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RNF4 ring finger protein 4 [ Homo sapiens (human) ]

Gene ID: 6047, updated on 29-Mar-2023

Summary

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Official Symbol
RNF4provided by HGNC
Official Full Name
ring finger protein 4provided by HGNC
Primary source
HGNC:HGNC:10067
See related
Ensembl:ENSG00000063978 MIM:602850; AllianceGenome:HGNC:10067
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
SLX5; SNURF; RES4-26
Summary
The protein encoded by this gene contains a RING finger motif and acts as a transcription regulator. This protein has been shown to interact with, and inhibit the activity of, TRPS1, a transcription suppressor of GATA-mediated transcription. Transcription repressor ZNF278/PATZ is found to interact with this protein, and thus reduce the enhancement of androgen receptor-dependent transcription mediated by this protein. Studies of the mouse and rat counterparts suggested a role of this protein in spermatogenesis. A pseudogene of this gene is found on chromosome 1.[provided by RefSeq, Jul 2010]
Expression
Ubiquitous expression in lymph node (RPKM 20.6), testis (RPKM 19.4) and 25 other tissues See more
Orthologs
mouse all
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Genomic context

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See RNF4 in Genome Data Viewer
Location:
4p16.3
Exon count:
10
Annotation release Status Assembly Chr Location
RS_2023_03 current GRCh38.p14 (GCF_000001405.40) 4 NC_000004.12 (2469106..2515857)
RS_2023_03 current T2T-CHM13v2.0 (GCF_009914755.1) 4 NC_060928.1 (2467864..2514631)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 4 NC_000004.11 (2470833..2517584)

Chromosome 4 - NC_000004.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105374353 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:2465175-2465674 Neighboring gene uncharacterized LOC107986250 Neighboring gene H3K27ac hESC enhancer GRCh37_chr4:2470739-2471311 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:2478879-2479379 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:2480295-2480819 Neighboring gene H3K27ac hESC enhancer GRCh37_chr4:2487795-2488296 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:2491261-2492041 Neighboring gene Sharpr-MPRA regulatory region 6001 Neighboring gene family with sequence similarity 193 member A Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:2556971-2557807

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. Knockdown of endogenous RNF4 exacerbates ischaemia-induced cardiomyocyte apoptosis in mice. Qiu F, et al. J Cell Mol Med, 2020 Sep. PMID 32722882, Free PMC Article
  2. Covalent Ligand Screening Uncovers a RNF4 E3 Ligase Recruiter for Targeted Protein Degradation Applications. Ward CC, et al. ACS Chem Biol, 2019 Nov 15. PMID 31059647, Free PMC Article
  3. The Epstein-Barr virus miR-BHRF1-1 targets RNF4 during productive infection to promote the accumulation of SUMO conjugates and the release of infectious virus. Li J, et al. PLoS Pathog, 2017 Apr. PMID 28414785, Free PMC Article
  4. RNF4 promotes tumorigenesis, therapy resistance of cholangiocarcinoma and affects cell cycle by regulating the ubiquitination degradation of p27kip1 in the nucleus. Huang J, et al. Exp Cell Res, 2022 Oct 1. PMID 35926659
  5. RNF4 silencing induces cell growth arrest and DNA damage by promoting nuclear targeting of p62 in hepatocellular carcinoma. Lv B, et al. Oncogene, 2022 Apr. PMID 35236966

See all (127) citations in PubMed

See citations in PubMed for homologs of this gene provided by HomoloGene

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. RNF4~RGMb~BMP6 axis required for osteogenic differentiation and cancer cell survival.
    Title: RNF4~RGMb~BMP6 axis required for osteogenic differentiation and cancer cell survival.
  2. RNF4 promotes tumorigenesis, therapy resistance of cholangiocarcinoma and affects cell cycle by regulating the ubiquitination degradation of p27kip1 in the nucleus.
    Title: RNF4 promotes tumorigenesis, therapy resistance of cholangiocarcinoma and affects cell cycle by regulating the ubiquitination degradation of p27kip1 in the nucleus.
  3. PRMT5-mediated RNF4 methylation promotes therapeutic resistance of APL cells to As2O3 by stabilizing oncoprotein PML-RARalpha.
    Title: PRMT5-mediated RNF4 methylation promotes therapeutic resistance of APL cells to As(2)O(3) by stabilizing oncoprotein PML-RARα.
  4. RNF4 silencing induces cell growth arrest and DNA damage by promoting nuclear targeting of p62 in hepatocellular carcinoma.
    Title: RNF4 silencing induces cell growth arrest and DNA damage by promoting nuclear targeting of p62 in hepatocellular carcinoma.
  5. Roles of the SUMO-related enzymes, PIAS1, PIAS4, and RNF4, in DNA double-strand break repair by homologous recombination.
    Title: Roles of the SUMO-related enzymes, PIAS1, PIAS4, and RNF4, in DNA double-strand break repair by homologous recombination.
  6. Knockdown of endogenous RNF4 exacerbates ischaemia-induced cardiomyocyte apoptosis in mice.
    Title: Knockdown of endogenous RNF4 exacerbates ischaemia-induced cardiomyocyte apoptosis in mice.
  7. Regulation of eIF2alpha by RNF4 Promotes Melanoma Tumorigenesis and Therapy Resistance.
    Title: Regulation of eIF2α by RNF4 Promotes Melanoma Tumorigenesis and Therapy Resistance.
  8. RNF4-mediated SUMO-targeted ubiquitination relieves PARIS/ZNF746-mediated transcriptional repression.
    Title: RNF4-mediated SUMO-targeted ubiquitination relieves PARIS/ZNF746-mediated transcriptional repression.
  9. Effect of SUMO-SIM Interaction on the ICP0-Mediated Degradation of PML Isoform II and Its Associated Proteins in Herpes Simplex Virus 1 Infection.
    Title: Effect of SUMO-SIM Interaction on the ICP0-Mediated Degradation of PML Isoform II and Its Associated Proteins in Herpes Simplex Virus 1 Infection.
  10. Functional 3D architecture in an intrinsically disordered E3 ligase domain facilitates ubiquitin transfer.
    Title: Functional 3D architecture in an intrinsically disordered E3 ligase domain facilitates ubiquitin transfer.
Submit: New GeneRIF Correction See all GeneRIFs (52)

