RNF169 Gene (Protein Coding)

Ring Finger Protein 169

GC11P074797
GIFtS:
35

Aliases for RNF169 Gene

Aliases for RNF169 Gene

  • Ring Finger Protein 169 2 3 5
  • RING-Type E3 Ubiquitin Transferase RNF169 3 4
  • E3 Ubiquitin-Protein Ligase RNF169 3 4
  • RING Finger Protein 169 4
  • EC 3.4.24.57 54
  • EC 3.1.4.16 54
  • EC 2.3.2.27 4
  • KIAA1991 4

External Ids for RNF169 Gene

Previous GeneCards Identifiers for RNF169 Gene

  • GC11P074138
  • GC11P074459
  • GC11P070756

Summaries for RNF169 Gene

GeneCards Summary for RNF169 Gene

RNF169 (Ring Finger Protein 169) is a Protein Coding gene. Gene Ontology (GO) annotations related to this gene include ligase activity and nucleosome binding. An important paralog of this gene is RNF168.

UniProtKB/Swiss-Prot Summary for RNF169 Gene

  • Probable E3 ubiquitin-protein ligase that acts as a negative regulator of double-strand breaks (DSBs) repair following DNA damage. Recruited to DSB repair sites by recognizing and binding ubiquitin catalyzed by RNF168 and competes with TP53BP1 and BRCA1 for association with RNF168-modified chromatin, thereby acting as a negative regulator of DSBs repair. E3 ubiquitin-protein ligase activity is not required for regulation of DSBs repair.

Additional gene information for RNF169 Gene

No data available for Entrez Gene Summary , CIViC Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for RNF169 Gene

Genomics for RNF169 Gene

GeneHancer (GH) Regulatory Elements for RNF169 Gene

Promoters and enhancers for RNF169 Gene
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around RNF169 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the RNF169 gene promoter:
  • AhR
  • AP-1
  • c-Fos
  • c-Jun
  • Egr-3
  • FosB
  • FOXO3
  • FOXO3a
  • FOXO3b
  • Roaz

Genomic Locations for RNF169 Gene

Genomic Locations for RNF169 Gene
chr11:74,748,849-74,842,413
(GRCh38/hg38)
Size:
93,565 bases
Orientation:
Plus strand
chr11:74,459,913-74,553,458
(GRCh37/hg19)
Size:
93,546 bases
Orientation:
Plus strand

Genomic View for RNF169 Gene

Genes around RNF169 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
RNF169 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for RNF169 Gene
GeneLoc Logo Genomic Neighborhood • Exon Structure • Gene Density

RefSeq DNA sequence for RNF169 Gene

Proteins for RNF169 Gene

Products:

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  • Protein details for RNF169 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q8NCN4-RN169_HUMAN
    Recommended name:
    E3 ubiquitin-protein ligase RNF169
    Protein Accession:
    Q8NCN4
    Secondary Accessions:
    • Q6N015

    Protein attributes for RNF169 Gene

    Size:
    708 amino acids
    Molecular mass:
    77194 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=BAC02700.1; Type=Erroneous initiation; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for RNF169 Gene

neXtProt entry for RNF169 Gene

Protein Expression for RNF169 Gene

See protein expression from ProteomicsDB, MOPED, PaxDb, and MaxQB

Selected DME Specific Peptides for RNF169 Gene

Q8NCN4:
  • CDETAAA
  • KLQQEEE

Post-translational modifications for RNF169 Gene

  • Ubiquitination at Lys691
  • Modification sites at PhosphoSitePlus

Other Protein References for RNF169 Gene

ENSEMBL proteins:
REFSEQ proteins:

Domains & Families for RNF169 Gene

Gene Families for RNF169 Gene

HGNC:
Human Protein Atlas (HPA):
  • Enzymes
  • Predicted intracellular proteins

Protein Domains for RNF169 Gene

Blocks:
InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for RNF169 Gene

GenScript: Design optimal peptide antigens:
  • RING finger protein 169 (RN169_HUMAN)

Graphical View of Domain Structure for InterPro Entry

Q8NCN4

UniProtKB/Swiss-Prot:

RN169_HUMAN :
  • The MIU motif (motif interacting with ubiquitin) mediates the interaction with both 'Lys-48'- and 'Lys-63'-linked ubiquitin chains (PubMed:22733822 and PubMed:22492721). The UMI motif also mediates interaction with ubiquitin. The specificity for different types of ubiquitin is mediated by juxtaposition of ubiquitin-binding motifs (MIU and UMI motifs) with LR motifs (LRMs) (PubMed:22742833).
  • Belongs to the RNF169 family.
Domain:
  • The MIU motif (motif interacting with ubiquitin) mediates the interaction with both 'Lys-48'- and 'Lys-63'-linked ubiquitin chains (PubMed:22733822 and PubMed:22492721). The UMI motif also mediates interaction with ubiquitin. The specificity for different types of ubiquitin is mediated by juxtaposition of ubiquitin-binding motifs (MIU and UMI motifs) with LR motifs (LRMs) (PubMed:22742833).
Family:
  • Belongs to the RNF169 family.
genes like me logo Genes that share domains with RNF169: view

