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UBE2F ubiquitin conjugating enzyme E2 F (putative) [ Homo sapiens (human) ]

Gene ID: 140739, updated on 5-Mar-2024

Summary

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Official Symbol
UBE2Fprovided by HGNC
Official Full Name
ubiquitin conjugating enzyme E2 F (putative)provided by HGNC
Primary source
HGNC:HGNC:12480
See related
Ensembl:ENSG00000184182 MIM:617700; AllianceGenome:HGNC:12480
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
NCE2
Summary
Enables NEDD8 conjugating enzyme activity. Involved in protein neddylation. Predicted to be located in cytosol. Predicted to be active in nucleus. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in bone marrow (RPKM 11.8), thyroid (RPKM 10.6) and 25 other tissues See more
Orthologs
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Genomic context

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Location:
2q37.3
Exon count:
12
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 2 NC_000002.12 (237967014..238042782)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 2 NC_060926.1 (238457016..238532785)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 2 NC_000002.11 (238875656..238951423)

Chromosome 2 - NC_000002.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105373960 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 12482 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_57230 Neighboring gene H3K27ac hESC enhancer GRCh37_chr2:238850021-238850520 Neighboring gene uncharacterized LOC124908001 Neighboring gene CRISPRi-validated cis-regulatory element chr2.7218 Neighboring gene CRISPRi-validated cis-regulatory element chr2.7219 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 12483 Neighboring gene UBE2F-SCLY readthrough (NMD candidate) Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:238936739-238937352 Neighboring gene ReSE screen-validated silencer GRCh37_chr2:238941390-238941585 Neighboring gene RNA, U6 small nuclear 1333, pseudogene Neighboring gene H3K27ac hESC enhancer GRCh37_chr2:238948423-238948923 Neighboring gene ReSE screen-validated silencer GRCh37_chr2:238951349-238951541 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_57261 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 12484 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 12485 Neighboring gene selenocysteine lyase Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_57269 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:239002815-239003484 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:239003485-239004152 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:239004821-239005488 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:239005489-239006157 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:239006158-239006825 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:239006826-239007494 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_57276 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:239014380-239015290 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:239015291-239016200 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:239016201-239017111 Neighboring gene espin like Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 12486 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:239039005-239039675

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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Related articles in PubMed

  1. NEDD8-conjugating enzyme E2 UBE2F confers radiation resistance by protecting lung cancer cells from apoptosis. Zhou L, et al. J Zhejiang Univ Sci B, 2021 Nov 15. PMID 34783226, Free PMC Article
  2. UBE2M Is a Stress-Inducible Dual E2 for Neddylation and Ubiquitylation that Promotes Targeted Degradation of UBE2F. Zhou W, et al. Mol Cell, 2018 Jun 21. PMID 29932898, Free PMC Article
  3. A small molecule inhibitor of the UBE2F-CRL5 axis induces apoptosis and radiosensitization in lung cancer. Xu T, et al. Signal Transduct Target Ther, 2022 Oct 17. PMID 36253371, Free PMC Article
  4. Induction of NEDD8-conjugating enzyme E2 UBE2F by platinum protects lung cancer cells from apoptosis and confers to platinum-insensitivity. Zhou L, et al. Cell Death Dis, 2020 Nov 12. PMID 33184273, Free PMC Article
  5. Cullin-5 neddylation-mediated NOXA degradation is enhanced by PRDX1 oligomers in colorectal cancer. Xu S, et al. Cell Death Dis, 2021 Mar 12. PMID 33712558, Free PMC Article

See all (33) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. NEDD8-conjugating enzyme E2 UBE2F confers radiation resistance by protecting lung cancer cells from apoptosis.
    Title: NEDD8-conjugating enzyme E2 UBE2F confers radiation resistance by protecting lung cancer cells from apoptosis.
  2. Induction of NEDD8-conjugating enzyme E2 UBE2F by platinum protects lung cancer cells from apoptosis and confers to platinum-insensitivity.
    Title: Induction of NEDD8-conjugating enzyme E2 UBE2F by platinum protects lung cancer cells from apoptosis and confers to platinum-insensitivity.
  3. Study establishes a negative regulatory axis between two neddylation E2s with UBE2M ubiquitylating UBE2F, and two CRLs with CRL3 inactivating CRL5.
    Title: UBE2M Is a Stress-Inducible Dual E2 for Neddylation and Ubiquitylation that Promotes Targeted Degradation of UBE2F.
  4. By ubiquitylating and degrading NOXA through activating CRL5, UBE2F selectively promotes lung cancer cell survival and could, therefore, serve as a novel cancer target
    Title: Neddylation E2 UBE2F Promotes the Survival of Lung Cancer Cells by Activating CRL5 to Degrade NOXA via the K11 Linkage.
  5. Distinct preferences of UBC12 and UBE2F peptides for inhibiting different DCNLs, including the oncogenic DCNL1.
    Title: Structural conservation of distinctive N-terminal acetylation-dependent interactions across a family of mammalian NEDD8 ligation enzymes.
Submit: New GeneRIF Correction

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

HIV-1 interactions

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Protein interactions

Protein Gene Interaction Pubs
Vif vif The conjugation of NEDD8 to Cullin-5 by UBE2F is required for HIV-1 Vif-mediated A3G degradation PubMed
vif The active site proximal loop extension (residues 124-129) in UBE2F is critical for HIV-1 Vif-mediated A3G degradation PubMed
vif UBE2F and RBX2 are required for activation of the polyubiquitin synthesis activity of Vif/CBF-beta/CUL5, leading to HIV-1 Vif-mediated degradation of A3G in cells PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

