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Ap3d1 adaptor related protein complex 3 subunit delta 1 [ Rattus norvegicus (Norway rat) ]

Gene ID: 314633, updated on 5-Mar-2024

Summary

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Official Symbol
Ap3d1provided by RGD
Official Full Name
adaptor related protein complex 3 subunit delta 1provided by RGD
Primary source
RGD:1308659
See related
Ensembl:ENSRNOG00000018977 AllianceGenome:RGD:1308659
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
Ap3d
Summary
Involved in synaptic vesicle budding from endosome. Predicted to be located in axon and postsynapse. Predicted to be part of AP-3 adaptor complex. Predicted to be active in endosome; glutamatergic synapse; and terminal bouton. Human ortholog(s) of this gene implicated in Hermansky-Pudlak syndrome. Orthologous to human AP3D1 (adaptor related protein complex 3 subunit delta 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Kidney (RPKM 201.8), Brain (RPKM 185.0) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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Location:
7q11
Exon count:
30
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 7 NC_086025.1 (9620909..9656350)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 7 NC_051342.1 (8970249..9005651)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 7 NC_005106.4 (11838639..11873992)

Chromosome 7 - NC_086025.1Genomic Context describing neighboring genes Neighboring gene pleckstrin homology domain containing J1 Neighboring gene DOT1 like histone lysine methyltransferase Neighboring gene uncharacterized LOC134479808 Neighboring gene uncharacterized LOC120093774 Neighboring gene IZUMO family member 4 Neighboring gene MOB kinase activator 3A

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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Related articles in PubMed

  1. Adaptor protein complexes 1 and 3 are essential for generation of synaptic vesicles from activity-dependent bulk endosomes. Cheung G, et al. J Neurosci, 2012 Apr 25. PMID 22539861, Free PMC Article
  2. Self-assembly of VPS41 promotes sorting required for biogenesis of the regulated secretory pathway. Asensio CS, et al. Dev Cell, 2013 Nov 25. PMID 24210660, Free PMC Article
  3. The neuronal form of adaptor protein-3 is required for synaptic vesicle formation from endosomes. Blumstein J, et al. J Neurosci, 2001 Oct 15. PMID 11588176, Free PMC Article
  4. Hermansky-Pudlak protein complexes, AP-3 and BLOC-1, differentially regulate presynaptic composition in the striatum and hippocampus. Newell-Litwa K, et al. J Neurosci, 2010 Jan 20. PMID 20089890, Free PMC Article
  5. Vglut1 and ZnT3 co-targeting mechanisms regulate vesicular zinc stores in PC12 cells. Salazar G, et al. J Cell Sci, 2005 May 1. PMID 15860731

See all (18) citations in PubMed

GeneRIFs: Gene References Into Functions

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in Golgi to vacuole transport IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in anterograde axonal transport ISO
Inferred from Sequence Orthology
more info
  
involved_in anterograde synaptic vesicle transport IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in anterograde synaptic vesicle transport ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within antigen processing and presentation ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within antigen processing and presentation, exogenous lipid antigen via MHC class Ib ISO
Inferred from Sequence Orthology
more info
  
involved_in endosome to melanosome transport ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within intracellular protein transport ISO
Inferred from Sequence Orthology
more info
  
involved_in neurotransmitter receptor transport, postsynaptic endosome to lysosome IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in neurotransmitter receptor transport, postsynaptic endosome to lysosome ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within positive regulation of NK T cell differentiation ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_positive_effect positive regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
  
involved_in protein localization to membrane ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within protein localization to organelle ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within protein targeting ISO
Inferred from Sequence Orthology
more info
  
involved_in protein targeting to vacuole IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in synaptic vesicle budding from endosome IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in synaptic vesicle budding from endosome IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in synaptic vesicle budding from endosome IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in synaptic vesicle budding from endosome ISO
Inferred from Sequence Orthology
more info
  
involved_in synaptic vesicle membrane organization IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within synaptic vesicle membrane organization ISO
Inferred from Sequence Orthology
more info
  
involved_in vesicle-mediated transport in synapse ISO
Inferred from Sequence Orthology
more info
  
involved_in zinc ion import into lysosome ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
part_of AP-3 adaptor complex IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in axon ISO
Inferred from Sequence Orthology
more info
  
located_in axon cytoplasm IEA
Inferred from Electronic Annotation
more info
  
is_active_in endosome membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in endosome membrane ISO
Inferred from Sequence Orthology
more info
  
is_active_in glutamatergic synapse ISO
Inferred from Sequence Orthology
more info
  
is_active_in postsynapse ISO
Inferred from Sequence Orthology
more info
  
is_active_in presynapse ISO
Inferred from Sequence Orthology
more info
  
is_active_in presynaptic endosome IBA
Inferred from Biological aspect of Ancestor
more info
  
is_active_in presynaptic endosome ISO
Inferred from Sequence Orthology
more info
  
is_active_in terminal bouton IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in terminal bouton ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
AP-3 complex subunit delta-1
Names
adaptor-related protein complex 3, delta 1 subunit
adaptor-related protein complex 3, delta subunit

NCBI Reference Sequences (RefSeq)

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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.

mRNA and Protein(s)

  1. NM_001100719.1 → NP_001094189.1  AP-3 complex subunit delta-1

    See identical proteins and their annotated locations for NP_001094189.1

    Status: PROVISIONAL

    Source sequence(s)
    BC169097
    UniProtKB/TrEMBL
    A0A8I6AM24, B5DFK6, F7F0K5
    Related
    ENSRNOP00000025878.5, ENSRNOT00000025878.6
    Conserved Domains (4) summary
    pfam01602
    Location:32 → 581
    Adaptin_N; Adaptin N terminal region
    pfam06375
    Location:661 → 803
    BLVR; Bovine leukaemia virus receptor (BLVR)
    pfam12717
    Location:155 → 265
    Cnd1; non-SMC mitotic condensation complex subunit 1
    sd00044
    Location:151 → 172
    HEAT; HEAT repeat [structural motif]

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

  1. NC_086025.1 Reference GRCr8

    Range
    9620909..9656350
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_063263422.1 → XP_063119492.1  AP-3 complex subunit delta-1 isoform X1

  2. XM_039079008.2 → XP_038934936.1  AP-3 complex subunit delta-1 isoform X3

    UniProtKB/TrEMBL
    A6K8H3
    Conserved Domains (3) summary
    sd00044
    Location:151 → 172
    HEAT; HEAT repeat [structural motif]
    pfam01602
    Location:32 → 581
    Adaptin_N; Adaptin N terminal region
    pfam06375
    Location:661 → 803
    AP3D1; AP-3 complex subunit delta-1

  3. XM_063263423.1 → XP_063119493.1  AP-3 complex subunit delta-1 isoform X2

Nucleotide Protein Strain
Heading Accession and Version

Gene LinkOut

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