Tchem UBE2N Ubiquitin-conjugating enzyme E2 N

Protein Summary

Description

The UBE2V1-UBE2N and UBE2V2-UBE2N heterodimers catalyze the synthesis of non-canonical 'Lys-63'-linked polyubiquitin chains. This type of polyubiquitination does not lead to protein degradation by the proteasome. Mediates transcriptional activation of target genes. Plays a role in the control of progress through the cell cycle and differentiation. Plays a role in the error-free DNA repair pathway and contributes to the survival of cells after DNA damage. Acts together with the E3 ligases, HLTF and SHPRH, in the 'Lys-63'-linked poly-ubiquitination of PCNA upon genotoxic stress, which is required for DNA repair. Appears to act together with E3 ligase RNF5 in the 'Lys-63'-linked polyubiquitination of JKAMP thereby regulating JKAMP function by decreasing its association with components of the proteasome and ERAD. Promotes TRIM5 capsid-specific restriction activity and the UBE2V1-UBE2N heterodimer acts in concert with TRIM5 to generate 'Lys-63'-linked polyubiquitin chains which activate the MAP3K7/TAK1 complex which in turn results in the induction and expression of NF-kappa-B and MAPK-responsive inflammatory genes. The modification of proteins with ubiquitin is an important cellular mechanism for targeting abnormal or short-lived proteins for degradation. Ubiquitination involves at least three classes of enzymes: ubiquitin-activating enzymes, or E1s, ubiquitin-conjugating enzymes, or E2s, and ubiquitin-protein ligases, or E3s. This gene encodes a member of the E2 ubiquitin-conjugating enzyme family. Studies in mouse suggest that this protein plays a role in DNA postreplication repair. [provided by RefSeq, Jul 2008]

Uniprot Accession IDs

• P61088
• Q16781
• Q53Y81

Gene Name

• UBE2N

Ensembl ID

• ENST00000318066
• ENSP00000316176
• ENSG00000177889

Symbol

• BLU
• UBC13
• UbcH13
• HEL-S-71
• UbcH-ben
• UBCHBEN; UBC13

Knowledge Table

Most Knowledge About	Knowledge Value (0 to 1 scale)
disease perturbation	0.99
interacting protein	0.99
biological process	0.98
molecular function	0.98
kinase perturbation	0.97

Related Tools

Target Illumination GWAS Analytics (TIGA)

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GENEVA

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GlyGen

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IDG Development Level Summary

Tdark

These are targets about which virtually nothing is known. They do not have known drug or small molecule activities
- AND - satisfy two or more of the following criteria:

Pubmed score: 158.1   (req: < 5)

Gene RIFs: 37   (req: <= 3)

Antibodies: 341   (req: <= 50)

Tbio

These targets do not have known drug or small molecule activities
- AND - satisfy two or more of the following criteria:

Pubmed score: 158.1   (req: >= 5)

Gene RIFs: 37   (req: > 3)

Antibodies: 341   (req: > 50)

- OR - satisfy the following criterion:

Gene Ontology Terms: 28

Tchem

Target has at least one ChEMBL compound with an activity cutoff of < 30 nM - AND - satisfies the preceding conditions

Active Ligands: 13

Tclin

Target has at least one approved drug - AND - satisfies the preceding conditions

Active Drug: 0

Active Ligands (13)

Explore Active Ligands

1 – 10 of 13

SID17387598

UBE2NTchem

IC50 : 6.41

SID17516727

UBE2NTchem

IC50 : 6.29

SID17407335

UBE2NTchem

IC50 : 6.29

SID24834376

UBE2NTchem

IC50 : 6.25

SID22400748

UBE2NTchem

IC50 : 6.23

SID17516914

UBE2NTchem

IC50 : 6.18

SID22400455

UBE2NTchem

IC50 : 6.15

SID24798232

UBE2NTchem

IC50 : 6.12

SID24823824

UBE2NTchem

IC50 : 6.08

SID4259929

UBE2NTchem

IC50 : 6.06

GWAS Traits (7)

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GWAS Trait	EFO ID	Study Count	SNP Count	Beta Count	Odds Ratio	Evidence (Mean Rank Score)	Provenance
platelet count	EFO_0004309	2	2	2		82
red blood cell distribution width	EFO_0005192	2	2	2		76.7
reticulocyte measurement	EFO_0010700	3	2	3		66.6
reticulocyte count	EFO_0007986	3	2	3		58.9
mean reticulocyte volume	EFO_0010701	1	1	1		54.4

• Explore on Target Illumination GWAS Analytics (TIGA)

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GWAS Trait	EFO ID	Beta Count	Odds Ratio	Evidence (Mean Rank Score)	Provenance
platelet count	EFO_0004309	2		82
red blood cell distribution width	EFO_0005192	2		76.7
reticulocyte measurement	EFO_0010700	3		66.6
reticulocyte count	EFO_0007986	3		58.9
mean reticulocyte volume	EFO_0010701	1		54.4

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Orthologs (12)

