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VPS35 VPS35, retromer complex component [ Homo sapiens (human) ]

Gene ID: 55737, updated on 9-Dec-2018

Summary

Official Symbol
VPS35provided by HGNC
Official Full Name
VPS35, retromer complex componentprovided by HGNC
Primary source
HGNC:HGNC:13487
See related
Ensembl:ENSG00000069329 MIM:601501
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
MEM3; PARK17
Summary
This gene belongs to a group of vacuolar protein sorting (VPS) genes. The encoded protein is a component of a large multimeric complex, termed the retromer complex, involved in retrograde transport of proteins from endosomes to the trans-Golgi network. The close structural similarity between the yeast and human proteins that make up this complex suggests a similarity in function. Expression studies in yeast and mammalian cells indicate that this protein interacts directly with VPS35, which serves as the core of the retromer complex. [provided by RefSeq, Jul 2008]
Expression
Ubiquitous expression in small intestine (RPKM 28.7), urinary bladder (RPKM 22.9) and 25 other tissues See more
Orthologs

Genomic context

See VPS35 in Genome Data Viewer
Location:
16q11.2
Exon count:
17
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) 16 NC_000016.10 (46657979..46689232, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 16 NC_000016.9 (46693589..46723144, complement)

Chromosome 16 - NC_000016.10Genomic Context describing neighboring genes Neighboring gene SHC binding and spindle associated 1 Neighboring gene RAB43 pseudogene 1 Neighboring gene origin recognition complex subunit 6 Neighboring gene myosin light chain kinase 3

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Jun 15 11:32:44 2016

Bibliography

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Envelope transmembrane glycoprotein gp41 env The gp41 cytoplasmic tail binds directly to retromer components VPS26 and VPS35 in HIV-1-infected cells PubMed
Tat tat Expression of HIV-1 Tat upregulates the abundance of vacuolar protein sorting 35 homolog (VPS35) in the nucleoli of Jurkat T-cells PubMed

Go to the HIV-1, Human Interaction Database

Pathways from BioSystems

  • Endocytosis, organism-specific biosystem (from KEGG)
    Endocytosis, organism-specific biosystemEndocytosis is a mechanism for cells to remove ligands, nutrients, and plasma membrane (PM) proteins, and lipids from the cell surface, bringing them into the cell interior. Transmembrane proteins en...
  • Endocytosis, conserved biosystem (from KEGG)
    Endocytosis, conserved biosystemEndocytosis is a mechanism for cells to remove ligands, nutrients, and plasma membrane (PM) proteins, and lipids from the cell surface, bringing them into the cell interior. Transmembrane proteins en...
  • Signal Transduction, organism-specific biosystem (from REACTOME)
    Signal Transduction, organism-specific biosystemSignal transduction is a process in which extracellular signals elicit changes in cell state and activity. Transmembrane receptors sense changes in the cellular environment by binding ligands, such a...
  • Signaling by Wnt, organism-specific biosystem (from REACTOME)
    Signaling by Wnt, organism-specific biosystemWNT signaling pathways control a wide range of developmental and adult process in metozoans including cell proliferation, cell fate decisions, cell polarity and stem cell maintenance (reviewed in Sai...
  • WNT ligand biogenesis and trafficking, organism-specific biosystem (from REACTOME)
    WNT ligand biogenesis and trafficking, organism-specific biosystem19 WNT proteins have been identified in human cells. The WNTs are members of a conserved metazoan family of secreted morphogens that activate several signaling pathways in the responding cell: the c...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ10752, FLJ13588, FLJ20388, DKFZp434E1211, DKFZp434P1672

Gene Ontology Provided by GOA

Function Evidence Code Pubs
D1 dopamine receptor binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein transporter activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Process Evidence Code Pubs
Wnt signaling pathway NAS
Non-traceable Author Statement
more info
PubMed 
Wnt signaling pathway TAS
Traceable Author Statement
more info
 
intracellular protein transport IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
lysosome organization IEA
Inferred from Electronic Annotation
more info
 
mitochondrial fragmentation involved in apoptotic process IMP
Inferred from Mutant Phenotype
more info
PubMed 
mitochondrion to lysosome transport IMP
Inferred from Mutant Phenotype
more info
PubMed 
negative regulation of cell death IGI
Inferred from Genetic Interaction
more info
PubMed 
negative regulation of cellular protein localization IEA
Inferred from Electronic Annotation
more info
 
negative regulation of gene expression IEA
Inferred from Electronic Annotation
more info
 
negative regulation of inflammatory response IGI
Inferred from Genetic Interaction
more info
PubMed 
negative regulation of late endosome to lysosome transport IMP
Inferred from Mutant Phenotype
more info
PubMed 
negative regulation of lysosomal protein catabolic process IEA
Inferred from Electronic Annotation
more info
 
negative regulation of neuron death IGI
Inferred from Genetic Interaction
more info
PubMed 
negative regulation of protein homooligomerization IEA
Inferred from Electronic Annotation
more info
 
neurotransmitter receptor transport, endosome to plasma membrane IDA
Inferred from Direct Assay
more info
PubMed 
neurotransmitter receptor transport, endosome to postsynaptic membrane IEA
Inferred from Electronic Annotation
more info
 
positive regulation of Wnt protein secretion IEA
Inferred from Electronic Annotation
more info
 
positive regulation of canonical Wnt signaling pathway IEA
Inferred from Electronic Annotation
more info
 
