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Aliases for RNF5 Gene

Aliases for RNF5 Gene

  • Ring Finger Protein 5 2 3
  • Ring Finger Protein 5, E3 Ubiquitin Protein Ligase 2 3
  • RING-Type E3 Ubiquitin Transferase RNF5 3 4
  • RING Finger Protein 5 4 5
  • Ram1 Homolog 3 4
  • Protein G16 3 4
  • RMA1 3 4
  • E3 Ubiquitin-Protein Ligase RNF5 3
  • EC 2.3.2.27 4
  • HsRma1 4
  • RING5 3
  • NG2 4
  • G16 4

External Ids for RNF5 Gene

Previous GeneCards Identifiers for RNF5 Gene

  • GC06P032173
  • GC06P031916
  • GC06P032217
  • GC06P032254

Summaries for RNF5 Gene

Entrez Gene Summary for RNF5 Gene

  • The protein encoded by this gene contains a RING finger, which is a motif known to be involved in protein-protein interactions. This protein is a membrane-bound ubiquitin ligase. It can regulate cell motility by targeting paxillin ubiquitination and altering the distribution and localization of paxillin in cytoplasm and cell focal adhesions. [provided by RefSeq, Jul 2008]

GeneCards Summary for RNF5 Gene

RNF5 (Ring Finger Protein 5) is a Protein Coding gene. Diseases associated with RNF5 include Cystic Fibrosis and Inclusion Body Myositis. Among its related pathways are Metabolism of proteins and Transport to the Golgi and subsequent modification. Gene Ontology (GO) annotations related to this gene include ligase activity and ubiquitin-protein transferase activity.

UniProtKB/Swiss-Prot for RNF5 Gene

  • Has E2-dependent E3 ubiquitin-protein ligase activity. May function together with E2 ubiquitin-conjugating enzymes UBE2D1/UBCH5A and UBE2D2/UBC4. Mediates ubiquitination of PXN/paxillin and Salmonella type III secreted protein sopA. May be involved in regulation of cell motility and localization of PXN/paxillin. Mediates the Lys-63-linked polyubiquitination of JKAMP thereby regulating JKAMP function by decreasing its association with components of the proteasome and ERAD; the ubiquitination appears to involve E2 ubiquitin-conjugating enzyme UBE2N. Mediates the Lys-48-linked polyubiquitination of TMEM173 at Lys-150 leading to its proteasomal degradation; the ubiquitination occurs in mitochondria after viral transfection and regulates antiviral responses.

Gene Wiki entry for RNF5 Gene

Additional gene information for RNF5 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for RNF5 Gene

Genomics for RNF5 Gene

GeneHancer (GH) Regulatory Elements for RNF5 Gene

Promoters and enhancers for RNF5 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH06I032175 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 572.9 -0.6 -594 5.1 DMAP1 YBX1 YY1 E2F8 ZNF143 ZNF548 SP3 NFYC GLIS1 NR2C1 RNF5 AGPAT1 BRD2 LSM2 LY6G5B DDX39B ATF6B GPANK1 VARS BAG6
GH06I032185 Promoter/Enhancer 2.5 EPDnew Ensembl ENCODE dbSUPER 20 +12.9 12926 13.4 CLOCK MLX YBX1 DMAP1 IRF4 YY1 SLC30A9 ZNF213 E2F8 ZNF143 PBX2 GPSM3 ATF6B DDX39B BRD2 LSM2 LY6G5B HLA-DRB1 MSH5 MICA
GH06I032150 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 21.8 -24.9 -24937 5.1 FEZF1 DMAP1 E2F8 ZNF143 SP3 NFYC MEF2D GLIS1 NBN NR2C1 PPT2 PPT2-EGFL8 PRRT1 LOC100507547 ATF6B MSH5 BRD2 HLA-DRB1 DDX39B SKIV2L
GH06I032165 Enhancer 1 ENCODE 22.1 -10.4 -10353 4.2 HDGF PKNOX1 SMAD1 ARNT SIN3A POLR2B ZNF766 CBX5 ZNF143 ZNF592 ATF6B RNF5 AGPAT1 SKIV2L DXO MICB HLA-DQA2 HLA-C EGFL8 MIR6721
GH06I032172 Enhancer 0.9 Ensembl ENCODE dbSUPER 22 -5.2 -5150 0.7 HDAC1 ZFHX2 HDAC2 KDM1A ZBTB12 RNF5 ATF6B AGPAT1 MIR6721
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around RNF5 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the RNF5 gene promoter:

