Ube2d3 ubiquitin-conjugating enzyme E2D 3 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Ube2d3provided by MGI
Official Full Name: ubiquitin-conjugating enzyme E2D 3provided by MGI
Primary source: MGI:MGI:1913355
See related: Ensembl:ENSMUSG00000078578 AllianceGenome:MGI:1913355
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: 1100001F19Rik; 9430029A22Rik
Summary: Predicted to enable ubiquitin conjugating enzyme activity and ubiquitin protein ligase activity. Acts upstream of or within proteasome-mediated ubiquitin-dependent protein catabolic process. Predicted to be located in endosome and plasma membrane. Predicted to be active in nucleus. Is expressed in inner cell mass and trophectoderm. Orthologous to human UBE2D3 (ubiquitin conjugating enzyme E2 D3). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Ubiquitous expression in limb E14.5 (RPKM 51.8), placenta adult (RPKM 51.5) and 28 other tissues See more
Orthologs: human all
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Genomic context

Location:: 3 G3; 3 62.56 cM

Exon count:: 11

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	3	NC_000069.7 (135143993..135173975)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	3	NC_000069.6 (135438232..135468214)

Chromosome 3 - NC_000069.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Comprehensive bioinformatics analysis reveals the role of cuproptosis-related gene Ube2d3 in myocardial infarction.
Title: Comprehensive bioinformatics analysis reveals the role of cuproptosis-related gene Ube2d3 in myocardial infarction.
Evolution of an Amniote-Specific Mechanism for Modulating Ubiquitin Signaling via Phosphoregulation of the E2 Enzyme UBE2D3.
Title: Evolution of an Amniote-Specific Mechanism for Modulating Ubiquitin Signaling via Phosphoregulation of the E2 Enzyme UBE2D3.
Together with Riplet, Ube2D3 promotes covalent conjugation of polyubiquitin chains to RIG-I, while Ube2N preferentially facilitates production of unanchored chains. In the presence of these chains, RIG-I induces MAVS aggregation directly on the mitochondria. Data thus reveal two essential mechanisms underlying the activation of RIG-I and MAVS for triggering innate immune signaling in response to viral infection in cells.
Title: Ube2D3 and Ube2N are essential for RIG-I-mediated MAVS aggregation in antiviral innate immunity.

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Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Gene trapped (1)
Targeted (1)
Endonuclease-mediated (1)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

RH124366 (e-PCR)
- UniSTS:161188

RH125441 (e-PCR)
- UniSTS:162261

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables ATP binding	IEA Inferred from Electronic Annotation more info
enables nucleotide binding	IEA Inferred from Electronic Annotation more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables transferase activity	IEA Inferred from Electronic Annotation more info
enables ubiquitin conjugating enzyme activity	IBA Inferred from Biological aspect of Ancestor more info
enables ubiquitin conjugating enzyme activity	ISO Inferred from Sequence Orthology more info	PubMed
enables ubiquitin protein ligase activity	ISO Inferred from Sequence Orthology more info
enables ubiquitin protein ligase binding	IBA Inferred from Biological aspect of Ancestor more info
enables ubiquitin-protein transferase activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within DNA damage response	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within DNA repair	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within apoptotic process	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within proteasome-mediated ubiquitin-dependent protein catabolic process	IDA Inferred from Direct Assay more info	PubMed
involved_in proteasome-mediated ubiquitin-dependent protein catabolic process	ISO Inferred from Sequence Orthology more info
involved_in protein K11-linked ubiquitination	IBA Inferred from Biological aspect of Ancestor more info
involved_in protein K11-linked ubiquitination	ISO Inferred from Sequence Orthology more info
involved_in protein K48-linked ubiquitination	IBA Inferred from Biological aspect of Ancestor more info
involved_in protein K48-linked ubiquitination	ISO Inferred from Sequence Orthology more info
involved_in protein K6-linked ubiquitination	ISO Inferred from Sequence Orthology more info
involved_in protein autoubiquitination	ISO Inferred from Sequence Orthology more info
involved_in protein monoubiquitination	ISO Inferred from Sequence Orthology more info
involved_in protein polyubiquitination	ISO Inferred from Sequence Orthology more info
involved_in protein ubiquitination	ISO Inferred from Sequence Orthology more info
involved_in ubiquitin-dependent protein catabolic process	IBA Inferred from Biological aspect of Ancestor more info
involved_in ubiquitin-dependent protein catabolic process	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in endosome	IEA Inferred from Electronic Annotation more info
located_in membrane	IEA Inferred from Electronic Annotation more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in plasma membrane	IEA Inferred from Electronic Annotation more info
part_of ubiquitin ligase complex	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: ubiquitin-conjugating enzyme E2 D3

