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GGA3 golgi associated, gamma adaptin ear containing, ARF binding protein 3 [ Homo sapiens (human) ]

Gene ID: 23163, updated on 9-Dec-2018

Summary

Official Symbol
GGA3provided by HGNC
Official Full Name
golgi associated, gamma adaptin ear containing, ARF binding protein 3provided by HGNC
Primary source
HGNC:HGNC:17079
See related
Ensembl:ENSG00000125447 MIM:606006
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
Summary
This gene encodes a member of the Golgi-localized, gamma adaptin ear-containing, ARF-binding (GGA) family. This family includes ubiquitous coat proteins that regulate the trafficking of proteins between the trans-Golgi network and the lysosome. These proteins share an amino-terminal VHS domain which mediates sorting of the mannose 6-phosphate receptors at the trans-Golgi network. They also contain a carboxy-terminal region with homology to the ear domain of gamma-adaptins. Multiple alternatively spliced transcript variants have been identified in this gene. [provided by RefSeq, Feb 2010]
Expression
Ubiquitous expression in spleen (RPKM 11.9), lymph node (RPKM 11.0) and 25 other tissues See more
Orthologs

Genomic context

See GGA3 in Genome Data Viewer
Location:
17q25.1
Exon count:
20
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) 17 NC_000017.11 (75225464..75262393, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 17 NC_000017.10 (73232694..73258444, complement)

Chromosome 17 - NC_000017.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC107985034 Neighboring gene Jupiter microtubule associated homolog 1 Neighboring gene small ubiquitin-like modifier 2 Neighboring gene nucleoporin 85 Neighboring gene uncharacterized LOC100287042 Neighboring gene mitochondrial ribosomal protein S7 Neighboring gene MIF4G domain containing Neighboring gene solute carrier family 25 member 19

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 FunctionsWhat's a GeneRIF?

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Pr55(Gag) gag siRNA-mediated depletion of GGA3 leads to a significant increase in particle release in an HIV-1 Gag late domain-dependent manner, while GGA3 overexpression severely reduces virus particle production by impairing Gag trafficking to the membrane PubMed
Vpr vpr Expression of a patient-derived HIV-1 Vpr protein reveals a significant reduction in Vpr nuclear import. Vpr F72L mutation is responsible for this decreased Vpr nuclear import and the F72L mutant is co-localized with gamma-adaptin in the Golgi apparatus PubMed

Go to the HIV-1, Human Interaction Database

Pathways from BioSystems

  • Amyloid fiber formation, organism-specific biosystem (from REACTOME)
    Amyloid fiber formation, organism-specific biosystemAmyloid is a term used to describe deposits of fibrillar proteins, typically extracellular. The abnormal accumulation of amyloid, amyloidosis, is a term associated with tissue damage caused by amyloi...
  • Arf1 pathway, organism-specific biosystem (from Pathway Interaction Database)
    Arf1 pathway, organism-specific biosystem
    Arf1 pathway
  • Lysosome, organism-specific biosystem (from KEGG)
    Lysosome, organism-specific biosystemLysosomes are membrane-delimited organelles in animal cells serving as the cell's main digestive compartment to which all sorts of macromolecules are delivered for degradation. They contain more than...
  • Lysosome, conserved biosystem (from KEGG)
    Lysosome, conserved biosystemLysosomes are membrane-delimited organelles in animal cells serving as the cell's main digestive compartment to which all sorts of macromolecules are delivered for degradation. They contain more than...
  • MET receptor recycling, organism-specific biosystem (from REACTOME)
    MET receptor recycling, organism-specific biosystemActivated MET receptor is subject to recycling from the plasma membrane through the endosomal compartment and back to the plasma membrane (Peschard et al. 2001, Hammond et al. 2001, Petrelli et al. 2...
  • Membrane Trafficking, organism-specific biosystem (from REACTOME)
    Membrane Trafficking, organism-specific biosystemThe secretory membrane system allows a cell to regulate delivery of newly synthesized proteins, carbohydrates, and lipids to the cell surface, a necessity for growth and homeostasis. The system is ma...
  • Metabolism of proteins, organism-specific biosystem (from REACTOME)
    Metabolism of proteins, organism-specific biosystemProtein metabolism comprises the pathways of translation, post-translational modification and protein folding.
  • 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 MET, organism-specific biosystem (from REACTOME)
    Signaling by MET, organism-specific biosystemMET is a receptor tyrosine kinase (RTK) (Cooper et al. 1984, Park et al. 1984) activated by binding to its ligand, Hepatocyte growth factor/Scatter factor (HGF/SF) (Bottaro et al. 1991, Naldini et al...
  • TBC/RABGAPs, organism-specific biosystem (from REACTOME)
    TBC/RABGAPs, organism-specific biosystemRab GTPases are peripheral membrane proteins involved in membrane trafficking. Often through their indirect interactions with coat components, motors, tethering factors and SNAREs, the Rab GTPases se...
  • Vesicle-mediated transport, organism-specific biosystem (from REACTOME)
    Vesicle-mediated transport, organism-specific biosystemThe transit of proteins and other cargo through the cell requires a cellular transport process in which transported substances are moved in membrane-bounded vesicles. Transported substances are enclo...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • KIAA0154

