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AP1S3 adaptor related protein complex 1 subunit sigma 3 [ Homo sapiens (human) ]

Gene ID: 130340, updated on 7-Jun-2020

Summary

Official Symbol
AP1S3provided by HGNC
Official Full Name
adaptor related protein complex 1 subunit sigma 3provided by HGNC
Primary source
HGNC:HGNC:18971
See related
Ensembl:ENSG00000152056 MIM:615781
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
PSORS15
Summary
This gene encodes a member of the adaptor-related protein complex 1, sigma subunit genes. The encoded protein is a component of adaptor protein complex 1 (AP-1), one of the AP complexes involved in claathrin-mediated vesicular transport from the Golgi or endosomes. Disruption of the pathway for display of HIV-1 antigens, which prevents recognition of the virus by cytotoxic T cells, has been shown to involve the AP-1 complex (PMID: 15569716). Alternative splicing results in multiple transcript variants. [provided by RefSeq, Mar 2014]
Expression
Broad expression in thyroid (RPKM 6.9), stomach (RPKM 3.1) and 16 other tissues See more
Orthologs

Genomic context

See AP1S3 in Genome Data Viewer
Location:
2q36.1
Exon count:
6
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 2 NC_000002.12 (223755326..223837582, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 2 NC_000002.11 (224616403..224702319, complement)

Chromosome 2 - NC_000002.12Genomic Context describing neighboring genes Neighboring gene Sharpr-MPRA regulatory region 6301 Neighboring gene MLX pseudogene 1 Neighboring gene WD repeat and FYVE domain containing 1 Neighboring gene general transcription factor IIIA pseudogene 3 Neighboring gene mitochondrial ribosomal protein L44

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 highly conserved C-terminal dileucine motif (residues 851-856) in the cytosolic domain of HIV-1 gp41 interacts with clathrin-associated AP-1 adaptor complexes PubMed
env The cytoplasmic domain (residues 707-856) of HIV-1 gp41 interacts with whole clathrin-associated AP-1 and AP-2 adaptor complexes PubMed
Nef nef Genome-wide shRNA screening identifies AP1S3, which is required for HIV-1 Nef-induced downregulation of CD4 in HeLa CD4+ cells PubMed
nef Adaptor-related protein complex 1 (AP-1) is necessary for cross-presentation by MHC-I HLA-A and HLA-B molecules containing a cytoplasmic tail tyrosine signal and that HIV-1 Nef inhibits the cross-presentation in antigen-presenting cells PubMed
nef HIV-1 Nef stabilizes AP-1 complexes on endosomal membranes after ADP-ribosylation factor-1 (ARF1) -dependent attachment PubMed
nef The dileucine motif (residues 164-165) in HIV-1 Nef is required for binding to AP-1 complexes and stabilizing their association with membranes PubMed
nef A leucine-based motif near the C-terminus of HIV-1 Nef interacts with AP-1 complexes; residues 164 and 165 in Nef are required for the interaction with AP-1 PubMed

Go to the HIV-1, Human Interaction Database

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
antigen processing and presentation of exogenous peptide antigen via MHC class II TAS
Traceable Author Statement
more info
 
protein targeting IMP
Inferred from Mutant Phenotype
more info
PubMed 
regulation of defense response to virus by virus TAS
Traceable Author Statement
more info
 
vesicle-mediated transport IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
Golgi membrane TAS
Traceable Author Statement
more info
 
clathrin-coated pit IEA
Inferred from Electronic Annotation
more info
 
cytoplasmic vesicle membrane TAS
Traceable Author Statement
more info
 
cytosol TAS
Traceable Author Statement
more info
 
intracellular membrane-bounded organelle IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
intracellular membrane-bounded organelle IDA
Inferred from Direct Assay
more info
 
lysosomal membrane TAS
Traceable Author Statement
more info
 
membrane coat IEA
Inferred from Electronic Annotation
more info
 
trans-Golgi network membrane TAS
Traceable Author Statement
more info
 

General protein information

Preferred Names
AP-1 complex subunit sigma-3
Names
adapter-related protein complex 1 subunit sigma-1C
adaptor protein complex AP-1 sigma-1C subunit
adaptor related protein complex 1 sigma 3 subunit
adaptor-related protein complex 1 subunit sigma-1C
clathrin assembly protein complex 1 sigma-1C small chain
golgi adaptor HA1/AP1 adaptin sigma-1C subunit
sigma 1C subunit of AP-1 clathrin

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_034017.1 RefSeqGene

    Range
    5021..87277
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001039569.2NP_001034658.1  AP-1 complex subunit sigma-3

    See identical proteins and their annotated locations for NP_001034658.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes the functional protein.
    Source sequence(s)
    AC093884, BE856458, BG177582, BG340480
    Consensus CDS
    CCDS42827.1
    UniProtKB/Swiss-Prot
    Q96PC3
    Related
    ENSP00000379891.2, ENST00000396654.7
    Conserved Domains (1) summary
    pfam01217
    Location:1142
    Clat_adaptor_s; Clathrin adaptor complex small chain

RNA

  1. NR_110905.2 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) contains an alternate internal exon, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AC093884, AK025338, BC009606, BC021898
  2. NR_110906.2 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) lacks an alternate internal exon, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AC093884, AK025338, BC021898

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000002.12 Reference GRCh38.p13 Primary Assembly

    Range
    223755326..223837582 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011510600.3XP_011508902.1  AP-1 complex subunit sigma-3 isoform X1

    Related
    ENSP00000401705.1, ENST00000415298.5
    Conserved Domains (1) summary
    cl02092
    Location:1100
    Clat_adaptor_s; Clathrin adaptor complex small chain

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_178814.2: Suppressed sequence

    Description
    NM_178814.2: This RefSeq was permanently suppressed because it is a nonsense-mediated decay (NMD) candidate.
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