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UBE2D3
HPA
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Annotation
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Category
Tau score
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Tau score
Brain region
Category
Tau score
Brain region
Category
Tau score
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Reliability
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Tau score
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Tau score
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Tau score
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Tau score
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Tau score
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Cancer
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Variants
Interacting gene (ensg_id)
Type
Number of interactions
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ipTM
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Category
Category
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Validation
Antibodies
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Column


  • SUMMARY

  • TISSUE

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  • SINGLE CELL

  • SUBCELL

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  • BLOOD

  • CELL LINE

  • STRUCTURE

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  • UBE2D3
INTERACTION INTERACTION METABOLIC PATHWAYS Show tissue menu
ISOLATED
Protein interactions
Protein interactions
Methods
Human metabolism
Metabolic proteins
Methods
GENERAL INFORMATIONi

General description of the gene and the encoded protein(s) using information from HGNC and Ensembl, as well as predictions made by the Human Protein Atlas project.

Gene namei

Official gene symbol, which is typically a short form of the gene name, according to HGNC.

UBE2D3
Synonyms UbcH5C
Gene descriptioni

Full gene name according to HGNC.

Ubiquitin conjugating enzyme E2 D3
Protein classi

Assigned HPA protein class(es) for the encoded protein(s).

Read more
Enzymes
Essential proteins
Metabolic proteins
Predicted locationi

All transcripts of all genes have been analyzed regarding the location(s) of corresponding protein based on prediction methods for signal peptides and transmembrane regions.

  • Genes with at least one transcript predicted to encode a secreted protein, according to prediction methods or to UniProt location data, have been further annotated and classified with the aim to determine if the corresponding protein(s) are secreted or actually retained in intracellular locations or membrane-attached.
  • Remaining genes, with no transcript predicted to encode a secreted protein, will be assigned the prediction-based location(s).

The annotated location overrules the predicted location, so that a gene encoding a predicted secreted protein that has been annotated as intracellular will have intracellular as the final location.

Intracellular
Protein evidence Evidence at protein level (all genes)

HUMAN PROTEIN ATLAS INFORMATIONi

Summary of RNA expression analysis and annotation data generated within the Human Protein Atlas project.

Single cell type
expression clusteri

The RNA data was used to cluster genes according to their expression across single cell types. Clusters contain genes that have similar expression patterns, and each cluster has been manually annotated to describe common features in terms of function and specificity.

Neutrophils - Innate immune cellular maintenance (mainly)
Single cell type specificityi

The RNA specificity category is based on mRNA expression levels in the analyzed cell types based on scRNA-seq data from normal tissues. The categories include: cell type enriched, group enriched, cell type enhanced, low cell type specificity and not detected.

Cell type enhanced (Esophageal apical cells, Neutrophils)
Tissue expression
cluster (RNA)i

The RNA data was used to cluster genes according to their expression across tissues. Clusters contain genes that have similar expression patterns, and each cluster has been manually annotated to describe common features in terms of function and specificity.

Non-specific - Basic cellular processes (mainly)
Tissue specificity (RNA)i

The RNA specificity category is based on mRNA expression levels in the consensus dataset which is calculated from the RNA expression levels in samples from HPA and GTEX. The categories include: tissue enriched, group enriched, tissue enhanced, low tissue specificity and not detected.

Low tissue specificity
Subcellular locationi

Main subcellular location based on data generated in the subcellular section of the Human Protein Atlas.

Localized to the Plasma membrane, Cytosol
Secretome annotationi

All genes with at least one predicted secreted isoform have been annotated and classified with the aim to determine if the corresponding protein(s) are:

  • secreted into blood
  • locally secreted
  • or actually being attached to membrane or retained in intracellular locations like mitochondria, endoplasmatic reticulum (ER), Golgi apparatus or lysosomes.
Not available
GENE INFORMATIONi

Gene information from Ensembl and Entrez, as well as links to available gene identifiers are displayed here. Information was retrieved from Ensembl if not indicated otherwise.

Chromosome 4
Cytoband q24
Chromosome location (bp) 102794383 - 102868896
Number of transcriptsi

Number of protein-coding transcripts from the gene as defined by Ensembl.