Gene Ontology Provided by GOA

Function Evidence Code Pubs
ADP-ribosylation factor binding IDA
Inferred from Direct Assay
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
ubiquitin binding IDA
Inferred from Direct Assay
more info
PubMed 
Process Evidence Code Pubs
Golgi to plasma membrane protein transport IMP
Inferred from Mutant Phenotype
more info
PubMed 
cellular protein metabolic process TAS
Traceable Author Statement
more info
 
endocytic recycling IEA
Inferred from Electronic Annotation
more info
 
intracellular protein transport NAS
Non-traceable Author Statement
more info
PubMed 
negative regulation of amyloid-beta formation IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of protein catabolic process IEA
Inferred from Electronic Annotation
more info
 
protein destabilization IDA
Inferred from Direct Assay
more info
PubMed 
protein localization to cell surface IMP
Inferred from Mutant Phenotype
more info
PubMed 
protein localization to lysosome IEA
Inferred from Electronic Annotation
more info
 
regulation of protein stability IDA
Inferred from Direct Assay
more info
PubMed 
Component Evidence Code Pubs
Golgi apparatus IDA
Inferred from Direct Assay
more info
 
early endosome membrane TAS
Traceable Author Statement
more info
 
endosome membrane TAS
Traceable Author Statement
more info
 
recycling endosome membrane TAS
Traceable Author Statement
more info
 
trans-Golgi network IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
ADP-ribosylation factor-binding protein GGA3
Names
Golgi-localized, gamma ear-containing, ARF-binding protein 3

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.

mRNA and Protein(s)

  1. NM_001172703.2NP_001166174.1  ADP-ribosylation factor-binding protein GGA3 isoform 1

    See identical proteins and their annotated locations for NP_001166174.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) contains an alternate 5' terminal exon, and it thus differs in its 5' UTR and initiates translation at a downstream in-frame start codon, compared to variant long. The encoded isoform (1) is shorter at the N-terminus, compared to isoform long. Both variants 1 and 3 encode isoform 1.
    Source sequence(s)
    AF190864, AK301895, AK302278, CB240770, HY030361
    Consensus CDS
    CCDS54164.1
    UniProtKB/Swiss-Prot
    Q9NZ52
    Related
    ENSP00000462081.1, ENST00000582717.5
    Conserved Domains (3) summary
    smart00809
    Location:529643
    Alpha_adaptinC2; Adaptin C-terminal domain
    cd14240
    Location:141227
    GAT_GGA3; GAT domain found in ADP-ribosylation factor-binding protein GGA3
    cl02544
    Location:174
    VHS_ENTH_ANTH; VHS, ENTH and ANTH domain superfamily; composed of proteins containing a VHS, ENTH or ANTH domain. The VHS domain is present in Vps27 (Vacuolar Protein Sorting), Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and STAM (Signal ...
  2. NM_001172704.2NP_001166175.1  ADP-ribosylation factor-binding protein GGA3 isoform 2