Function for RNF169 Gene

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  1. Animal Model
  2. CRISPR
  3. miRNA
  4. Inhibitory RNA
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Molecular function for RNF169 Gene

UniProtKB/Swiss-Prot Function:
Probable E3 ubiquitin-protein ligase that acts as a negative regulator of double-strand breaks (DSBs) repair following DNA damage. Recruited to DSB repair sites by recognizing and binding ubiquitin catalyzed by RNF168 and competes with TP53BP1 and BRCA1 for association with RNF168-modified chromatin, thereby acting as a negative regulator of DSBs repair. E3 ubiquitin-protein ligase activity is not required for regulation of DSBs repair.
UniProtKB/Swiss-Prot CatalyticActivity:
Reaction=S-ubiquitinyl-[E2 ubiquitin-conjugating enzyme]-L-cysteine + [acceptor protein]-L-lysine = [E2 ubiquitin-conjugating enzyme]-L-cysteine + N(6)-ubiquitinyl-[acceptor protein]-L-lysine.; EC=2.3.2.27;.

Enzyme Numbers (IUBMB) for RNF169 Gene

Phenotypes From GWAS Catalog for RNF169 Gene

Gene Ontology (GO) - Molecular Function for RNF169 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0016740 transferase activity IEA --
GO:0031491 nucleosome binding IDA 22742833
GO:0046872 metal ion binding IEA --
GO:0070530 K63-linked polyubiquitin modification-dependent protein binding IDA 22492721
genes like me logo Genes that share ontologies with RNF169: view
genes like me logo Genes that share phenotypes with RNF169: view

Animal Models for RNF169 Gene

MGI Knock Outs for RNF169:
  • Rnf169 Rnf169<tm1a(EUCOMM)Hmgu>

Animal Model Products

CRISPR Products

miRNA for RNF169 Gene

miRTarBase miRNAs that target RNF169

Clone Products

No data available for Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for RNF169 Gene

Localization for RNF169 Gene

Subcellular locations from UniProtKB/Swiss-Prot for RNF169 Gene

Nucleus, nucleoplasm. Note=Localizes to sites of double-strand breaks (DSBs) following DNA damage. Recruited to DSBs via recognition of RNF168-dependent ubiquitin products.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for RNF169 gene
Compartment Confidence
nucleus 5
cytosol 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Nuclear speckles (3)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for RNF169 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IDA 22733822
GO:0005654 nucleoplasm IEA,IDA 22492721
GO:0016607 nuclear speck IDA --
GO:0035861 site of double-strand break IDA 22492721
genes like me logo Genes that share ontologies with RNF169: view

Pathways & Interactions for RNF169 Gene

PathCards logo

SuperPathways for RNF169 Gene

No Data Available

UniProtKB/Swiss-Prot Q8NCN4-RN169_HUMAN

  • Pathway: Protein modification; protein ubiquitination.

Gene Ontology (GO) - Biological Process for RNF169 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006974 cellular response to DNA damage stimulus IMP 22492721
GO:0016567 protein ubiquitination IEA --
GO:2000780 negative regulation of double-strand break repair IMP 22492721
genes like me logo Genes that share ontologies with RNF169: view

No data available for Pathways by source and SIGNOR curated interactions for RNF169 Gene

Drugs & Compounds for RNF169 Gene

Products:

  1. Drug
No Compound Related Data Available

Transcripts for RNF169 Gene

Products:

  1. CRISPR
  2. miRNA
  3. Inhibitory RNA
  4. Clone

mRNA/cDNA for RNF169 Gene

(1) REFSEQ mRNAs :
(5) Additional mRNA sequences :
(120) Selected AceView cDNA sequences:
(2) Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for RNF169 Gene

No ASD Table

Relevant External Links for RNF169 Gene

GeneLoc Exon Structure for
RNF169
ECgene alternative splicing isoforms for
RNF169

Expression for RNF169 Gene

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  1. Primer
  2. Gene Expression Assay

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for RNF169 Gene

mRNA expression in normal human tissues for RNF169 Gene
mRNA expression by GTEx for RNF169 GenemRNA expression by BioGPS for RNF169 Gene

Protein differential expression in normal tissues from HIPED for RNF169 Gene

This gene is overexpressed in Peripheral blood mononuclear cells (16.6), NK cells (14.0), Blymphocyte (11.8), and CD8 Tcells (11.2).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for RNF169 Gene



Protein tissue co-expression partners for RNF169 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of RNF169 Gene:

RNF169

SOURCE GeneReport for Unigene cluster for RNF169 Gene:

Hs.745050

Evidence on tissue expression from TISSUES for RNF169 Gene

  • Liver(4.2)
  • Nervous system(4.2)
genes like me logo Genes that share expression patterns with RNF169: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for RNF169 Gene

Orthologs for RNF169 Gene

This gene was present in the common ancestor of chordates.