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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

Homology

Clone Names

  • MGC18120

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables ATP binding IEA
Inferred from Electronic Annotation
more info
  
enables NEDD8 conjugating enzyme activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables NEDD8 ligase activity IEA
Inferred from Electronic Annotation
more info
  
enables NEDD8 transferase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables NEDD8 transferase activity TAS
Traceable Author Statement
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in post-translational protein modification TAS
Traceable Author Statement
more info
  
involved_in protein neddylation IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in protein neddylation IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in protein neddylation IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in cytosol TAS
Traceable Author Statement
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
NEDD8-conjugating enzyme UBE2F
Names
NEDD8 carrier protein UBE2F
NEDD8 protein ligase UBE2F
NEDD8-conjugating enzyme 2
RING-type E3 NEDD8 transferase UBE2F
ubiquitin-conjugating enzyme E2F (putative)
NP_001265234.1
NP_001265235.1
NP_001265236.1
NP_001265237.1
NP_542409.1

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)

  1. NM_001278305.2 → NP_001265234.1  NEDD8-conjugating enzyme UBE2F isoform 1

    See identical proteins and their annotated locations for NP_001265234.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR, compared to variant 1. Both variants 1 and 2 encode the same isoform (1).
    Source sequence(s)
    AC016776, AK294107, CN370973, CN370974, DA140546, DB118122
    Consensus CDS
    CCDS2523.1
    UniProtKB/Swiss-Prot
    A8K1Z8, B4DDT9, B4DFI1, B4DMK3, B4DZU2, B8ZZG2, C9J212, H9KVB9, Q969M7
    UniProtKB/TrEMBL
    C9J9P8
    Related
    ENSP00000478474.1, ENST00000612130.4
    Conserved Domains (1) summary
    cl00154
    Location:30 → 184
    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 ...

  2. NM_001278306.2 → NP_001265235.1  NEDD8-conjugating enzyme UBE2F isoform 2

    See identical proteins and their annotated locations for NP_001265235.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR, lacks a portion of the 5' coding region, and initiates translation at an alternate upstream start codon, compared to variant 1. The encoded isoform (2) is shorter than isoform 1 and has a distinct N-terminus.
    Source sequence(s)
    AK294107, BM470609, BX421077, CN370973, CN370974
    Consensus CDS
    CCDS63175.1
    UniProtKB/Swiss-Prot
    Q969M7
    Related
    ENSP00000386680.1, ENST00000409953.5
    Conserved Domains (1) summary
    COG5078
    Location:16 → 160
    COG5078; Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]

  3. NM_001278307.2 → NP_001265236.1  NEDD8-conjugating enzyme UBE2F isoform 3

    See identical proteins and their annotated locations for NP_001265236.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) lacks two alternate exons in the 5' coding region, but maintains the reading frame, compared to variant 1. The encoded isoform (3) is shorter than isoform 1.
    Source sequence(s)
    AK297502, CN370973, CN370974
    Consensus CDS
    CCDS63177.1
    UniProtKB/TrEMBL
    C9JF62
    Related
    ENSP00000399183.1, ENST00000414443.5
    Conserved Domains (1) summary
    cl00154
    Location:40 → 152
    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 ...

  4. NM_001278308.2 → NP_001265237.1  NEDD8-conjugating enzyme UBE2F isoform 4

    See identical proteins and their annotated locations for NP_001265237.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) lacks an alternate exon in the 3' coding region, but maintains the reading frame, compared to variant 1. The encoded isoform (4) is shorter than isoform 1.
    Source sequence(s)
    AK294107, BQ959565, BX421077, CN370973, CN370974
    Consensus CDS
    CCDS63176.1
    UniProtKB/TrEMBL
    C9J9P8
    Related
    ENSP00000387299.1, ENST00000409633.5
    Conserved Domains (1) summary
    cd00195
    Location:35 → 149
    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 ...

  5. NM_080678.3 → NP_542409.1  NEDD8-conjugating enzyme UBE2F isoform 1

    See identical proteins and their annotated locations for NP_542409.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (1). Both variants 1 and 2 encode the same isoform (1).
    Source sequence(s)
    AK290063, AK294107, BC010549, BX421077, CN370973
    Consensus CDS
    CCDS2523.1
    UniProtKB/Swiss-Prot
    A8K1Z8, B4DDT9, B4DFI1, B4DMK3, B4DZU2, B8ZZG2, C9J212, H9KVB9, Q969M7
    UniProtKB/TrEMBL
    C9J9P8
    Related
    ENSP00000272930.4, ENST00000272930.9
    Conserved Domains (1) summary
    cl00154
    Location:30 → 184
    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 ...

RNA

  1. NR_103498.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (6) lacks an alternate internal exon, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AK294107, BX421077, CN370973, CN370974

  2. NR_103499.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (7) lacks two alternate internal exons, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AK303094, BQ959565, BX421077, CN370973, CN370974

  3. NR_103500.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (8) contains an alternate internal exon, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AK294107, BM920749, BX421077, CN370973, CN370974

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000002.12 Reference GRCh38.p14 Primary Assembly

    Range
    237967014..238042782
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060926.1 Alternate T2T-CHM13v2.0

    Range
    238457016..238532785
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q969M7.1 GenPept UniProtKB/Swiss-Prot:Q969M7

Gene LinkOut

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