DOA1 Doa1p [Saccharomyces cerevisiae S288C] - Gene

Summary

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Gene symbol: DOA1
Gene description: Doa1p
Primary source: FungiDB:YKL213C
Locus tag: YKL213C
See related: SGD:S000001696; AllianceGenome:SGD:S000001696; VEuPathDB:YKL213C
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Saccharomyces cerevisiae S288C (strain: S288C)
Lineage: Eukaryota; Fungi; Dikarya; Ascomycota; Saccharomycotina; Saccharomycetes; Saccharomycetales; Saccharomycetaceae; Saccharomyces
Also known as: UFD3; ZZZ4
Summary: Enables ubiquitin binding activity. Involved in several processes, including double-strand break repair via nonhomologous end joining; mitochondria-associated ubiquitin-dependent protein catabolic process; and ribophagy. Located in cytoplasm and nucleus. Orthologous to human PLAA (phospholipase A2 activating protein). [provided by Alliance of Genome Resources, Apr 2022]
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Genomic context

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See DOA1 in Genome Data Viewer

Location:: chromosome: XI

Exon count:: 1

Sequence:: Chromosome: XI; NC_001143.9 (31960..34107, complement)

Chromosome XI - NC_001143.9 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_001143.9

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Upon DNA damage Wss1/Cdc48/Doa1 ternary complex is recruited to sumoylated targets and catalyzes SUMO chain extension through a newly recognized SUMO ligase activity.
Title: Wss1 metalloprotease partners with Cdc48/Doa1 in processing genotoxic SUMO conjugates.
Small-angle X-ray scattering combined with molecular docking and biochemical analysis yield the solution structure of the Doa1/PFU:Hse1/SH3 complex and suggest that hydrogen bonding is a major determinant in the interaction of Doa1/PFU with Hse1/SH3.
Title: Molecular determinants of the interaction between Doa1 and Hse1 involved in endosomal sorting.
DOA1 is important for cell cycle entry by supplying ubiquitin, and the RAD6-BRE1 pathway functions downstream of DOA1/ubiquitin but upstream of CDC28, by promoting transcription of cyclins
Title: A chemical-genetic screen to unravel the genetic network of CDC28/CDK1 links ubiquitin and Rad6-Bre1 to cell cycle progression.
A structural comparison of Doa1 with Ufd2 revealed that they share a similar ARM-like repeat, supporting a model in which Doa1 and Ufd2 compete for Cdc48 binding and may dictate the fate of ubiquitinated proteins in the proteasome pathway
Title: Crystal structure of a PFU-PUL domain pair of Saccharomyces cerevisiae Doa1/Ufd3.
Data show that the yeast Ubp3-Bre5 deubiquitination complex interacts with both the chaperone-like Cdc48, a major actor of the ubiquitin and proteasome system, and Ufd3, a ubiquitin-binding cofactor of Cdc48.
Title: Cdc48 and Ufd3, new partners of the ubiquitin protease Ubp3, are required for ribophagy.
The high resolution crystal structure of the p97-PLAA complex was solved showing that the PUL domain forms a 6-mer Armadillo-containing domain.
Title: Structure and function of the PLAA/Ufd3-p97/Cdc48 complex.
Data provide direct evidence that the functions of Ufd3 in ubiquitin homeostasis and protein degradation depend on its interaction with the C terminus of Cdc48.
Title: An Armadillo motif in Ufd3 interacts with Cdc48 and is involved in ubiquitin homeostasis and protein degradation.
DOA1/UFD3 plays a role in sorting ubiquitinated membrane proteins into multivesicular bodies
Title: DOA1/UFD3 plays a role in sorting ubiquitinated membrane proteins into multivesicular bodies.
The data suggest that Doa1 is the major source of ubiquitin for the DNA damage response and that Doa1 also plays an additional essential and more specific role in the monoubiquitination of histone H2B.
Title: Role of Doa1 in the Saccharomyces cerevisiae DNA damage response.
The PUL and PFU domains of Doa1 promote the formation of a Doa1-Cdc48-ubiquitin ternary complex, potentially allowing for the recruitment of ubiquitinated proteins to Cdc48.
Title: Doa1 is a Cdc48 adapter that possesses a novel ubiquitin binding domain.

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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

Gene Ontology Provided by SGD

Function	Evidence Code	Pubs
enables K48-linked polyubiquitin modification-dependent protein binding	IDA Inferred from Direct Assay more info	PubMed
enables ubiquitin binding	IBA Inferred from Biological aspect of Ancestor more info
enables ubiquitin binding	IDA Inferred from Direct Assay more info	PubMed
enables ubiquitin binding	IMP Inferred from Mutant Phenotype more info	PubMed

Process	Evidence Code	Pubs
involved_in G1 to G0 transition	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in double-strand break repair via nonhomologous end joining	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in mitochondria-associated ubiquitin-dependent protein catabolic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in proteasome-mediated ubiquitin-dependent protein catabolic process	IBA Inferred from Biological aspect of Ancestor more info
involved_in proteasome-mediated ubiquitin-dependent protein catabolic process	IGI Inferred from Genetic Interaction more info	PubMed
involved_in proteasome-mediated ubiquitin-dependent protein catabolic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in ribophagy	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in ubiquitin recycling	IBA Inferred from Biological aspect of Ancestor more info
involved_in ubiquitin recycling	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in cytoplasm	HDA more info	PubMed
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in endosome	IEA Inferred from Electronic Annotation more info
located_in endosome membrane	IEA Inferred from Electronic Annotation more info
located_in mitochondrial outer membrane	IEA Inferred from Electronic Annotation more info
located_in mitochondrion	IEA Inferred from Electronic Annotation more info
located_in nucleus	HDA more info	PubMed
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: Doa1p

NP_012709.1

WD-repeat protein involved in Ub-mediated proteolysis; K48-, K29-specific Ub chain binding protein involved in Ub homeostasis; substrate-recruiting adaptor for Cdc48p in mitochondria-associated degradation; inhibits degradation of Ufd2p-dependent substrates; facilitates proteolysis of Cse4p, a centromeric H3-like protein; required for ribophagy; promotes NHEJ in postdiauxic/stationary phase; protein increases in abundance and relocalizes from nucleus to nuclear periphery upon replication stress

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_001143.9 Reference assembly

Range

31960..34107 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001179778.1 → NP_012709.1 TPA: Doa1p [Saccharomyces cerevisiae S288C]

See identical proteins and their annotated locations for NP_012709.1

Status: REVIEWED

UniProtKB/Swiss-Prot

D6VWZ0, P36037

UniProtKB/TrEMBL

A0A6A5PRL0, A7A076, C7GJ00, C8ZBW7, G2WHI1, N1P054

Conserved Domains (4) summary

cd00200
Location:5 → 288

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 ...

sd00039
Location:58 → 97

7WD40; WD40 repeat [structural motif]

pfam08324
Location:468 → 712

PUL; PUL domain

pfam09070
Location:333 → 443

PFU; PFU (PLAA family ubiquitin binding)