ubxn-3 UBX domain-containing protein 3 [Caenorhabditis elegans] - Gene

Summary

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Official Symbol: ubxn-3
Official Full Name: UBX domain-containing protein 3
Primary source: WormBase:WBGene00018586
Locus tag: CELE_F48A11.5
See related: AllianceGenome:WB:WBGene00018586
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Caenorhabditis elegans (strain: Bristol N2)
Lineage: Eukaryota; Metazoa; Ecdysozoa; Nematoda; Chromadorea; Rhabditida; Rhabditina; Rhabditomorpha; Rhabditoidea; Rhabditidae; Peloderinae; Caenorhabditis
Summary: Enables K48-linked polyubiquitin modification-dependent protein binding activity. Involved in several processes, including masculinization of hermaphroditic germ-line; positive regulation of mitotic cell cycle, embryonic; and regulation of protein localization to chromatin. Located in chromatin; nucleus; and perinuclear region of cytoplasm. Is expressed in gonad; neurons; and spermatocyte. Orthologous to human FAF1 (Fas associated factor 1). [provided by Alliance of Genome Resources, Jan 2025]
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Genomic context

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See ubxn-3 in Genome Data Viewer

Location:: chromosome: II

Exon count:: 10

Sequence:: Chromosome: II; NC_003280.10 (217049..220667, complement)

Chromosome II - NC_003280.10 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_003280.10

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

TIMELESS-TIPIN and UBXN-3 promote replisome disassembly during DNA replication termination in Caenorhabditis elegans.
Title: TIMELESS-TIPIN and UBXN-3 promote replisome disassembly during DNA replication termination in Caenorhabditis elegans.
CUL-2(LRR-1) and UBXN-3 drive replisome disassembly during DNA replication termination and mitosis.
Title: CUL-2(LRR-1) and UBXN-3 drive replisome disassembly during DNA replication termination and mitosis.
Progression of the DNA replication fork is coordinated by UBXN-3. UBXN-3 binds to the licensing factor CDT-1 and additional ubiquitylated proteins, thus promoting CDC-48-dependent turnover and disassembly of DNA replication factor complexes.
Title: Chromatin-associated degradation is defined by UBXN-3/FAF1 to safeguard DNA replication fork progression.

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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

F48A11.5 (e-PCR)
- UniSTS:311663

Homology

Orthologs from OrthoDB

Gene Ontology Provided by WormBase

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

Process	Evidence Code	Pubs
involved_in ERAD pathway	IBA Inferred from Biological aspect of Ancestor more info
involved_in cell differentiation	IEA Inferred from Electronic Annotation more info
involved_in masculinization of hermaphroditic germ-line	IGI Inferred from Genetic Interaction more info	PubMed
involved_in positive regulation of mitotic cell cycle, embryonic	IGI Inferred from Genetic Interaction more info	PubMed
involved_in positive regulation of protein catabolic process	IGI Inferred from Genetic Interaction more info	PubMed
involved_in regulation of protein localization to chromatin	IGI Inferred from Genetic Interaction more info	PubMed
involved_in spermatogenesis	IEA Inferred from Electronic Annotation more info
involved_in spermatogenesis	IGI Inferred from Genetic Interaction more info	PubMed

Component	Evidence Code	Pubs
located_in chromatin	IDA Inferred from Direct Assay more info	PubMed
located_in chromosome	IEA Inferred from Electronic Annotation more info
located_in cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
is_active_in endoplasmic reticulum	IBA Inferred from Biological aspect of Ancestor more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	IEA Inferred from Electronic Annotation more info
located_in perinuclear region of cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in perinuclear region of cytoplasm	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: UBX domain-containing protein 3

NP_001022181.2

Confirmed by transcript evidence

NP_001300547.1

Partially confirmed by transcript evidence

NP_001300548.1

Confirmed by transcript evidence

NP_001300549.1

Confirmed by transcript evidence

NP_001370738.1

Confirmed by transcript evidence

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_003280.10 Reference assembly

Range

217049..220667 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001383772.2 → NP_001370738.1 UBX domain-containing protein 3 [Caenorhabditis elegans]

Status: REVIEWED

UniProtKB/Swiss-Prot

A0A0K3ARL0, A0A0K3ATZ0, A0A0K3AWX1, H2L056, Q6A589

Conserved Domains (3) summary

smart00594
Location:290 → 441

UAS; UAS domain

cd01771
Location:533 → 613

UBX_UBXN3A; Ubiquitin regulatory domain X (UBX) found in FAS associated factor 1 (FAF1, also known as UBXN3A) and similar proteins

pfam14555
Location:13 → 53

UBA_4; UBA-like domain
NM_001027010.6 → NP_001022181.2 UBX domain-containing protein 3 [Caenorhabditis elegans]

See identical proteins and their annotated locations for NP_001022181.2

Status: REVIEWED

UniProtKB/TrEMBL

Q6A589

Conserved Domains (3) summary

smart00594
Location:285 → 436

UAS; UAS domain

pfam14555
Location:13 → 53

UBA_4; UBA-like domain

cl00155
Location:530 → 583

UBQ; Ubiquitin-like proteins
NM_001313618.3 → NP_001300547.1 UBX domain-containing protein 3 [Caenorhabditis elegans]

Status: REVIEWED

UniProtKB/TrEMBL

A0A0K3AWX1

Conserved Domains (2) summary

smart00594
Location:191 → 342

UAS; UAS domain

cl00155
Location:436 → 489

UBQ; Ubiquitin-like proteins
NM_001313620.3 → NP_001300549.1 UBX domain-containing protein 3 [Caenorhabditis elegans]

Status: REVIEWED

UniProtKB/TrEMBL

A0A0K3ATZ0

Conserved Domains (2) summary

smart00594
Location:196 → 347

UAS; UAS domain

cl00155
Location:441 → 494

UBQ; Ubiquitin-like proteins
NM_001313619.3 → NP_001300548.1 UBX domain-containing protein 3 [Caenorhabditis elegans]

Status: REVIEWED

UniProtKB/TrEMBL

A0A0K3ARL0

Conserved Domains (2) summary

cl00155
Location:156 → 209

UBQ; Ubiquitin-like proteins

cl00388
Location:26 → 62

Thioredoxin_like; Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold