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GABARAPL2 GABA type A receptor associated protein like 2 [ Homo sapiens (human) ]

Gene ID: 11345, updated on 5-Mar-2024

Summary

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Official Symbol
GABARAPL2provided by HGNC
Official Full Name
GABA type A receptor associated protein like 2provided by HGNC
Primary source
HGNC:HGNC:13291
See related
Ensembl:ENSG00000034713 MIM:607452; AllianceGenome:HGNC:13291
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
ATG8; GEF2; ATG8C; GEF-2; GATE16; GATE-16
Summary
Enables ubiquitin protein ligase binding activity. Involved in negative regulation of proteasomal protein catabolic process and protein localization to endoplasmic reticulum. Located in Golgi membrane and autophagosome membrane. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in brain (RPKM 110.1), heart (RPKM 86.3) and 25 other tissues See more
Orthologs
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Genomic context

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Location:
16q23.1
Exon count:
4
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 16 NC_000016.10 (75566379..75577881)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 16 NC_060940.1 (81614626..81626171)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 16 NC_000016.9 (75600277..75611779)

Chromosome 16 - NC_000016.10Genomic Context describing neighboring genes Neighboring gene carbohydrate sulfotransferase 5 Neighboring gene transmembrane protein 231 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11135 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11136 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7724 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7725 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11137 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11138 Neighboring gene Sharpr-MPRA regulatory region 12601 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7726 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:75600739-75601492 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11139 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11140 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7727 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11141 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11142 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:75626991-75627988 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:75627989-75628985 Neighboring gene adenosine deaminase tRNA specific 1 Neighboring gene Sharpr-MPRA regulatory region 14871 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:75655412-75655932 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:75655933-75656452 Neighboring gene H3K27ac hESC enhancers GRCh37_chr16:75656453-75656972 and GRCh37_chr16:75656973-75657492 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr16:75663368-75664567 Neighboring gene lysyl-tRNA synthetase 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11144

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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

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Related articles in PubMed

  1. GABARAPL2 Is Critical for Growth Restriction of Toxoplasma gondii in HeLa Cells Treated with Gamma Interferon. Zhang Z, et al. Infect Immun, 2020 Apr 20. PMID 32094251, Free PMC Article
  2. Genetic variants in autophagy associated genes are associated with DNA damage levels in Chinese population. Li Z, et al. Gene, 2017 Aug 30. PMID 28512061
  3. Conformational Polymorphism in Autophagy-Related Protein GATE-16. Ma P, et al. Biochemistry, 2015 Sep 8. PMID 26284781
  4. In vitro assays of lipidation of Mammalian Atg8 homologs. Tanida I, et al. Curr Protoc Cell Biol, 2014 Sep 2. PMID 25181299
  5. Inhibition of GATE-16 attenuates ATRA-induced neutrophil differentiation of APL cells and interferes with autophagosome formation. Brigger D, et al. Biochem Biophys Res Commun, 2013 Aug 23. PMID 23891751, Free PMC Article

See all (135) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. An ALS-associated variant of the autophagy receptor SQSTM1/p62 reprograms binding selectivity toward the autophagy-related hATG8 proteins.
    Title: An ALS-associated variant of the autophagy receptor SQSTM1/p62 reprograms binding selectivity toward the autophagy-related hATG8 proteins.
  2. The V-ATPase complex regulates non-canonical Atg8-family protein lipidation through ATG16L1 recruitment.
    Title: The V-ATPase complex regulates non-canonical Atg8-family protein lipidation through ATG16L1 recruitment.
  3. Phosphorylation of the LIR Domain of SCOC Modulates ATG8 Binding Affinity and Specificity.
    Title: Phosphorylation of the LIR Domain of SCOC Modulates ATG8 Binding Affinity and Specificity.
  4. Non-canonical autophagy drives alternative ATG8 conjugation to phosphatidylserine.
    Title: Non-canonical autophagy drives alternative ATG8 conjugation to phosphatidylserine.
  5. Autophagic Network Analysis of the Dual Effect of Sevoflurane on Neurons Associated with GABARAPL1 and 2.
    Title: Autophagic Network Analysis of the Dual Effect of Sevoflurane on Neurons Associated with GABARAPL1 and 2.
  6. A PI3K-WIPI2 positive feedback loop allosterically activates LC3 lipidation in autophagy.
    Title: A PI3K-WIPI2 positive feedback loop allosterically activates LC3 lipidation in autophagy.
  7. Lack of GABARAP-Type Proteins Is Accompanied by Altered Golgi Morphology and Surfaceome Composition.
    Title: Lack of GABARAP-Type Proteins Is Accompanied by Altered Golgi Morphology and Surfaceome Composition.
  8. Curvature-sensitive trans-assembly of human Atg8-family proteins in autophagy-related membrane tethering.
    Title: Curvature-sensitive trans-assembly of human Atg8-family proteins in autophagy-related membrane tethering.
  9. An atypical LIR motif within UBA5 (ubiquitin like modifier activating enzyme 5) interacts with GABARAP proteins and mediates membrane localization of UBA5.
    Title: An atypical LIR motif within UBA5 (ubiquitin like modifier activating enzyme 5) interacts with GABARAP proteins and mediates membrane localization of UBA5.
  10. GABARAPL2 Is Critical for Growth Restriction of Toxoplasma gondii in HeLa Cells Treated with Gamma Interferon.
    Title: GABARAPL2 Is Critical for Growth Restriction of Toxoplasma gondii in HeLa Cells Treated with Gamma Interferon.
Submit: New GeneRIF Correction See all GeneRIFs (42)