Genomic Locations for RNF5 Gene

Genomic Locations for RNF5 Gene
chr6:32,178,354-32,180,793
(GRCh38/hg38)
Size:
2,440 bases
Orientation:
Plus strand
chr6:32,146,131-32,151,930
(GRCh37/hg19)

Genomic View for RNF5 Gene

Genes around RNF5 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
RNF5 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for RNF5 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

Proteins for RNF5 Gene

  • Protein details for RNF5 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q99942-RNF5_HUMAN
    Recommended name:
    E3 ubiquitin-protein ligase RNF5
    Protein Accession:
    Q99942
    Secondary Accessions:
    • A2BFI6
    • B2R4K3
    • Q0VDB7
    • Q9UMQ2

    Protein attributes for RNF5 Gene

    Size:
    180 amino acids
    Molecular mass:
    19881 Da
    Quaternary structure:
    • Interacts with PXN. Interacts with Salmonella typhimurium sopA. Interacts with JKAMP. Interacts with TMEM173; the interaction of endogenous proteins is dependent on viral infection.

neXtProt entry for RNF5 Gene

Post-translational modifications for RNF5 Gene

  • Ubiquitination at isoforms=68, isoforms=75, isoforms=86, and isoforms=93
  • Modification sites at PhosphoSitePlus

Other Protein References for RNF5 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for RNF5 Gene

Domains & Families for RNF5 Gene

Gene Families for RNF5 Gene

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

Protein Domains for RNF5 Gene

Suggested Antigen Peptide Sequences for RNF5 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with RNF5: view

No data available for UniProtKB/Swiss-Prot for RNF5 Gene

Function for RNF5 Gene

Molecular function for RNF5 Gene

GENATLAS Biochemistry:
RING zinc-finger protein 5,widely expressed,homolog of a putative zinc finger gene from C elegans,same as D6S115E
UniProtKB/Swiss-Prot CatalyticActivity:
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.
UniProtKB/Swiss-Prot Function:
Has E2-dependent E3 ubiquitin-protein ligase activity. May function together with E2 ubiquitin-conjugating enzymes UBE2D1/UBCH5A and UBE2D2/UBC4. Mediates ubiquitination of PXN/paxillin and Salmonella type III secreted protein sopA. May be involved in regulation of cell motility and localization of PXN/paxillin. Mediates the Lys-63-linked polyubiquitination of JKAMP thereby regulating JKAMP function by decreasing its association with components of the proteasome and ERAD; the ubiquitination appears to involve E2 ubiquitin-conjugating enzyme UBE2N. Mediates the Lys-48-linked polyubiquitination of TMEM173 at Lys-150 leading to its proteasomal degradation; the ubiquitination occurs in mitochondria after viral transfection and regulates antiviral responses.

Enzyme Numbers (IUBMB) for RNF5 Gene

Phenotypes From GWAS Catalog for RNF5 Gene

Gene Ontology (GO) - Molecular Function for RNF5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004842 ubiquitin-protein transferase activity IDA 19269966
GO:0005515 protein binding IPI 12861019
GO:0008270 zinc ion binding TAS 9533025
GO:0016740 transferase activity IEA --
GO:0042802 identical protein binding IPI 25416956
genes like me logo Genes that share ontologies with RNF5: view
genes like me logo Genes that share phenotypes with RNF5: view

Animal Models for RNF5 Gene

MGI Knock Outs for RNF5:

Animal Model Products

  • Taconic Biosciences Mouse Models for RNF5

CRISPR Products

miRNA for RNF5 Gene

miRTarBase miRNAs that target RNF5

Inhibitory RNA Products

Clone Products

No data available for Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for RNF5 Gene

Localization for RNF5 Gene

Subcellular locations from UniProtKB/Swiss-Prot for RNF5 Gene

Membrane; Multi-pass membrane protein. Mitochondrion membrane. Endoplasmic reticulum membrane. Note=Predominantly located in the plasma membrane, with some localization occurring within cytoplasmic organelles.

