PUB13 plant U-box 13 [Arabidopsis thaliana (thale cress)] - Gene

Summary

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Official Symbol: PUB13
Official Full Name: plant U-box 13
Primary source: TAIR:AT3G46510
Locus tag: AT3G46510
See related: Araport:AT3G46510
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: ARABIDOPSIS THALIANA PLANT U-BOX 13; ATPUB13; plant U-box 13
Summary: Encodes a protein containing a UND, a U-box, and an ARM domain. This protein has E3 ubiquitin ligase activity based on in vitro assays. Can be phosphorylated in vitro by MLPK, ARK1, and ARK2 but not by SD1-29. Involved in ubiquitination of pattern recognition receptor FLS2.
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Genomic context

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See PUB13 in Genome Data Viewer

Location:: chromosome: 3

Exon count:: 4

Sequence:: Chromosome: 3; NC_003074.8 (17123731..17126897, 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?

Loss of PUB12 and PUB13 results in reduced BRI1 ubiquitination and internalization.
Title: Regulation of Arabidopsis brassinosteroid receptor BRI1 endocytosis and degradation by plant U-box PUB12/PUB13-mediated ubiquitination.
PUB13 interacts with and stimulates ubiquitination of the LYK5 protein.
Title: Arabidopsis E3 ubiquitin ligase PLANT U-BOX13 (PUB13) regulates chitin receptor LYSIN MOTIF RECEPTOR KINASE5 (LYK5) protein abundance.
ABI1 (ABA-INSENSITIVE 1) can interact with the U-box E3 ligases PUB12 and PUB13, but is ubiquitinated only when it interacts with ABA receptors in an in vitro assay.
Title: Degradation of the ABA co-receptor ABI1 by PUB12/13 U-box E3 ligases.
The resemblance between PUB13ARM transgenic plants and the pub12pub13 mutant provides genetic evidence that ectopic expression of the PUB ARM domain serves as an alternative approach to dissect the overlapping functions of closely related PUB genes.
Title: The dominant negative ARM domain uncovers multiple functions of PUB13 in Arabidopsis immunity, flowering, and senescence.
PUB13 may regulate HFR1 to fine-tune photomorphogenesis and flowering time in Arabidopsis.
Title: PUB13, a U-box/ARM E3 ligase, regulates plant defense, cell death, and flowering time.
PUB13 is an active E3 ubiquitin ligase and that the intact U-box domain is required for the E3 ligase activity.
Title: The U-Box/ARM E3 ligase PUB13 regulates cell death, defense, and flowering time in Arabidopsis.
study has revealed a unique regulatory circuit of direct ubiquitination and turnover of FLS2 by BAK1-mediated phosphorylation and recruitment of specific E3 ligases (PUB12,PUB13) for attenuation of immune signaling
Title: Direct ubiquitination of pattern recognition receptor FLS2 attenuates plant innate immunity.

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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NM_114518.4

Supported by ESTs:

Gene Ontology Provided by TAIR

Function	Evidence Code	Pubs
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables transmembrane receptor protein serine/threonine kinase binding	IPI Inferred from Physical Interaction more info	PubMed
enables ubiquitin-protein transferase activity	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
involved_in cell surface receptor signaling pathway	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within defense response to bacterium	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within negative regulation of apoptotic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of apoptotic process	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within negative regulation of immune response	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within protein ubiquitination	IDA Inferred from Direct Assay more info	PubMed
involved_in protein ubiquitination	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within regulation of photoperiodism, flowering	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of photoperiodism, flowering	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in cytoplasm	IDA Inferred from Direct Assay more info	PubMed
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: plant U-box 13

NP_190235.1

plant U-box 13 (PUB13); CONTAINS InterPro DOMAIN/s: U box domain (InterPro:IPR003613), Armadillo-like helical (InterPro:IPR011989), Armadillo (InterPro:IPR000225), Armadillo-type fold (InterPro:IPR016024); BEST Arabidopsis thaliana protein match is: PLANT U-BOX 12 (TAIR:AT2G28830.1); Has 8308 Blast hits to 5676 proteins in 314 species: Archae - 6; Bacteria - 52; Metazoa - 2498; Fungi - 809; Plants - 4013; Viruses - 3; Other Eukaryotes - 927 (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

17123731..17126897 complement

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_114518.4 → NP_190235.1 plant U-box 13 [Arabidopsis thaliana]

See identical proteins and their annotated locations for NP_190235.1

Status: REVIEWED

UniProtKB/Swiss-Prot

Q9SNC6

UniProtKB/TrEMBL

A0A178VB74, A0A654FE93

Conserved Domains (4) summary

smart00504
Location:259 → 322

Ubox; Modified RING finger domain

PLN03200
Location:383 → 646

PLN03200; cellulose synthase-interactive protein; Provisional

sd00043
Location:389 → 421

ARM; armadillo repeat [structural motif]

cd16664
Location:262 → 300

RING-Ubox_PUB; U-box domain, a modified RING finger [structural motif]