Names: (E3-independent) E2 ubiquitin-conjugating enzyme D3; E2 ubiquitin-conjugating enzyme D3; ubiquitin carrier protein D3; ubiquitin-conjugating enzyme E2(17)KB 3; ubiquitin-conjugating enzyme E2-17 kDa 3; ubiquitin-conjugating enzyme E2D 3 (UBC4/5 homolog, yeast); ubiquitin-protein ligase D3

NP_001343523.1

EC 2.3.2.23

EC 2.3.2.24

NP_001343524.1

EC 2.3.2.23

EC 2.3.2.24

NP_001343525.1

EC 2.3.2.23

EC 2.3.2.24

NP_001343526.1

EC 2.3.2.23

EC 2.3.2.24

NP_001343527.1

EC 2.3.2.23

EC 2.3.2.24

NP_079632.1

EC 2.3.2.23

EC 2.3.2.24

XP_036019109.1

EC 2.3.2.23

EC 2.3.2.24

XP_036019110.1

EC 2.3.2.23

EC 2.3.2.24

XP_036019111.1

EC 2.3.2.23

EC 2.3.2.24

XP_036019112.1

EC 2.3.2.23

EC 2.3.2.24

XP_036019113.1

EC 2.3.2.23

EC 2.3.2.24

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)

NM_001356594.1 → NP_001343523.1 ubiquitin-conjugating enzyme E2 D3 isoform 1

Status: VALIDATED

Source sequence(s)

AC156618, AK167138

Consensus CDS

CCDS38644.1

UniProtKB/Swiss-Prot

P61079

UniProtKB/TrEMBL

Q3U5V6, Q4QQL2, Q9D1S1

Related

ENSMUSP00000101898.4, ENSMUST00000106291.10

Conserved Domains (1) summary

cl00154
Location:1 → 146

UBCc; Ubiquitin-conjugating enzyme E2, catalytic (UBCc) domain. This is part of the ubiquitin-mediated protein degradation pathway in which a thiol-ester linkage forms between a conserved cysteine and the C-terminus of ubiquitin and complexes with ubiquitin ...
NM_001356595.1 → NP_001343524.1 ubiquitin-conjugating enzyme E2 D3 isoform 1

Status: VALIDATED

Source sequence(s)

AC156618, DV648741

Consensus CDS

CCDS38644.1

UniProtKB/Swiss-Prot

P61079

UniProtKB/TrEMBL

Q3U5V6, Q4QQL2, Q9D1S1

Related

ENSMUSP00000143301.2, ENSMUST00000199613.5

Conserved Domains (1) summary

cl00154
Location:1 → 146

UBCc; Ubiquitin-conjugating enzyme E2, catalytic (UBCc) domain. This is part of the ubiquitin-mediated protein degradation pathway in which a thiol-ester linkage forms between a conserved cysteine and the C-terminus of ubiquitin and complexes with ubiquitin ...
NM_001356596.1 → NP_001343525.1 ubiquitin-conjugating enzyme E2 D3 isoform 1

Status: VALIDATED

Source sequence(s)

AC156618, AK153100

Consensus CDS

CCDS38644.1

UniProtKB/Swiss-Prot

P61079

UniProtKB/TrEMBL

Q3U5V6, Q4QQL2, Q9D1S1

Related

ENSMUSP00000130096.2, ENSMUST00000166033.6

Conserved Domains (1) summary

cl00154
Location:1 → 146

UBCc; Ubiquitin-conjugating enzyme E2, catalytic (UBCc) domain. This is part of the ubiquitin-mediated protein degradation pathway in which a thiol-ester linkage forms between a conserved cysteine and the C-terminus of ubiquitin and complexes with ubiquitin ...
NM_001356597.1 → NP_001343526.1 ubiquitin-conjugating enzyme E2 D3 isoform 1

Status: VALIDATED

Source sequence(s)

AC156618, AK165235

Consensus CDS

CCDS38644.1

UniProtKB/Swiss-Prot

P61079

UniProtKB/TrEMBL

Q3U5V6, Q4QQL2, Q9D1S1

Related

ENSMUSP00000143065.2, ENSMUST00000197539.5

Conserved Domains (1) summary

cl00154
Location:1 → 146

UBCc; Ubiquitin-conjugating enzyme E2, catalytic (UBCc) domain. This is part of the ubiquitin-mediated protein degradation pathway in which a thiol-ester linkage forms between a conserved cysteine and the C-terminus of ubiquitin and complexes with ubiquitin ...
NM_001356598.1 → NP_001343527.1 ubiquitin-conjugating enzyme E2 D3 isoform 2