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

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

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables DNA binding ISS
Inferred from Sequence or Structural Similarity
more info
  
enables SUMO polymer binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables identical protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables nuclear receptor coactivator activity TAS
Traceable Author Statement
more info
 PubMed 
enables nucleosome binding ISS
Inferred from Sequence or Structural Similarity
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables transcription factor binding IBA
Inferred from Biological aspect of Ancestor
more info
 PubMed 
enables ubiquitin protein ligase activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables ubiquitin-protein transferase activity ISS
Inferred from Sequence or Structural Similarity
more info
  
enables zinc ion binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in negative regulation of protein localization to chromatin IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in positive regulation of DNA-templated transcription ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in positive regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
 PubMed 
involved_in positive regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in proteasome-mediated ubiquitin-dependent protein catabolic process IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in protein K11-linked ubiquitination ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in protein K48-linked ubiquitination ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in protein K6-linked ubiquitination ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in protein K63-linked ubiquitination ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in protein autoubiquitination ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in regulation of kinetochore assembly IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in regulation of spindle assembly IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in response to arsenic-containing substance IDA
Inferred from Direct Assay
more info
 PubMed 
Component Evidence Code Pubs
colocalizes_with PML body IBA
Inferred from Biological aspect of Ancestor
more info
 PubMed 
colocalizes_with PML body IDA
Inferred from Direct Assay
more info
 PubMed 
located_in cytoplasm IDA
Inferred from Direct Assay
more info
 PubMed 
located_in microtubule end IDA
Inferred from Direct Assay
more info
  
located_in nuclear body IDA
Inferred from Direct Assay
more info
  
located_in nucleoplasm IDA
Inferred from Direct Assay
more info
  
located_in nucleoplasm TAS
Traceable Author Statement
more info
  
located_in nucleus IDA
Inferred from Direct Assay
more info
 PubMed 

General protein information

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Preferred Names
E3 ubiquitin-protein ligase RNF4
Names
E3 ubiquitin ligase RNF4
RING-type E3 ubiquitin transferase RNF4
small nuclear RING finger protein
NP_001171938.1
NP_001171939.1
NP_002929.1
XP_047272018.1
XP_054206669.1

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_001185009.3 → NP_001171938.1  E3 ubiquitin-protein ligase RNF4 isoform 1

    See identical proteins and their annotated locations for NP_001171938.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longer isoform (1). Both variants 1 and 2 encode the same isoform (2).
    Source sequence(s)
    AB000468, BC031935, BX322586, DB064628, U95140
    Consensus CDS
    CCDS47001.1
    UniProtKB/Swiss-Prot
    P78317, Q49AR8
    Related
    ENSP00000424076.1, ENST00000506706.5
    Conserved Domains (1) summary
    cd16533
    Location:127 → 180
    RING-HC_RNF4; RING finger, HC subclass, found in RING finger protein 4 (RNF4) and similar proteins

  2. NM_001185010.3 → NP_001171939.1  E3 ubiquitin-protein ligase RNF4 isoform 2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR and lacks an alternate exon in the 3' coding region which results in a frameshift, compared to variant 1. The resulting protein (isoform 2) has a distinct C-terminus and is shorter than isoform 1.
    Source sequence(s)
    AB000468, AK309509, BX322586, DA342512, U95140
    Consensus CDS
    CCDS54713.1
    UniProtKB/Swiss-Prot
    P78317
    Related
    ENSP00000446369.2, ENST00000541204.5

  3. NM_002938.5 → NP_002929.1  E3 ubiquitin-protein ligase RNF4 isoform 1

    See identical proteins and their annotated locations for NP_002929.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Both variants 1 and 2 encode the same isoform (2).
    Source sequence(s)
    AB000468, BX322586, DA342512, U95140
    Consensus CDS
    CCDS47001.1
    UniProtKB/Swiss-Prot
    P78317, Q49AR8
    Related
    ENSP00000315212.8, ENST00000314289.13
    Conserved Domains (1) summary
    cd16533
    Location:127 → 180
    RING-HC_RNF4; RING finger, HC subclass, found in RING finger protein 4 (RNF4) and similar proteins

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_03

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000004.12 Reference GRCh38.p14 Primary Assembly

    Range
    2469106..2515857
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047416062.1 → XP_047272018.1  E3 ubiquitin-protein ligase RNF4 isoform X1

    UniProtKB/Swiss-Prot
    Q49AR8

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060928.1 Alternate T2T-CHM13v2.0

    Range
    2467864..2514631
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054350694.1 → XP_054206669.1  E3 ubiquitin-protein ligase RNF4 isoform X1

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P78317.1 GenPept UniProtKB/Swiss-Prot:P78317

Gene LinkOut

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