19
Ensembl ENSG00000109332 (version 109)
Entrez gene 7323
HGNC HGNC:12476
UniProt P61077
GeneCards UBE2D3
ASSAYSi

Links to data of the different assays available in the Structure & Interaction resource of the Human Protein Atlas. Click on the miniature images to directly get to the respective section.

Interaction Metabolic
INTERACTIONi

In the Interaction part of this page network plots showing the gene's first-level interaction partners according to four different datasets are displayed, including a consensus network plot showing only interactions present in at least two of the datasets. By clicking on nodes the network can be expanded. In the network plots the nodes represent genes and edge color represent the number of datasets the interaction belongs to. In-house generated AlphaFold 3 predicted 3D structures for interactions in the consensus network are displayed by clicking on the blue symbols on the edges.

The highlight bar in the top of the plot can be used to color the nodes according to subcellular location (based on data in the Subcellular section), predicted location (based on signalpeptide and transmembrane region predictions), tissue specificity (based on RNA tissue expression profiles) or proteinclass. For genes categorised as single cell type or group specific the option to highlight interaction partners expressed in the same cell type will also be available in the highlight bar.

Custom highlighting of nodes is possible using the top left Filter option in which a query of choice can be built to for example label all nodes that are tissue enriched in both human and mouse brain or those that belongs to a certain tissue expression cluster. The expression cluster for the gene is stated in the box Human Protein Atlas Information above the network plot. Click on Filter in the top left in the plot to find the query builder and some example queries.

Interactions included are direct interaction and physical associations with high and medium confidence from IntAct, physical multivalidated interactions from BioGRID, interactions with>75% probability from BioPlex and significant physical interactions from OpenCell.

Filter menu »
Fields »
e.g. Brain enriched, Localized to mitochondria, Non-specific - Basic cellular processes

Field
Term
Gene name
Class
Subclass
Category
Keyword
Chromosome
External id
Tissue
Cell type
Expression
Antibody panel
Tissue
Main location
Patient ID
Annotation
Tissue
Category
Tau score
Cluster
Reliability
Brain region
Category
Tau score
Brain region
Category
Tau score
Brain region
Category
Tau score
Cluster
Reliability
Tissue
Cell type
Enrichment
Cell type
Category
Tau score
Cell type group
Category
Tau score
Cell type
Category
Tau score
Cell type
Category
Tau score
Cell lineage
Category
Tau score
Cluster
Cluster
Location
Searches
Location
Cell line
Class
Type
Phase
Reliability
Cancer
Prognosis
Cancer
Category
Cancer
Category
Tau score
Cluster
Variants
Interacting gene (ensg_id)
Type
Number of interactions
Pathway
ipTM
Category
Category
Category
Category
Validation
Validation
Validation
Validation
Antibodies
Data type
Column


Consensus
IntAct
BioGrid
OpenCell
BioPlex
Highlight:
Off
Subcell location
Predicted location
Cell type specificity
Protein class

Non-commercial use only, subject to AlphaFold3 Output Terms of Use

Interaction:
Color scheme:
Confidence
Antibodies
Interactor
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Autorotate:
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PAE plot
Number of interactions: 23
Interaction# Consensus# IntAct# BioGrid# OpenCell# BioPlex
AMFR131265015
BFAR35500
DTX37201300
MEX3B11900
MID19272600
OTUB112425406
RFWD31081614
RNF106171600
RNF11171542801
RNF11110132610
RNF11561125034
RNF126662420
RNF2323395813
RNF2579835
RNF26451900
RNF43563500
RNF5144434010
SIAH114885900
TRAF6316015503
TRIM399281600
UBTD1412700
XIAP27428428
ZNRF1791200
Show allShow less
Highlight:
Off
Subcell location
Predicted location
Cell type specificity
Protein class

Number of interactions: 26 View all protein interaction data in IntAct
Interaction# Consensus# IntAct# BioGrid# OpenCell# BioPlex
AMFR131265015
BFAR35500
DTX210952301
DTX37201300
GNB2242648063
MEX3B11900
MID19272600
OTUB112425406
RFWD31081614
RNF106171600
RNF11171542801
RNF11110132610
RNF11561125034
RNF126662420
RNF2323395813
RNF2579835
RNF26451900
RNF43563500
RNF5144434010
SIAH114885900
TRAF6316015503
TRIM399281600
TRIM62013302
UBTD1412700
XIAP27428428
ZNRF1791200
Show allShow less
Highlight:
Off
Subcell location
Predicted location
Cell type specificity
Protein class