1 – 5 of 12

Species	Name	Source ID	Gene ID	OMA	EggNOG	Inparanoid
Chimp	ubiquitin conjugating enzyme E2 N	VGNC:5641	452125
Macaque	ubiquitin conjugating enzyme E2 N		715437
Mouse	ubiquitin-conjugating enzyme E2N	MGI:1934835	93765
Rat	ubiquitin-conjugating enzyme E2N	RGD:621096	116725
Horse	ubiquitin-conjugating enzyme E2 N		102150222

Species	Name	OMA	EggNOG	Inparanoid
Chimp	ubiquitin conjugating enzyme E2 N
Macaque	ubiquitin conjugating enzyme E2 N
Mouse	ubiquitin-conjugating enzyme E2N
Rat	ubiquitin-conjugating enzyme E2N
Horse	ubiquitin-conjugating enzyme E2 N

Protein Structure (26 Structures, 1 AlphaFold Model)

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Representation

  axes   backbone   ball+stick   cartoon   rocket   rope   spacefill

Color Scheme

  target   atomindex   bfactor   chainname   electrostatic   element   hydrophobicity   resname   sstruc

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More information can be found at RCSB PDB

AF-P61088-F1-model_v1

AlphaFold Structures Developed by DeepMind and EMBL-EBI

1 – 5 of 26

PDB Structure Id	Ligand	Method	Resolution (Å)	Residues	Fraction of Total Protein	Pub Year	Title

PDB Structure Id	Fraction of Total Protein	Resolution	Pub Year

Pathways (199)

Reactome (65)

KEGG (1)

PathwayCommons (14)

UniProt (1)

WikiPathways (118)

Adaptive Immune System (R-HSA-1280218)

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Data Source	Name	Explore in Pharos	Explore in Source
Reactome	Adaptive Immune System	894 targets	R-HSA-1280218
Reactome	Antigen processing: Ubiquitination & Proteasome degradation	307 targets	R-HSA-983168
Reactome	Antiviral mechanism by IFN-stimulated genes	82 targets	R-HSA-1169410
Reactome	C-type lectin receptors (CLRs)	144 targets	R-HSA-5621481
Reactome	CLEC7A (Dectin-1) signaling	101 targets	R-HSA-5607764

Name	Explore in Pharos	Explore in Source
Adaptive Immune System	894 targets	R-HSA-1280218
Antigen processing: Ubiquitination & Proteasome degradation	307 targets	R-HSA-983168
Antiviral mechanism by IFN-stimulated genes	82 targets	R-HSA-1169410
C-type lectin receptors (CLRs)	144 targets	R-HSA-5621481
CLEC7A (Dectin-1) signaling	101 targets	R-HSA-5607764

Gene Ontology Terms (38)

Functions (6)

Components (10)

Processes (22)

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10

1 – 6 of 6

GO Term	Evidence	Assigned by
ubiquitin binding	Inferred from Direct Assay (IDA)	HGNC
ubiquitin-protein transferase activity	Inferred from Direct Assay (IDA)	UniProtKB
ubiquitin protein ligase binding	Inferred from Physical Interaction (IPI)	UniProtKB
RNA binding	Inferred from High Throughput Direct Assay (HDA)	UniProtKB
ubiquitin conjugating enzyme activity	Inferred from Sequence or structural Similarity (ISS)	UniProtKB
ATP binding	Inferred from Electronic Annotation (IEA)	UniProtKB-KW

Protein-Protein Interactions (611)

Explore Interacting Targets

1 – 10 of 611

• See Interactions on String-DB

UBC

Tbio

Novelty:  0.00204643

Score:  0.999

Data Source:  STRINGDB

UBE2V2

Tbio

Novelty:  0.01112479

Score:  0.999

Data Source:  Reactome,STRINGDB

TRAF6

Tbio

Novelty:  0.00109366

Score:  0.998

Data Source:  Reactome,STRINGDB

UBE2V1

Tbio

Novelty:  0.01642178

Score:  0.998

Data Source:  Reactome,STRINGDB

RPS27A

Tbio

Novelty:  0.00658124

Score:  0.998

Data Source:  STRINGDB

UBB

Tbio

Novelty:  0.00661254

Score:  0.998

Data Source:  STRINGDB

STUB1

Tbio

Family:  Enzyme

Novelty:  0.00055102

Score:  0.998

Data Source:  STRINGDB

ZNRF1

Tbio

Family:  Enzyme

Novelty:  0.15739853

Score:  0.997

Data Source:  STRINGDB

UBA52

Tbio

Novelty:  0.01637744

Score:  0.996

Data Source:  STRINGDB

UBA1

Tbio

Novelty:  0.00419724

Score:  0.996

Data Source:  STRINGDB

Publication Statistics

PubMed Score  158.10

PubMed score by year

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PubTator Score  91.75

PubTator score by year

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Amino Acid Sequence

Residue Counts

Protein Sequence

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3D-structure
Acetylation
ATP-binding
Complete proteome
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Disulfide bond
DNA damage
DNA repair
Isopeptide bond

GWAS Trait Find Similar Targets

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mean corpuscular hemoglobin concentration
mean reticulocyte volume
platelet count
platelet crit
red blood cell distribution width
reticulocyte count
reticulocyte measurement

MGI Phenotype Find Similar Targets

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cellular phenotype
hematopoietic system phenotype
immune system phenotype
mortality/aging