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 RNF5 gene
Compartment Confidence
mitochondrion 5
endoplasmic reticulum 5
nucleus 4
peroxisome 2
plasma membrane 1
cytosol 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Endoplasmic reticulum (3)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for RNF5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005739 mitochondrion IEA --
GO:0005783 endoplasmic reticulum IEA,IDA --
GO:0005789 endoplasmic reticulum membrane TAS --
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with RNF5: view

Pathways & Interactions for RNF5 Gene

genes like me logo Genes that share pathways with RNF5: view

UniProtKB/Swiss-Prot Q99942-RNF5_HUMAN

  • Pathway: Protein modification; protein ubiquitination.

Gene Ontology (GO) - Biological Process for RNF5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0009617 response to bacterium IEA --
GO:0010507 negative regulation of autophagy IEA --
GO:0016567 protein ubiquitination IEA --
GO:0030433 ubiquitin-dependent ERAD pathway IEA --
GO:0031648 protein destabilization IEA --
genes like me logo Genes that share ontologies with RNF5: view

No data available for SIGNOR curated interactions for RNF5 Gene

Drugs & Compounds for RNF5 Gene

(3) Drugs for RNF5 Gene - From: HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Phosphoric acid Approved Pharma 0
Adenosine monophosphate Approved, Investigational Nutra 0
ATP Investigational Nutra Agonist 0

(1) Additional Compounds for RNF5 Gene - From: HMDB

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
pyrophosphate
  • (4-)Diphosphoric acid ion
  • (P2O74-)Diphosphate
  • Diphosphate
  • Diphosphoric acid
  • PPi
14000-31-8
genes like me logo Genes that share compounds with RNF5: view

Transcripts for RNF5 Gene

mRNA/cDNA for RNF5 Gene

Unigene Clusters for RNF5 Gene

Ring finger protein 5, E3 ubiquitin protein ligase:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for RNF5 Gene

No ASD Table

Relevant External Links for RNF5 Gene

GeneLoc Exon Structure for
RNF5
ECgene alternative splicing isoforms for
RNF5

Expression for RNF5 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for RNF5 Gene

Protein differential expression in normal tissues from HIPED for RNF5 Gene

This gene is overexpressed in Breast (20.4), Adrenal (14.5), Bone (8.9), and Frontal cortex (8.3).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for RNF5 Gene



Protein tissue co-expression partners for RNF5 Gene

NURSA nuclear receptor signaling pathways regulating expression of RNF5 Gene:

RNF5

SOURCE GeneReport for Unigene cluster for RNF5 Gene:

Hs.731774

mRNA Expression by UniProt/SwissProt for RNF5 Gene:

Q99942-RNF5_HUMAN
Tissue specificity: Widely expressed.

Evidence on tissue expression from TISSUES for RNF5 Gene

  • Liver(4.4)
  • Nervous system(4.4)
  • Lung(4.2)
  • Muscle(2.5)
  • Kidney(2)
genes like me logo Genes that share expression patterns with RNF5: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues and Phenotype-based relationships between genes and organs from Gene ORGANizer for RNF5 Gene

Orthologs for RNF5 Gene

This gene was present in the common ancestor of animals.

Orthologs for RNF5 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia RNF5 33 34
  • 99.63 (n)
dog
(Canis familiaris)
Mammalia RNF5 33 34
  • 95.19 (n)
cow
(Bos Taurus)
Mammalia RNF5 33 34
  • 94.81 (n)
mouse
(Mus musculus)
Mammalia Rnf5 33 16 34
  • 91.67 (n)
rat
(Rattus norvegicus)
Mammalia Rnf5 33
  • 90.45 (n)
oppossum
(Monodelphis domestica)
Mammalia RNF5 34
  • 88 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia RNF5 34
  • 64 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia rnf5 33
  • 73.71 (n)
African clawed frog
(Xenopus laevis)
Amphibia Xl.15397 33
zebrafish
(Danio rerio)
Actinopterygii LOC100537822 33
  • 68.21 (n)
RNF5 34
  • 66 (a)
OneToOne
Dr.13010 33
fruit fly
(Drosophila melanogaster)
Insecta CG8974 35 34
  • 60 (a)
CG32847 34
  • 38 (a)
ManyToMany
CG32581 34
  • 33 (a)
ManyToMany
worm
(Caenorhabditis elegans)
Secernentea rnf-5 35 34
  • 48 (a)
Species where no ortholog for RNF5 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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)
  • chicken (Gallus gallus)
  • 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)
  • 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)
  • platypus (Ornithorhynchus anatinus)
  • 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)

