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

    Gene ID: 55737, updated on 20-May-2024

    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; AllianceGenome:HGNC:13487
    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
    NEW
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    Try the new Transcript table

    Genomic context

    See VPS35 in Genome Data Viewer
    Location:
    16q11.2
    Exon count:
    17
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 16 NC_000016.10 (46656132..46689178, complement)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 16 NC_060940.1 (52452996..52486052, complement)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 16 NC_000016.9 (46690044..46723090, complement)

    Chromosome 16 - NC_000016.10Genomic Context describing neighboring genes Neighboring gene SHC binding and spindle associated 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10770 Neighboring gene H3K27ac hESC enhancer GRCh37_chr16:46654434-46655022 Neighboring gene H3K27ac hESC enhancer GRCh37_chr16:46655023-46655609 Neighboring gene RAB43 pseudogene 1 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7430 Neighboring gene H3K27ac hESC enhancer GRCh37_chr16:46722561-46723258 Neighboring gene H3K27ac hESC enhancer GRCh37_chr16:46723259-46723957 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10771 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10772 Neighboring gene origin recognition complex subunit 6 Neighboring gene myosin light chain kinase 3 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:46760810-46761360 Neighboring gene H3K27ac hESC enhancer GRCh37_chr16:46769513-46770212 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10773 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:46781193-46782042 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:46790891-46791426

    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 Apr 4 07:08:55 2018

    Bibliography

    GeneRIFs: Gene References Into Functions

    What'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 PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • FLJ10752, FLJ13588, FLJ20388, DKFZp434E1211, DKFZp434P1672

    Gene Ontology Provided by GOA

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

    NEW Try the new Transcript table

    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_029970.2 RefSeqGene

      Range
      5000..38046
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_018206.6NP_060676.2  vacuolar protein sorting-associated protein 35

      See identical proteins and their annotated locations for NP_060676.2

      Status: REVIEWED

      Source sequence(s)
      AC007225, AC012186
      Consensus CDS
      CCDS10721.1
      UniProtKB/Swiss-Prot
      Q561W2, Q96QK1, Q9H016, Q9H096, Q9H4P3, Q9H8J0, Q9NRS7, Q9NVG2, Q9NX80, Q9NZK2
      UniProtKB/TrEMBL
      Q53FR4
      Related
      ENSP00000299138.7, ENST00000299138.12
      Conserved Domains (1) summary
      pfam03635
      Location:15752
      Vps35; Vacuolar protein sorting-associated protein 35

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000016.10 Reference GRCh38.p14 Primary Assembly

      Range
      46656132..46689178 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011523227.4XP_011521529.1  vacuolar protein sorting-associated protein 35 isoform X1

      See identical proteins and their annotated locations for XP_011521529.1

      UniProtKB/TrEMBL
      Q53FR4
      Conserved Domains (1) summary
      pfam03635
      Location:1723
      Vps35; Vacuolar protein sorting-associated protein 35
    2. XM_005256045.4XP_005256102.1  vacuolar protein sorting-associated protein 35 isoform X2

      See identical proteins and their annotated locations for XP_005256102.1

      UniProtKB/TrEMBL
      Q53FR4
      Conserved Domains (1) summary
      pfam03635
      Location:1685
      Vps35; Vacuolar protein sorting-associated protein 35

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060940.1 Alternate T2T-CHM13v2.0

      Range
      52452996..52486052 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054313466.1XP_054169441.1  vacuolar protein sorting-associated protein 35 isoform X1

    2. XM_054313467.1XP_054169442.1  vacuolar protein sorting-associated protein 35 isoform X2