Name VPS21 1, 2
Systematic Name YOR089C
Alias VPS12 1 , 2 , 3 , VPT12 1 , YPT21 , YPT51
Feature Type ORF, Verified
Description Endosomal Rab family GTPase; required for endocytic transport and sorting of vacuolar hydrolases; required for endosomal localization of the CORVET complex; required with YPT52 for MVB biogenesis and sorting; involved in autophagy and ionic stress tolerance; geranylgeranylation required for membrane association; protein abundance increases in response to DNA replication stress; mammalian Rab5 homolog; VPS21 has a paralog, YPT53, that arose from the whole genome duplication (4, 5, 6, 7, 8, 9, 10 and see Summary Paragraph)
Name Description Vacuolar Protein Sorting 1, 2
Chromosomal Location
ChrXV:490828 to 490196 | ORF Map | GBrowse
Note: this feature is encoded on the Crick strand.
Gbrowse
Gene Ontology Annotations All VPS21 GO evidence and references
  View Computational GO annotations for VPS21
Molecular Function
Manually curated
Biological Process
Manually curated
Cellular Component
Manually curated
High-throughput
Regulators 3 genes
Resources
Classical genetics
null
reduction of function
Large-scale survey
null
Resources
459 total interaction(s) for 279 unique genes/features.
Physical Interactions
  • Affinity Capture-MS: 18
  • Affinity Capture-RNA: 5
  • Affinity Capture-Western: 8
  • Biochemical Activity: 6
  • Co-purification: 1
  • PCA: 7
  • Reconstituted Complex: 8
  • Two-hybrid: 33

Genetic Interactions
  • Dosage Lethality: 1
  • Dosage Rescue: 3
  • Negative Genetic: 269
  • Phenotypic Enhancement: 10
  • Phenotypic Suppression: 2
  • Positive Genetic: 41
  • Synthetic Growth Defect: 29
  • Synthetic Lethality: 16
  • Synthetic Rescue: 2

Resources
Expression Summary
histogram
Resources
Length (a.a.) 210
Molecular Weight (Da) 23,081
Isoelectric Point (pI) 5.12
Localization
Phosphorylation PhosphoGRID | PhosphoPep Database
Structure
Homologs
sequence information
ChrXV:490828 to 490196 | ORF Map | GBrowse
Note: this feature is encoded on the Crick strand.
SGD ORF map
Last Update Coordinates: 2011-02-03 | Sequence: 1996-07-31
Subfeature details
Relative
Coordinates
Chromosomal
Coordinates
Most Recent Updates
Coordinates Sequence
CDS 1..633 490828..490196 2011-02-03 1996-07-31
Retrieve sequences
Analyze Sequence
S288C only
S288C vs. other species
S288C vs. other strains
Resources
External Links All Associated Seq | Entrez Gene | Entrez RefSeq Protein | MIPS | Search all NCBI (Entrez) | UniProtKB
Primary SGDIDS000005615
SUMMARY PARAGRAPH for VPS21

Rab proteins are small Ras-related GTPases that function in multiple stages in membrane traffic. Rabs continuously cycle between the cytosol and membranes. The GDP-bound form of the Rab is complexed with guanine nucleotide dissociation inhibitor(GDI) in the cytosol and are recruited to the membranes with the help of GDF (GDI Displacement Factor) and by their prenylation by geranylgeranyl transferase II (GGTase II). The membrane-bound Rab is activated to the GTP-bound form by the guanine nucleotide exchange factors (GEFs) which then goes on to interact with downstream effectors. The GTPase-activating protein (GAP) stimulates the hydrolysis of GTP to GDP to inactivate the Rab. Eleven Rabs have been identified in yeast and more than 60 in mammalian cells (reviewed in 11, 12, 13).

Last updated: 2010-05-18 Contact SGD

References cited on this page View Complete Literature Guide for VPS21
1) Robinson JS, et al.  (1988) Protein sorting in Saccharomyces cerevisiae: isolation of mutants defective in the delivery and processing of multiple vacuolar hydrolases. Mol Cell Biol 8(11):4936-48
2) Rothman JH, et al.  (1989) Characterization of genes required for protein sorting and vacuolar function in the yeast Saccharomyces cerevisiae. EMBO J 8(7):2057-65
3) Raymond CK, et al.  (1992) Morphological classification of the yeast vacuolar protein sorting mutants: evidence for a prevacuolar compartment in class E vps mutants. Mol Biol Cell 3(12):1389-402
4) Horazdovsky BF, et al.  (1994) VPS21 encodes a rab5-like GTP binding protein that is required for the sorting of yeast vacuolar proteins. EMBO J 13(6):1297-309
5) Singer-Kruger B, et al.  (1994) Role of three rab5-like GTPases, Ypt51p, Ypt52p, and Ypt53p, in the endocytic and vacuolar protein sorting pathways of yeast. J Cell Biol 125(2):283-98
6) Neukamm B, et al.  (2002) Endocytosis is involved in DNA uptake in yeast. Biochim Biophys Acta 1572(1):67-76
7) Byrne KP and Wolfe KH  (2005) The Yeast Gene Order Browser: combining curated homology and syntenic context reveals gene fate in polyploid species. Genome Res 15(10):1456-61
8) Nickerson DP, et al.  (2012) Termination of isoform-selective Vps21/Rab5 signaling at endolysosomal organelles by Msb3/Gyp3. Traffic 13(10):1411-28
9) Tkach JM, et al.  (2012) Dissecting DNA damage response pathways by analysing protein localization and abundance changes during DNA replication stress. Nat Cell Biol 14(9):966-76
10) Cabrera M, et al.  (2013) Functional separation of endosomal fusion factors and the class C core vacuole/endosome tethering (CORVET) complex in endosome biogenesis. J Biol Chem 288(7):5166-75
11) Cai H, et al.  (2007) Coats, tethers, Rabs, and SNAREs work together to mediate the intracellular destination of a transport vesicle. Dev Cell 12(5):671-82
12) Grosshans BL, et al.  (2006) Rabs and their effectors: achieving specificity in membrane traffic. Proc Natl Acad Sci U S A 103(32):11821-7
13) Bialek-Wyrzykowska U, et al.  (2000) Low levels of Ypt protein prenylation cause vesicle polarization defects and thermosensitive growth that can be suppressed by genes involved in cell wall maintenance. Mol Microbiol 35(6):1295-311