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Aliases for VPS50 Gene

Aliases for VPS50 Gene

  • VPS50, EARP/GARPII Complex Subunit 2 3
  • Coiled-Coil Domain-Containing Protein 132 3 4
  • Coiled-Coil Domain Containing 132 2 3
  • VPS50 EARP/GARPII Complex Subunit 3 5
  • EARP/GARPII Complex Subunit VPS50 3 4
  • CCDC132 3 4
  • Syndetin 2
  • KIAA1861 4
  • VPS54L 3

External Ids for VPS50 Gene

Previous HGNC Symbols for VPS50 Gene

  • CCDC132

Summaries for VPS50 Gene

GeneCards Summary for VPS50 Gene

VPS50 (VPS50, EARP/GARPII Complex Subunit) is a Protein Coding gene.

UniProtKB/Swiss-Prot for VPS50 Gene

  • Acts as component of the EARP complex that is involved in endocytic recycling. The EARP complex associates with Rab4-positive endosomes and promotes recycling of internalized transferrin receptor (TFRC) to the plasma membrane. Within the EARP complex, required to tether the complex to recycling endosomes. Not involved in retrograde transport from early and late endosomes to the trans-Golgi network (TGN).

Gene Wiki entry for VPS50 Gene

No data available for Entrez Gene Summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for VPS50 Gene

Genomics for VPS50 Gene

Regulatory Elements for VPS50 Gene

Promoters for VPS50 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around VPS50 on UCSC Golden Path with GeneCards custom track

Genomic Location for VPS50 Gene

Chromosome:
7
Start:
93,232,340 bp from pter
End:
93,361,123 bp from pter
Size:
128,784 bases
Orientation:
Plus strand

Genomic View for VPS50 Gene

Genes around VPS50 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
VPS50 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for VPS50 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for VPS50 Gene

Proteins for VPS50 Gene

  • Protein details for VPS50 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q96JG6-VPS50_HUMAN
    Recommended name:
    Syndetin
    Protein Accession:
    Q96JG6
    Secondary Accessions:
    • B3KX22
    • D1MQ00
    • F5H5U7
    • Q75N07
    • Q8WVK3
    • Q9H5C6

    Protein attributes for VPS50 Gene

    Size:
    964 amino acids
    Molecular mass:
    111174 Da
    Quaternary structure:
    • Component of the endosome-associated retrograde protein (EARP) complex, composed of VPS51, VPS52, VPS53 and VPS50/Syndetin.
    Miscellaneous:
    • Was named syndetin after the Greek syndeo, which means connect or tether.
    SequenceCaution:
    • Sequence=BAB15701.1; Type=Erroneous initiation; Evidence={ECO:0000305}; Sequence=BAB47490.2; Type=Frameshift; Positions=2; Evidence={ECO:0000305};

    Alternative splice isoforms for VPS50 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for VPS50 Gene

Proteomics data for VPS50 Gene at MOPED

Post-translational modifications for VPS50 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for VPS50 Gene

Domains & Families for VPS50 Gene

Protein Domains for VPS50 Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for VPS50 Gene

Graphical View of Domain Structure for InterPro Entry

Q96JG6

UniProtKB/Swiss-Prot:

VPS50_HUMAN :
  • Belongs to the syndetin family.
Family:
  • Belongs to the syndetin family.
genes like me logo Genes that share domains with VPS50: view

No data available for Gene Families for VPS50 Gene

Function for VPS50 Gene

Molecular function for VPS50 Gene

UniProtKB/Swiss-Prot Function:
Acts as component of the EARP complex that is involved in endocytic recycling. The EARP complex associates with Rab4-positive endosomes and promotes recycling of internalized transferrin receptor (TFRC) to the plasma membrane. Within the EARP complex, required to tether the complex to recycling endosomes. Not involved in retrograde transport from early and late endosomes to the trans-Golgi network (TGN).
genes like me logo Genes that share phenotypes with VPS50: view

Animal Model Products

No data available for Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for VPS50 Gene

Localization for VPS50 Gene

Subcellular locations from UniProtKB/Swiss-Prot for VPS50 Gene

Recycling endosome.

Gene Ontology (GO) - Cellular Components for VPS50 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:1990745 EARP complex IDA 25799061
genes like me logo Genes that share ontologies with VPS50: view

No data available for Subcellular locations from COMPARTMENTS for VPS50 Gene

Pathways & Interactions for VPS50 Gene

SuperPathways for VPS50 Gene

No Data Available

Interacting Proteins for VPS50 Gene

STRING Interaction Network Preview (showing 1 interactants - click image to see details)
http://string-db.org/version_10/api/image/networkList?limit=0&targetmode=proteins&caller_identity=gene_cards&network_flavor=evidence&identifiers=9606.ENSP00000307666%0d%0a9606.ENSP00000344818%0d%0a
Selected Interacting proteins: ENSP00000307666 for VPS50 Gene via STRING

Symbol External ID(s) Details
UBC

Gene Ontology (GO) - Biological Process for VPS50 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for VPS50 Gene

Drugs & Compounds for VPS50 Gene

No Compound Related Data Available

Transcripts for VPS50 Gene

Alternative Splicing Database (ASD) splice patterns (SP) for VPS50 Gene

No ASD Table

Relevant External Links for VPS50 Gene

GeneLoc Exon Structure for
VPS50
ECgene alternative splicing isoforms for
VPS50

Expression for VPS50 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA Expression by UniProt/SwissProt for VPS50 Gene