Number of interactions: 121
Interaction# Consensus# IntAct# BioGrid# OpenCell# BioPlex
AMFR131265015
ANAPC11231870
ARIH1134703
BARD18226660
BFAR35500
BIRC2183562313
BIRC312105803
BMI114188805
BRCA1363931130
BTRC253818500
CBL313613130
CHFR451910
DTX37201300
DTX3L13900
FBXL2131501
FBXO714754024
HECTD1219224
HSPA1A1731800
HUWE15520920
ITCH161810700
MARCHF73515118
MARCHF8051100
MDM2476126100
MEX3B11900
MIB1433715
MID19272600
MID2231620
MSL212910
MUL1041501
MYCBP28527110
MYLIP229900
NEDD4252616300
NEDD4L789620
NFKBIA15246242
NHLRC111804
OTUB112425406
PCNA34371501014
PJA1221410
PJA2001600
PRKN1111140500
PRPF193510874025
RBCK16214502
RBX1121413121
RFFL001600
RFWD31081614
RING1222362220
RNF106171600
RNF11171542801
RNF11110132610
RNF113A431502
RNF114361203
RNF11561125034
RNF125351700
RNF126662420
RNF13019113
RNF13000900
RNF146253310
RNF167441311
RNF168052900
RNF181221500
RNF185182128132
RNF2323395813
RNF2162121400
RNF2579835
RNF26451900
RNF316124900
RNF34181520
RNF410807104
RNF4110153615
RNF43563500
RNF5144434010
RNF710734020
RNF83424600
RPS27A51553012
SH3RF1241400
SIAH114885900
SIAH2334100
SMURF1568200
SMURF29125904
SQSTM1324031220
STUB12657192020
SYVN11085150
TERT292400
TOPORS111906
TRAF6316015503
TRIM11221500
TRIM17331000
TRIM2271000
TRIM2391422300
TRIM253319000
TRIM26272100
TRIM27202356300
TRIM31231401
TRIM32113237015
TRIM33635240
TRIM399281600
TRIM5231200
TRIM543151800
TRIM55121900
TRIM638103600
TRIM69117900
TRIM71191100
UBA15966150
UBA5271540202
UBA6112116
UBC355946340
UBE3A8811710
UBE3C41192621
UBE4A531320
UBE4B111703
UBOX525400
UBR5559624
UBTD1412700
UHRF1435446
UHRF2662900
WWP1575110
WWP2185214011
XIAP27428428
ZNF598402780
ZNRF1791200
ZNRF2111111
Show allShow less
UBE2D3 has no defined protein interactions in OpenCell.
UBE2D3 has no defined protein interactions in BioPlex.
METABOLIC SUMMARYi

In this summary the pathway/subsystems to which the gene belongs is shown together with the associated cellular compartment for the reactions based on metabolite information. The number of proteins and metabolites in the pathway is shown as well as the number of reactions for the selected gene. By clicking on a pathway in the summary table the associated metabolic network map is shown, together with a gene-tissue heatmap that shows the expression of genes in that pathway in different tissues.

Gene UBE2D3 is associated with 1 reactions in 1 different subsystems, and present in the compartments: Cytosol. Provided by metabolicatlas.org
Pathway / Subsystem Subsystem-associated compartments # proteins # metabolites # reactions for
this protein
Isolated Cytosol, Mitochondria, Peroxisome, Endoplasmic reticulum, Extracellular, Nucleus, Golgi apparatus 524 320 1
PROTEIN INFORMATIONi

The protein information section displays alternative protein-coding transcripts (splice variants) encoded by this gene according to the Ensembl database.

The Splice variant identifier links to the Ensembl website protein summary for the selected splice variant. The data in the Swissprot and TrEMBL columns links to corresponding pages in the UniProt database.

The protein classes assigned to this protein are shown if expanding the data in the protein class column. Parent protein classes are in bold font and subclasses are listed under the parent class.

