AtATG18a [Arabidopsis thaliana (thale cress)] - Gene

Summary

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Official Symbol: AtATG18a
Primary source: Araport:AT3G62770
Locus tag: AT3G62770
See related: TAIR:AT3G62770
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Arabidopsis thaliana (ecotype: Columbia)
Lineage: Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
Also known as: ATG18a; autophagy 18a; PEROXISOME UNUSUAL POSITIONING 2; PEUP2
Summary: Required for autophagosome formation during nutrient deprivation and senescence.
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Genomic context

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See AtATG18a in Genome Data Viewer

Location:: chromosome: 3

Exon count:: 4

Sequence:: Chromosome: 3; NC_003074.8 (23218610..23221243, complement)

Chromosome 3 - NC_003074.8 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_003074.8

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

An Arabidopsis Rab18 GTPase promotes autophagy by tethering ATG18a to the ER in response to nutrient starvation.
Title: An Arabidopsis Rab18 GTPase promotes autophagy by tethering ATG18a to the ER in response to nutrient starvation.
Arabidopsis AUTOPHAGY-RELATED2 is essential for ATG18a and ATG9 trafficking during autophagosome closure.
Title: Arabidopsis AUTOPHAGY-RELATED2 is essential for ATG18a and ATG9 trafficking during autophagosome closure.
Persulfidation of ATG18a regulates autophagy under ER stress in Arabidopsis.
Title: Persulfidation of ATG18a regulates autophagy under ER stress in Arabidopsis.
Data show that atg18a-2 is also resistant to the powdery mildew pathogen, Golovinomyces cichoracearum, and it shows mildew-induced cell death similar to the atg2 mutant.
Title: The autophagy gene, ATG18a, plays a negative role in powdery mildew resistance and mildew-induced cell death in Arabidopsis.
Data demonstrate the induction of autophagy in high salt and osmotic stress conditions, concomitant with the upregulation of expression of an Arabidopsis thaliana autophagy-related gene AtATG18a
Title: Autophagy is required for tolerance of drought and salt stress in plants.
AtATG18a protein is likely to be required for autophagosome formation during nutrient stress and senescence in Arabidopsis. [AtATG18a]
Title: AtATG18a is required for the formation of autophagosomes during nutrient stress and senescence in Arabidopsis thaliana.

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Homology

Orthologs from OrthoDB

NM_001035841.4

Supported by ESTs:

NM_116142.6

Supported by ESTs:

Gene Ontology Provided by TAIR

Function	Evidence Code	Pubs
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
acts_upstream_of_or_within autophagy	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in autophagy	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within defense response to fungus	IEP Inferred from Expression Pattern more info	PubMed
acts_upstream_of_or_within leaf senescence	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within positive regulation of autophagy	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in response to osmotic stress	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to oxidative stress	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to salt stress	IEP Inferred from Expression Pattern more info	PubMed
acts_upstream_of_or_within response to starvation	IEP Inferred from Expression Pattern more info	PubMed
acts_upstream_of_or_within response to starvation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in response to water deprivation	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to water deprivation	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in cytosol	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	ISM Inferred from Sequence Model more info

General protein information

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Preferred Names: Transducin/WD40 repeat-like superfamily protein

NP_001030918.4

AtATG18a; FUNCTIONS IN: molecular_function unknown; INVOLVED IN: autophagy, leaf senescence, response to starvation; LOCATED IN: chloroplast; EXPRESSED IN: 23 plant structures; EXPRESSED DURING: 15 growth stages; CONTAINS InterPro DOMAIN/s: WD40 repeat-like-containing domain (InterPro:IPR011046), WD40 repeat (InterPro:IPR001680), WD40/YVTN repeat-like-containing domain (InterPro:IPR015943), WD40 repeat, subgroup (InterPro:IPR019781); BEST Arabidopsis thaliana protein match is: homolog of yeast autophagy 18 (ATG18) D (TAIR:AT3G56440.1); Has 213 Blast hits to 211 proteins in 57 species: Archae - 0; Bacteria - 30; Metazoa - 48; Fungi - 45; Plants - 63; Viruses - 2; Other Eukaryotes - 25 (source: NCBI BLink).

NP_567132.4

AtATG18a; FUNCTIONS IN: molecular_function unknown; INVOLVED IN: autophagy, leaf senescence, response to starvation; LOCATED IN: chloroplast; EXPRESSED IN: 23 plant structures; EXPRESSED DURING: 15 growth stages; CONTAINS InterPro DOMAIN/s: WD40 repeat-like-containing domain (InterPro:IPR011046), WD40 repeat (InterPro:IPR001680), WD40/YVTN repeat-like-containing domain (InterPro:IPR015943), WD40 repeat, subgroup (InterPro:IPR019781); BEST Arabidopsis thaliana protein match is: homolog of yeast autophagy 18 (ATG18) D (TAIR:AT3G56440.1); Has 1516 Blast hits to 1443 proteins in 266 species: Archae - 0; Bacteria - 93; Metazoa - 578; Fungi - 450; Plants - 210; Viruses - 2; Other Eukaryotes - 183 (source: NCBI BLink).

NCBI Reference Sequences (RefSeq)

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Genome Annotation

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

Reference assembly

Genomic

NC_003074.8 Reference assembly

Range

23218610..23221243 complement

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_116142.6 → NP_567132.4 Transducin/WD40 repeat-like superfamily protein [Arabidopsis thaliana]

See identical proteins and their annotated locations for NP_567132.4

Status: REVIEWED

UniProtKB/Swiss-Prot

Q3EAF7, Q93VB2, Q9LZI8

UniProtKB/TrEMBL

A0A178V9Z7, A0A5S9XP05, A0A654FK75

Conserved Domains (2) summary

sd00039
Location:169 → 204

7WD40; WD40 repeat [structural motif]

cl29593
Location:134 → 320

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
NM_001035841.4 → NP_001030918.4 Transducin/WD40 repeat-like superfamily protein [Arabidopsis thaliana]

See identical proteins and their annotated locations for NP_001030918.4

Status: REVIEWED

UniProtKB/TrEMBL

A0A654FK75, F4IZI7

Conserved Domains (3) summary

COG2319
Location:134 → 334

WD40; WD40 repeat [General function prediction only]

sd00039
Location:169 → 204

7WD40; WD40 repeat [structural motif]

cl02567
Location:134 → 320

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...