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

Gene ID: 23163, updated on 23-Sep-2022

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; AllianceGenome:HGNC:17079
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
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Genomic context

See GGA3 in Genome Data Viewer
Location:
17q25.1
Exon count:
21
Annotation release Status Assembly Chr Location
110 current GRCh38.p14 (GCF_000001405.40) 17 NC_000017.11 (75223728..75262363, complement)
110 current T2T-CHM13v2.0 (GCF_009914755.1) 17 NC_060941.1 (76128675..76154454, complement)
105.20220307 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 mitochondrial ribosomal protein S7 Neighboring gene MIF4GD divergent transcript 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 Functions

What'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 PubChem

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
enables phosphatidylinositol binding IEA
Inferred from Electronic Annotation
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables protein-containing complex binding IDA
Inferred from Direct Assay
more info
PubMed 
enables small GTPase binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables small GTPase binding IDA
Inferred from Direct Assay
more info
PubMed 
enables ubiquitin binding IDA
Inferred from Direct Assay
more info
PubMed 
Component Evidence Code Pubs
located_in Golgi apparatus IDA
Inferred from Direct Assay
more info
 
located_in early endosome membrane TAS
Traceable Author Statement
more info
 
located_in endosome membrane TAS
Traceable Author Statement
more info
 
located_in lysosome IDA
Inferred from Direct Assay
more info
PubMed 
part_of protein-containing complex IDA
Inferred from Direct Assay
more info
PubMed 
located_in recycling endosome membrane TAS
Traceable Author Statement
more info
 
is_active_in trans-Golgi network IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in 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)

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.

mRNA and Protein(s)

  1. NM_001172703.3NP_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_001172704.3NP_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_001291641.2NP_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_001291642.2NP_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_014001.5NP_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_138619.4NP_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, Q9UJY3
    UniProtKB/TrEMBL
    A8K6M0
    Related
    ENSP00000438085.3, ENST00000537686.6
    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 110 details...Open this link in a new tab

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000017.11 Reference GRCh38.p14 Primary Assembly

    Range
    75223728..75262363 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047435680.1XP_047291636.1  ADP-ribosylation factor-binding protein GGA3 isoform X4

  2. XM_047435679.1XP_047291635.1  ADP-ribosylation factor-binding protein GGA3 isoform X3

  3. XM_017024388.2XP_016879877.2  ADP-ribosylation factor-binding protein GGA3 isoform X3

  4. XM_047435677.1XP_047291633.1  ADP-ribosylation factor-binding protein GGA3 isoform X2

  5. XM_011524563.4XP_011522865.1  ADP-ribosylation factor-binding protein GGA3 isoform X1

    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
  6. XM_047435678.1XP_047291634.1  ADP-ribosylation factor-binding protein GGA3 isoform X3

  7. XM_047435682.1XP_047291638.1  ADP-ribosylation factor-binding protein GGA3 isoform X6

  8. XM_047435681.1XP_047291637.1  ADP-ribosylation factor-binding protein GGA3 isoform X5

    UniProtKB/TrEMBL
    B7Z456

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060941.1 Alternate T2T-CHM13v2.0

    Range
    76128675..76154454 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)