Q96JG6-VPS50_HUMAN
Tissue specificity: Ubiquitous, with higher expression in brain and skeletal muscle.
genes like me logo Genes that share expression patterns with VPS50: view

In Situ Assay Products

No data available for mRNA expression in normal human tissues , mRNA differential expression in normal tissues , Protein differential expression in normal tissues , Protein expression and Protein tissue co-expression partners for VPS50 Gene

Orthologs for VPS50 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for VPS50 Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
Mammalia CCDC132 35
  • 93.19 (n)
  • 97.72 (a)
CCDC132 36
  • 98 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Ccdc132 35
  • 89.94 (n)
  • 96.37 (a)
mouse
(Mus musculus)
Mammalia Vps50 16
Ccdc132 36
  • 96 (a)
OneToOne
Ccdc132 35
  • 89.56 (n)
  • 96.27 (a)
dog
(Canis familiaris)
Mammalia CCDC132 36
  • 99 (a)
OneToOne
CCDC132 35
  • 93.6 (n)
  • 98.96 (a)
chimpanzee
(Pan troglodytes)
Mammalia CCDC132 36
  • 100 (a)
OneToOne
CCDC132 35
  • 99.65 (n)
  • 99.59 (a)
platypus
(Ornithorhynchus anatinus)
Mammalia CCDC132 36
  • 65 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia CCDC132 36
  • 67 (a)
OneToOne
chicken
(Gallus gallus)
Aves CCDC132 36
  • 91 (a)
OneToOne
CCDC132 35
  • 81.96 (n)
  • 91.44 (a)
lizard
(Anolis carolinensis)
Reptilia CCDC132 36
  • 91 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia ccdc132 35
  • 77.8 (n)
  • 87.97 (a)
zebrafish
(Danio rerio)
Actinopterygii si:ch211-287b5.1 35
  • 71.38 (n)
  • 83.97 (a)
CCDC132 (1 of 2) 36
  • 84 (a)
OneToMany
CCDC132 (2 of 2) 36
  • 87 (a)
OneToMany
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP000343 35
  • 42.89 (n)
  • 34.13 (a)
fruit fly
(Drosophila melanogaster)
Insecta CG4996 35
  • 47.08 (n)
  • 36.08 (a)
CG4996 36
  • 32 (a)
OneToOne
worm
(Caenorhabditis elegans)
Secernentea C44B9.1 35
  • 44.59 (n)
  • 32.23 (a)
vesa-1 36
  • 28 (a)
OneToOne
thale cress
(Arabidopsis thaliana)
eudicotyledons AT2G27900 35
  • 43.28 (n)
  • 29.83 (a)
rice
(Oryza sativa)
Liliopsida Os10g0546300 35
  • 41.87 (n)
  • 28.17 (a)
sea squirt
(Ciona savignyi)
Ascidiacea -- 36
  • 48 (a)
OneToOne
Species with no ortholog for VPS50:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for VPS50 Gene

ENSEMBL:
Gene Tree for VPS50 (if available)
TreeFam:
Gene Tree for VPS50 (if available)

Paralogs for VPS50 Gene

No data available for Paralogs for VPS50 Gene

Variants for VPS50 Gene

Sequence variations from dbSNP and Humsavar for VPS50 Gene

SNP ID Clin Chr 07 pos Sequence Context AA Info Type
rs722263 -- 93,257,500(-) ATTGT(C/T)CAGCT intron-variant
rs725828 -- 93,269,771(+) TCTCA(A/G)AACTT intron-variant
rs763682 -- 93,265,101(-) GATTA(G/T)GAAAG intron-variant
rs1013642 -- 93,240,203(+) CAGTT(A/G)TATAT intron-variant
rs2188402 -- 93,290,650(+) GATTA(A/T)GCCAT intron-variant

Variation tolerance for VPS50 Gene

Residual Variation Intolerance Score: 8.22% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.11; 51.10% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for VPS50 Gene

HapMap Linkage Disequilibrium report
VPS50

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Structural Variations from Database of Genomic Variants (DGV) for VPS50 Gene

Disorders for VPS50 Gene

Relevant External Links for VPS50

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
VPS50
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
VPS50

No disorders were found for VPS50 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for VPS50 Gene

Publications for VPS50 Gene

  1. EARP is a multisubunit tethering complex involved in endocytic recycling. (PMID: 25799061) Schindler C. … Bonifacino J.S. (Nat. Cell Biol. 2015) 2 3 4 67
  2. Toward a comprehensive map of the effectors of rab GTPases. (PMID: 25453831) Gillingham A.K. … Munro S. (Dev. Cell 2014) 2 3
  3. Prediction of the coding sequences of unidentified human genes. XX. The complete sequences of 100 new cDNA clones from brain which code for large proteins in vitro. (PMID: 11347906) Nagase T. … Ohara O. (DNA Res. 2001) 2 3
  4. Temporal proteomics of NGF-TrkA signaling identifies an inhibitory role for the E3 ligase Cbl-b in neuroblastoma cell differentiation. (PMID: 25921289) Emdal K.B. … Olsen J.V. (Sci Signal 2015) 3
  5. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin E.L. … Gygi S.P. (Cell 2015) 3

Products for VPS50 Gene

Sources for VPS50 Gene

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