Status: VALIDATED

Source sequence(s)

AC156618

UniProtKB/TrEMBL

A0A494BA56

Conserved Domains (1) summary

cl00154
Location:6 → 110

UBCc; Ubiquitin-conjugating enzyme E2, catalytic (UBCc) domain. This is part of the ubiquitin-mediated protein degradation pathway in which a thiol-ester linkage forms between a conserved cysteine and the C-terminus of ubiquitin and complexes with ubiquitin ...
NM_025356.5 → NP_079632.1 ubiquitin-conjugating enzyme E2 D3 isoform 1

See identical proteins and their annotated locations for NP_079632.1

Status: VALIDATED

Source sequence(s)

AC156618, AK153111

Consensus CDS

CCDS38644.1

UniProtKB/Swiss-Prot

P61079

UniProtKB/TrEMBL

Q3U5V6, Q4QQL2, Q9D1S1

Related

ENSMUSP00000143608.2, ENSMUST00000197859.5

Conserved Domains (1) summary

cl00154
Location:1 → 146

UBCc; Ubiquitin-conjugating enzyme E2, catalytic (UBCc) domain. This is part of the ubiquitin-mediated protein degradation pathway in which a thiol-ester linkage forms between a conserved cysteine and the C-terminus of ubiquitin and complexes with ubiquitin ...

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

NC_000069.7 Reference GRCm39 C57BL/6J

Range

135143993..135173975

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_036163218.1 → XP_036019111.1 ubiquitin-conjugating enzyme E2 D3 isoform X1

UniProtKB/TrEMBL

A0A0G2JGL0, Q3U5V6, Q9D1S1

Related

ENSMUSP00000143606.2, ENSMUST00000197134.3

Conserved Domains (1) summary

cl00154
Location:1 → 146

UBCc; Ubiquitin-conjugating enzyme E2, catalytic (UBCc) domain. This is part of the ubiquitin-mediated protein degradation pathway in which a thiol-ester linkage forms between a conserved cysteine and the C-terminus of ubiquitin and complexes with ubiquitin ...
XM_036163219.1 → XP_036019112.1 ubiquitin-conjugating enzyme E2 D3 isoform X1

UniProtKB/TrEMBL

A0A0G2JGL0, Q3U5V6, Q9D1S1

Related

ENSMUSP00000142612.2, ENSMUST00000198685.5

Conserved Domains (1) summary

cl00154
Location:1 → 146

UBCc; Ubiquitin-conjugating enzyme E2, catalytic (UBCc) domain. This is part of the ubiquitin-mediated protein degradation pathway in which a thiol-ester linkage forms between a conserved cysteine and the C-terminus of ubiquitin and complexes with ubiquitin ...
XM_036163216.1 → XP_036019109.1 ubiquitin-conjugating enzyme E2 D3 isoform X1

UniProtKB/TrEMBL

A0A0G2JGL0, Q3U5V6, Q9D1S1

Conserved Domains (1) summary

cl00154
Location:1 → 146

UBCc; Ubiquitin-conjugating enzyme E2, catalytic (UBCc) domain. This is part of the ubiquitin-mediated protein degradation pathway in which a thiol-ester linkage forms between a conserved cysteine and the C-terminus of ubiquitin and complexes with ubiquitin ...
XM_036163217.1 → XP_036019110.1 ubiquitin-conjugating enzyme E2 D3 isoform X1

UniProtKB/TrEMBL

A0A0G2JGL0, Q3U5V6, Q9D1S1

Conserved Domains (1) summary

cl00154
Location:1 → 146

UBCc; Ubiquitin-conjugating enzyme E2, catalytic (UBCc) domain. This is part of the ubiquitin-mediated protein degradation pathway in which a thiol-ester linkage forms between a conserved cysteine and the C-terminus of ubiquitin and complexes with ubiquitin ...
XM_036163220.1 → XP_036019113.1 ubiquitin-conjugating enzyme E2 D3 isoform X2

UniProtKB/TrEMBL

A0A494BA56

Conserved Domains (1) summary

cl00154
Location:6 → 110

UBCc; Ubiquitin-conjugating enzyme E2, catalytic (UBCc) domain. This is part of the ubiquitin-mediated protein degradation pathway in which a thiol-ester linkage forms between a conserved cysteine and the C-terminus of ubiquitin and complexes with ubiquitin ...