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
Genome-wide association study identifies multiple susceptibility loci for pancreatic cancer.
EBI GWAS Catalog

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

HIV-1 interactions

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Replication interactions

Interaction Pubs
Knockdown of GABA(A) receptor-associated protein-like 2 (GABARAPL2) by siRNA inhibits HIV-1 replication in HeLa-derived TZM-bl cells PubMed

Protein interactions

Protein Gene Interaction Pubs
Pr55(Gag) gag HIV-1 Gag and Gag-derived proteins colocalize and interact with the autophagy factor LC3 (ATG8), and autophagy factor LC3 (ATG8) promotes productive Gag processing PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

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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 GOA

Function Evidence Code Pubs
enables ATPase binding ISS
Inferred from Sequence or Structural Similarity
more info
 PubMed 
enables GABA receptor binding ISS
Inferred from Sequence or Structural Similarity
more info
  
enables GABA receptor binding NAS
Non-traceable Author Statement
more info
 PubMed 
enables SNARE binding ISS
Inferred from Sequence or Structural Similarity
more info
 PubMed 
enables beta-tubulin binding ISS
Inferred from Sequence or Structural Similarity
more info
  
enables microtubule binding NAS
Non-traceable Author Statement
more info
 PubMed 
enables phosphatidylethanolamine binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables phosphatidylethanolamine binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables ubiquitin protein ligase binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables ubiquitin protein ligase binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in autophagosome assembly IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in autophagosome maturation IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in autophagy NAS
Non-traceable Author Statement
more info
 PubMed 
involved_in autophagy of mitochondrion IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in cellular response to nitrogen starvation IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in intra-Golgi vesicle-mediated transport ISS
Inferred from Sequence or Structural Similarity
more info
 PubMed 
involved_in negative regulation of proteasomal protein catabolic process IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in positive regulation of ATP-dependent activity ISS
Inferred from Sequence or Structural Similarity
more info
 PubMed 
involved_in protein localization to endoplasmic reticulum IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in protein transport IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in Golgi apparatus ISS
Inferred from Sequence or Structural Similarity
more info
 PubMed 
located_in Golgi membrane IDA
Inferred from Direct Assay
more info
 PubMed 
located_in Golgi membrane ISS
Inferred from Sequence or Structural Similarity
more info
 PubMed 
located_in autophagosome IDA
Inferred from Direct Assay
more info
 PubMed 
is_active_in autophagosome membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in autophagosome membrane IDA
Inferred from Direct Assay
more info
 PubMed 
located_in autophagosome membrane TAS
Traceable Author Statement
more info
  
located_in cytoplasm IDA
Inferred from Direct Assay
more info
 PubMed 
located_in cytoplasmic vesicle IEA
Inferred from Electronic Annotation
more info
  
located_in cytosol ISS
Inferred from Sequence or Structural Similarity
more info
 PubMed 
located_in cytosol TAS
Traceable Author Statement
more info
  
located_in endoplasmic reticulum membrane IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
gamma-aminobutyric acid receptor-associated protein-like 2
Names
GABA(A) receptor-associated protein-like 2
MAP1 light chain 3 related protein
ganglioside expression factor 2
general protein transport factor p16
golgi-associated ATPase enhancer of 16 kDa

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_007285.7 → NP_009216.1  gamma-aminobutyric acid receptor-associated protein-like 2

    See identical proteins and their annotated locations for NP_009216.1

    Status: VALIDATED

    Source sequence(s)
    AB030710
    Consensus CDS
    CCDS10921.1
    UniProtKB/Swiss-Prot
    O08765, P60520, Q6FG91, Q9DCP8, Q9UQF7
    Related
    ENSP00000037243.2, ENST00000037243.7
    Conserved Domains (1) summary
    cd17163
    Location:5 → 116
    Ubl_ATG8_GABARAPL2; ubiquitin-like (Ubl) domain found in GABA type A receptor associated protein like 2 (GABARAPL2, also known as GATE16)

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
    75566379..75577881
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060940.1 Alternate T2T-CHM13v2.0

    Range
    81614626..81626171
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P60520.1 GenPept UniProtKB/Swiss-Prot:P60520

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

Chemical Information
Molecular Biology Databases
Research Materials
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