positive regulation of cellular protein catabolic process IGI
Inferred from Genetic Interaction
more info
PubMed 
positive regulation of dopamine biosynthetic process IEA
Inferred from Electronic Annotation
more info
 
positive regulation of dopamine receptor signaling pathway IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of gene expression IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of locomotion involved in locomotory behavior IEA
Inferred from Electronic Annotation
more info
 
positive regulation of mitochondrial fission IMP
Inferred from Mutant Phenotype
more info
PubMed 
protein destabilization IEA
Inferred from Electronic Annotation
more info
 
protein localization to organelle IEA
Inferred from Electronic Annotation
more info
 
regulation of cellular protein metabolic process IDA
Inferred from Direct Assay
more info
PubMed 
regulation of cellular protein metabolic process IGI
Inferred from Genetic Interaction
more info
PubMed 
regulation of dendritic spine maintenance IMP
Inferred from Mutant Phenotype
more info
PubMed 
regulation of macroautophagy TAS
Traceable Author Statement
more info
PubMed 
regulation of mitochondrion organization IGI
Inferred from Genetic Interaction
more info
PubMed 
regulation of presynapse assembly ISS
Inferred from Sequence or Structural Similarity
more info
PubMed 
regulation of protein stability IMP
Inferred from Mutant Phenotype
more info
PubMed 
regulation of terminal button organization IMP
Inferred from Mutant Phenotype
more info
PubMed 
retrograde transport, endosome to Golgi IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
retrograde transport, endosome to Golgi IMP
Inferred from Mutant Phenotype
more info
PubMed 
retrograde transport, endosome to Golgi NAS
Non-traceable Author Statement
more info
PubMed 
retrograde transport, endosome to plasma membrane IMP
Inferred from Mutant Phenotype
more info
PubMed 
synapse assembly IEA
Inferred from Electronic Annotation
more info
 
transcytosis IDA
Inferred from Direct Assay
more info
PubMed 
vesicle-mediated transport in synapse IEA
Inferred from Electronic Annotation
more info
 
viral process IEA
Inferred from Electronic Annotation
more info
 
voluntary musculoskeletal movement IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
cytosol IDA
Inferred from Direct Assay
more info
PubMed 
cytosol TAS
Traceable Author Statement
more info
 
early endosome IDA
Inferred from Direct Assay
more info
PubMed 
endosome IDA
Inferred from Direct Assay
more info
PubMed 
endosome membrane IDA
Inferred from Direct Assay
more info
PubMed 
extracellular exosome HDA PubMed 
glutamatergic synapse IEA
Inferred from Electronic Annotation
more info
 
late endosome IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
lysosomal membrane HDA PubMed 
lysosome IDA
Inferred from Direct Assay
more info
 
colocalizes_with mitochondrion IDA
Inferred from Direct Assay
more info
PubMed 
mitochondrion-derived vesicle IDA
Inferred from Direct Assay
more info
PubMed 
neuron projection IEA
Inferred from Electronic Annotation
more info
 
neuronal cell body IEA
Inferred from Electronic Annotation
more info
 
perinuclear region of cytoplasm IEA
Inferred from Electronic Annotation
more info
 
plasma membrane IEA
Inferred from Electronic Annotation
more info
 
postsynaptic density IEA
Inferred from Electronic Annotation
more info
 
presynapse IEA
Inferred from Electronic Annotation
more info
 
retromer complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
retromer complex IDA
Inferred from Direct Assay
more info
PubMed 
retromer complex NAS
Non-traceable Author Statement
more info
PubMed 
retromer complex TAS
Traceable Author Statement
more info
PubMed 
retromer, cargo-selective complex IDA
Inferred from Direct Assay
more info
PubMed 
retromer, cargo-selective complex NAS
Non-traceable Author Statement
more info
PubMed 
tubular endosome IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
vacuolar protein sorting-associated protein 35
Names
hVPS35
maternal-embryonic 3
vacuolar protein sorting 35 homolog

NCBI Reference Sequences (RefSeq)

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

Genomic

  1. NG_029970.1 RefSeqGene

    Range
    5001..36254
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_018206.5NP_060676.2  vacuolar protein sorting-associated protein 35

    See identical proteins and their annotated locations for NP_060676.2

    Status: REVIEWED

    Source sequence(s)
    AC012186, BC093036, BQ574179, BU621624, DB049686
    Consensus CDS
    CCDS10721.1
    UniProtKB/Swiss-Prot
    Q96QK1
    Related
    ENSP00000299138.7, ENST00000299138.11
    Conserved Domains (1) summary
    pfam03635
    Location:15752
    Vps35; Vacuolar protein sorting-associated protein 35

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109 details...Open this link in a new tab

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p12 Primary Assembly

Genomic

  1. NC_000016.10 Reference GRCh38.p12 Primary Assembly

    Range
    46657979..46689232 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005256045.3XP_005256102.1  vacuolar protein sorting-associated protein 35 isoform X2

    See identical proteins and their annotated locations for XP_005256102.1

    Conserved Domains (1) summary
    pfam03635
    Location:1685
    Vps35; Vacuolar protein sorting-associated protein 35
  2. XM_011523227.3XP_011521529.1  vacuolar protein sorting-associated protein 35 isoform X1

    See identical proteins and their annotated locations for XP_011521529.1

    Conserved Domains (1) summary
    pfam03635
    Location:1723
    Vps35; Vacuolar protein sorting-associated protein 35
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