    See identical proteins and their annotated locations for NP_001166175.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) contains alternate 5' exon structure and it thus differs in its 5' UTR and initiates translation at a downstream in-frame start codon, and it also contains an alternate 3' terminal exon that results in an alternate 3' coding region, compared to variant long. The encoded isoform (2) is shorter at the N-terminus and has a distinct C-terminus, compared to isoform long.
    Source sequence(s)
    AF190864, AK301895, AK302278, CB240770, HY030361
    Consensus CDS
    CCDS58597.1
    UniProtKB/Swiss-Prot
    Q9NZ52
    Related
    ENSP00000463288.1, ENST00000578348.5
    Conserved Domains (3) summary
    smart00809
    Location:479568
    Alpha_adaptinC2; Adaptin C-terminal domain
    cd14240
    Location:91177
    GAT_GGA3; GAT domain found in ADP-ribosylation factor-binding protein GGA3
    cl02544
    Location:124
    VHS_ENTH_ANTH; VHS, ENTH and ANTH domain superfamily; composed of proteins containing a VHS, ENTH or ANTH domain. The VHS domain is present in Vps27 (Vacuolar Protein Sorting), Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and STAM (Signal ...
  3. NM_001291641.1NP_001278570.1  ADP-ribosylation factor-binding protein GGA3 isoform 1

    See identical proteins and their annotated locations for NP_001278570.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) contains an additional exon in the 5' region, and it thus differs in its 5' UTR and initiates translation at a downstream in-frame start codon, compared to variant long. The encoded isoform (1) is shorter at the N-terminus, compared to isoform long. Both variants 1 and 3 encode isoform 1.
    Source sequence(s)
    AF190864, AK291685, AL833603, BC070044, CB240770, DA312660
    Consensus CDS
    CCDS54164.1
    UniProtKB/Swiss-Prot
    Q9NZ52
    UniProtKB/TrEMBL
    A8K6M0
    Conserved Domains (3) summary
    smart00809
    Location:529643
    Alpha_adaptinC2; Adaptin C-terminal domain
    cd14240
    Location:141227
    GAT_GGA3; GAT domain found in ADP-ribosylation factor-binding protein GGA3
    cl02544
    Location:174
    VHS_ENTH_ANTH; VHS, ENTH and ANTH domain superfamily; composed of proteins containing a VHS, ENTH or ANTH domain. The VHS domain is present in Vps27 (Vacuolar Protein Sorting), Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and STAM (Signal ...
  4. NM_001291642.1NP_001278571.1  ADP-ribosylation factor-binding protein GGA3 isoform 3

    See identical proteins and their annotated locations for NP_001278571.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) contains alternate 5' exon structure, and it thus differs in its 5' UTR and initiates translation at a downstream in-frame start codon, compared to variant long. The encoded isoform (3) is shorter at the N-terminus, compared to isoform long.
    Source sequence(s)
    AF190864, AK291685, AK296843, CB240770, DA312660
    UniProtKB/Swiss-Prot
    Q9NZ52
    UniProtKB/TrEMBL
    A8K6M0, B7Z456
    Conserved Domains (3) summary
    smart00809
    Location:479593
    Alpha_adaptinC2; Adaptin C-terminal domain
    cd14240
    Location:91177
    GAT_GGA3; GAT domain found in ADP-ribosylation factor-binding protein GGA3
    cl02544
    Location:124
    VHS_ENTH_ANTH; VHS, ENTH and ANTH domain superfamily; composed of proteins containing a VHS, ENTH or ANTH domain. The VHS domain is present in Vps27 (Vacuolar Protein Sorting), Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and STAM (Signal ...
  5. NM_014001.4NP_054720.1  ADP-ribosylation factor-binding protein GGA3 isoform short