Orthologs for RNF169 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
 Mammalia RNF169 33 32
  • 99.58 (n)
 OneToOne
cow
(Bos Taurus)
 Mammalia RNF169 33 32
  • 88.25 (n)
 OneToOne
dog
(Canis familiaris)
 Mammalia RNF169 33 32
  • 88.04 (n)
 OneToOne
rat
(Rattus norvegicus)
 Mammalia Rnf169 32
  • 83.05 (n)
mouse
(Mus musculus)
 Mammalia Rnf169 17 33 32
  • 82.42 (n)
platypus
(Ornithorhynchus anatinus)
 Mammalia RNF169 33
  • 74 (a)
 OneToOne
oppossum
(Monodelphis domestica)
 Mammalia RNF169 33
  • 59 (a)
 OneToOne
chicken
(Gallus gallus)
 Aves RNF169 33 32
  • 67.24 (n)
 OneToOne
lizard
(Anolis carolinensis)
 Reptilia RNF169 33
  • 50 (a)
 OneToOne
tropical clawed frog
(Silurana tropicalis)
 Amphibia LOC100493580 32
  • 57.47 (n)
zebrafish
(Danio rerio)
 Actinopterygii rnf169 33 32
  • 56.84 (n)
 OneToOne
Species where no ortholog for RNF169 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for RNF169 Gene

ENSEMBL:
Gene Tree for RNF169 (if available)
TreeFam:
Gene Tree for RNF169 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for RNF169: view image

Paralogs for RNF169 Gene

Paralogs for RNF169 Gene

genes like me logo Genes that share paralogs with RNF169: view

Variants for RNF169 Gene

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  1. SNP Genotyping and Copy Number Assay

Sequence variations from dbSNP and Humsavar for RNF169 Gene

SNP ID Clin Chr 11 pos Variation AA Info Type
rs1000006257 -- 74,783,961(+) T/C intron_variant
rs1000015915 -- 74,816,958(+) C/G intron_variant
rs1000020455 -- 74,797,228(+) G/A/T intron_variant
rs1000021411 -- 74,749,498(+) G/C/T intron_variant
rs1000072903 -- 74,797,519(+) A/G intron_variant

Structural Variations from Database of Genomic Variants (DGV) for RNF169 Gene

Variant ID Type Subtype PubMed ID
dgv209e214 CNV gain 21293372
dgv5e197 CNV deletion 19546169
dgv676n106 CNV deletion 24896259
esv2305041 CNV deletion 18987734
esv2484083 CNV deletion 19546169
esv2669092 CNV deletion 23128226
esv2744779 CNV deletion 23290073
esv2759837 CNV gain 17122850
esv34979 CNV gain 17911159
esv3548008 CNV deletion 23714750
esv3626846 CNV gain 21293372
nsv1122644 CNV deletion 24896259
nsv1124643 CNV duplication 24896259
nsv1127209 CNV deletion 24896259
nsv38718 CNV deletion 16902084
nsv825994 CNV gain 20364138
nsv8839 CNV gain 18304495
nsv957195 CNV deletion 24416366

Variation tolerance for RNF169 Gene

Residual Variation Intolerance Score: 22.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.76; 57.88% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for RNF169 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
RNF169

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for RNF169 Gene

Disorders for RNF169 Gene

Additional Disease Information for RNF169

ATLAS of Genetics and Cytogenetics in Oncology and Haematology

No disorders were found for RNF169 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for RNF169 Gene

Publications for RNF169 Gene

  1. Characterization of size-fractionated cDNA libraries generated by the in vitro recombination-assisted method. (PMID: 12056414) Ohara O … Koseki H (DNA research : an international journal for rapid publication of reports on genes and genomes 2002) 2 3 4 56
  2. Tandem protein interaction modules organize the ubiquitin-dependent response to DNA double-strand breaks. (PMID: 22742833) Panier S … Durocher D (Molecular cell 2012) 3 4 56
  3. Human RNF169 is a negative regulator of the ubiquitin-dependent response to DNA double-strand breaks. (PMID: 22492721) Poulsen M … Mailand N (The Journal of cell biology 2012) 3 4 56
  4. Ring finger protein RNF169 antagonizes the ubiquitin-dependent signaling cascade at sites of DNA damage. (PMID: 22733822) Chen J … Huen MS (The Journal of biological chemistry 2012) 3 4 56
  5. Quantitative mapping of RNA-mediated nuclear estrogen receptor β interactome in human breast cancer cells. (PMID: 29509190) Giurato G … Tarallo R (Scientific data 2018) 3 56

ExternalLinks

View latest publications for RNF169 gene in Mastermind

Products for RNF169 Gene

  • Biorbyt antibodies for RNF169

Sources for RNF169 Gene