Evolution for RNF5 Gene

ENSEMBL:
Gene Tree for RNF5 (if available)
TreeFam:
Gene Tree for RNF5 (if available)

Paralogs for RNF5 Gene

(2) SIMAP similar genes for RNF5 Gene using alignment to 2 proteins:

Pseudogenes.org Pseudogenes for RNF5 Gene

genes like me logo Genes that share paralogs with RNF5: view

No data available for Paralogs for RNF5 Gene

Variants for RNF5 Gene

Sequence variations from dbSNP and Humsavar for RNF5 Gene

SNP ID Clin Chr 06 pos Variation AA Info Type
rs1001654208 -- 32,177,850(+) G/A upstream_transcript_variant
rs1001880223 -- 32,177,658(+) T/G upstream_transcript_variant
rs1003326616 -- 32,179,667(+) C/T coding_sequence_variant, missense_variant
rs1004356243 -- 32,179,381(+) CTAACTAA/CTAA intron_variant
rs1006818418 -- 32,176,931(+) A/T upstream_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for RNF5 Gene

Variant ID Type Subtype PubMed ID
dgv10404n54 CNV loss 21841781
dgv10463n54 CNV loss 21841781
dgv10472n54 CNV loss 21841781
esv24778 CNV loss 19812545
esv2759415 CNV gain+loss 17122850
nsv1073969 CNV deletion 25765185
nsv1112900 CNV deletion 24896259
nsv1126749 CNV deletion 24896259
nsv602104 CNV loss 21841781
nsv830629 CNV loss 17160897

Variation tolerance for RNF5 Gene

Residual Variation Intolerance Score: 34.5% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.06; 21.57% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for RNF5 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
RNF5

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for RNF5 Gene

Disorders for RNF5 Gene

MalaCards: The human disease database

(2) MalaCards diseases for RNF5 Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
cystic fibrosis
  • cf
inclusion body myositis
  • ibm
- elite association - COSMIC cancer census association via MalaCards
Search RNF5 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for RNF5

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
genes like me logo Genes that share disorders with RNF5: view

No data available for UniProtKB/Swiss-Prot and Genatlas for RNF5 Gene

Publications for RNF5 Gene

  1. RNF5, a RING finger protein that regulates cell motility by targeting paxillin ubiquitination and altered localization. (PMID: 12861019) Didier C … Ronai Z (Molecular and cellular biology 2003) 3 4 22 58
  2. Cloning, expression and mapping of a novel RING-finger gene (RNF5), a human homologue of a putative zinc-finger gene from Caenorhabditis elegans. (PMID: 9533025) Kyushiki H … Horie M (Cytogenetics and cell genetics 1997) 2 3 4 58
  3. High-density SNP screening of the major histocompatibility complex in systemic lupus erythematosus demonstrates strong evidence for independent susceptibility regions. (PMID: 19851445) Barcellos LF … Criswell LA (PLoS genetics 2009) 3 44 58
  4. Regulation of endoplasmic reticulum-associated degradation by RNF5-dependent ubiquitination of JNK-associated membrane protein (JAMP). (PMID: 19269966) Tcherpakov M … Ronai ZA (The Journal of biological chemistry 2009) 3 4 58
  5. The ubiquitin ligase RNF5 regulates antiviral responses by mediating degradation of the adaptor protein MITA. (PMID: 19285439) Zhong B … Shu HB (Immunity 2009) 3 4 58

Products for RNF5 Gene

Sources for RNF5 Gene

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