    See identical proteins and their annotated locations for NP_054720.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (short) lacks an alternate in-frame exon in the 5' coding region, compared to variant long, resulting in an isoform (short) that is shorter than isoform long.
    Source sequence(s)
    AF190864, AK291685, BC070044, CB240770, DA312660
    Consensus CDS
    CCDS11716.1
    UniProtKB/Swiss-Prot
    Q9NZ52
    UniProtKB/TrEMBL
    A8K6M0
    Related
    ENSP00000446421.2, ENST00000538886.5
    Conserved Domains (3) summary
    smart00809
    Location:568682
    Alpha_adaptinC2; Adaptin C-terminal domain
    cd14240
    Location:180266
    GAT_GGA3; GAT domain found in ADP-ribosylation factor-binding protein GGA3
    cl02544
    Location:8113
    VHS_ENTH_ANTH; VHS, ENTH and ANTH domain superfamily; composed of proteins containing a VHS, ENTH or ANTH domain. The VHS domain is present in Vps27 (Vacuolar Protein Sorting), Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and STAM (Signal ...
  6. NM_138619.3NP_619525.1  ADP-ribosylation factor-binding protein GGA3 isoform long

    See identical proteins and their annotated locations for NP_619525.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (long) encodes the longest isoform (long).
    Source sequence(s)
    AF190864, AF219138, AK291685, BC070044, CB240770, DA312660
    Consensus CDS
    CCDS11717.1
    UniProtKB/Swiss-Prot
    Q9NZ52
    UniProtKB/TrEMBL
    A8K6M0
    Related
    ENSP00000438085.2, ENST00000537686.5
    Conserved Domains (3) summary
    smart00809
    Location:601715
    Alpha_adaptinC2; Adaptin C-terminal domain
    cd03567
    Location:8146
    VHS_GGA; VHS domain family, GGA subfamily; GGA (Golgi-localized, Gamma-ear-containing, Arf-binding) comprise a subfamily of ubiquitously expressed, monomeric, motif-binding cargo/clathrin adaptor proteins. The VHS domain has a superhelical structure similar to ...
    cd14240
    Location:213299
    GAT_GGA3; GAT domain found in ADP-ribosylation factor-binding protein GGA3

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109

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

Reference GRCh38.p12 Primary Assembly

Genomic

  1. NC_000017.11 Reference GRCh38.p12 Primary Assembly

    Range
    75225464..75262393 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011524563.3XP_011522865.1  ADP-ribosylation factor-binding protein GGA3 isoform X2

    Conserved Domains (3) summary
    smart00809
    Location:601690
    Alpha_adaptinC2; Adaptin C-terminal domain
    cd03567
    Location:8146
    VHS_GGA; VHS domain family, GGA subfamily; GGA (Golgi-localized, Gamma-ear-containing, Arf-binding) comprise a subfamily of ubiquitously expressed, monomeric, motif-binding cargo/clathrin adaptor proteins. The VHS domain has a superhelical structure similar to ...
    cd14240
    Location:213299
    GAT_GGA3; GAT domain found in ADP-ribosylation factor-binding protein GGA3
  2. XM_017024389.1XP_016879878.1  ADP-ribosylation factor-binding protein GGA3 isoform X4

  3. XM_017024390.1XP_016879879.1  ADP-ribosylation factor-binding protein GGA3 isoform X5

  4. XM_017024388.1XP_016879877.1  ADP-ribosylation factor-binding protein GGA3 isoform X4

  5. XM_024450665.1XP_024306433.1  ADP-ribosylation factor-binding protein GGA3 isoform X6

    Conserved Domains (3) summary
    smart00809
    Location:479593
    Alpha_adaptinC2; Adaptin C-terminal domain
    cd14240
    Location:91177
    GAT_GGA3; GAT domain found in ADP-ribosylation factor-binding protein GGA3
    cl02544
    Location:124
    VHS_ENTH_ANTH; VHS, ENTH and ANTH domain superfamily; composed of proteins containing a VHS, ENTH or ANTH domain. The VHS domain is present in Vps27 (Vacuolar Protein Sorting), Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and STAM (Signal ...
  6. XM_017024386.1XP_016879875.1  ADP-ribosylation factor-binding protein GGA3 isoform X3

  7. XM_017024385.2XP_016879874.1  ADP-ribosylation factor-binding protein GGA3 isoform X1

  8. XM_017024387.2XP_016879876.1  ADP-ribosylation factor-binding protein GGA3 isoform X4

  9. XM_017024392.1XP_016879881.1  ADP-ribosylation factor-binding protein GGA3 isoform X7

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