The length of the protein (amino acid residues according to Ensembl), molecular mass (kDalton), predicted signal peptide and number of predicted transmembrane region(s) according to in-house majority decision methods based on sets of predictors are also reported.

Splice variant SwissProt TrEMBL Protein class Length & mass Signal peptide
(predicted)
Transmembrane regions
(predicted)
UBE2D3-201 P61077
A0A024RDH2
Enzymes
Metabolic proteins
Predicted intracellular proteins
Mapped to neXtProt
Essential proteins
Show all
147 aa
16.7 kDa
No 0
UBE2D3-202 P61077
A0A024RDH2
Enzymes
Metabolic proteins
Predicted intracellular proteins
Mapped to neXtProt
Essential proteins
Protein evidence (Kim et al 2014)
Show all
147 aa
16.7 kDa
No 0
UBE2D3-203 P61077
Enzymes
Metabolic proteins
Predicted intracellular proteins
Mapped to neXtProt
Essential proteins
Protein evidence (Kim et al 2014)
Show all
148 aa
16.8 kDa
No 0
UBE2D3-204 P61077
A0A024RDH2
Enzymes
Metabolic proteins
Predicted intracellular proteins
Mapped to neXtProt
Essential proteins
Show all
147 aa
16.7 kDa
No 0
UBE2D3-205 H9KV45
Metabolic proteins
Predicted intracellular proteins
Essential proteins
141 aa
15.9 kDa
No 0
UBE2D3-206 P61077
Enzymes
Metabolic proteins
Predicted intracellular proteins
Mapped to neXtProt
Essential proteins
Protein evidence (Kim et al 2014)
Show all
149 aa
16.9 kDa
No 0
UBE2D3-207 P61077
A0A024RDH2
Enzymes
Metabolic proteins
Predicted intracellular proteins
Mapped to neXtProt
Essential proteins
Protein evidence (Kim et al 2014)
Show all
147 aa
16.7 kDa
No 0
UBE2D3-208 P61077
A0A024RDH2
Enzymes
Metabolic proteins
Predicted intracellular proteins
Mapped to neXtProt
Essential proteins
Protein evidence (Kim et al 2014)
Show all
147 aa
16.7 kDa
No 0
UBE2D3-209 P61077
A0A024RDH2
Enzymes
Metabolic proteins
Predicted intracellular proteins
Mapped to neXtProt
Essential proteins
Protein evidence (Kim et al 2014)
Show all
147 aa
16.7 kDa
No 0
UBE2D3-210 P61077
A0A024RDH2
Enzymes
Metabolic proteins
Predicted intracellular proteins
Mapped to neXtProt
Essential proteins
Protein evidence (Kim et al 2014)
Show all
147 aa
16.7 kDa
No 0
UBE2D3-211 D6RAH7
Metabolic proteins
Predicted intracellular proteins
Essential proteins
118 aa
13.6 kDa
No 0
UBE2D3-213 D6RIZ3
Metabolic proteins
Predicted intracellular proteins
Essential proteins
78 aa
8.8 kDa
No 0
UBE2D3-217 D6RAH7
Metabolic proteins
Predicted intracellular proteins
Essential proteins
118 aa
13.6 kDa
No 0
UBE2D3-219 D6RAH7
Metabolic proteins
Predicted intracellular proteins
Essential proteins
118 aa
13.6 kDa
No 0
UBE2D3-221 D6RAH7
Metabolic proteins
Predicted intracellular proteins
Essential proteins
118 aa
13.6 kDa
No 0
UBE2D3-222 D6RA11
Metabolic proteins
Predicted intracellular proteins
Essential proteins
96 aa
10.7 kDa
No 0
UBE2D3-223 D6RGD0
Metabolic proteins
Predicted intracellular proteins
Essential proteins
49 aa
5.3 kDa
No 0
UBE2D3-225 D6RAW0
Metabolic proteins
Predicted intracellular proteins
Essential proteins
72 aa
8.2 kDa
No 0
UBE2D3-233 A0A087WY85
Metabolic proteins
Predicted intracellular proteins
Essential proteins
148 aa
16.8 kDa
No 0
Show allShow less

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