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Aliases for CBX4 Gene

Aliases for CBX4 Gene

  • Chromobox 4 2 3 5
  • Chromobox Protein Homolog 4 3 4
  • NS5ATP1-Binding Protein 16 2 3
  • Polycomb 2 Homolog 3 4
  • PC2 3 4
  • Chromobox Homolog 4 (Pc Class Homolog, Drosophila) 3
  • Chromobox Homolog 4 (Drosophila Pc Class) 2
  • Pc Class 2 Homolog (Drosophila) 2
  • Chromobox-Like Protein 4 3
  • Chromobox Homolog 4 2
  • Pc Class 2 Homolog 3
  • EC 6.3.2.- 4
  • NBP16 3
  • HPc2 4

External Ids for CBX4 Gene

Previous GeneCards Identifiers for CBX4 Gene

  • GC17M077736
  • GC17M081095
  • GC17M078371
  • GC17M078507
  • GC17M075422
  • GC17M077806
  • GC17M073247

Summaries for CBX4 Gene

GeneCards Summary for CBX4 Gene

CBX4 (Chromobox 4) is a Protein Coding gene. Among its related pathways are HIF Repressor Pathways and Cellular Senescence. GO annotations related to this gene include chromatin binding and ligase activity. An important paralog of this gene is CBX2.

UniProtKB/Swiss-Prot for CBX4 Gene

  • E3 SUMO-protein ligase which facilitates SUMO1 conjugation by UBE2I. Involved in the sumoylation of HNRNPK, a p53/TP53 transcriptional coactivator, hence indirectly regulates p53/TP53 transcriptional activation resulting in p21/CDKN1A expression. Monosumoylates ZNF131.

  • Component of a Polycomb group (PcG) multiprotein PRC1-like complex, a complex class required to maintain the transcriptionally repressive state of many genes, including Hox genes, throughout development. PcG PRC1 complex acts via chromatin remodeling and modification of histones; it mediates monoubiquitination of histone H2A Lys-119, rendering chromatin heritably changed in its expressibility.

No data available for Entrez Gene Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CBX4 Gene

Genomics for CBX4 Gene

Regulatory Elements for CBX4 Gene

Enhancers for CBX4 Gene
GeneHancer Identifier Score Enhancer Sources TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Other Gene Targets for Enhancer

Enhancers around CBX4 on UCSC Golden Path with GeneCards custom track

Promoters for CBX4 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around CBX4 on UCSC Golden Path with GeneCards custom track

Genomic Location for CBX4 Gene

Chromosome:
17
Start:
79,833,156 bp from pter
End:
79,839,429 bp from pter
Size:
6,274 bases
Orientation:
Minus strand

Genomic View for CBX4 Gene

Genes around CBX4 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CBX4 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CBX4 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CBX4 Gene

Proteins for CBX4 Gene

  • Protein details for CBX4 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O00257-CBX4_HUMAN
    Recommended name:
    E3 SUMO-protein ligase CBX4
    Protein Accession:
    O00257
    Secondary Accessions:
    • B1PJR7
    • Q6TPI8
    • Q96C04

    Protein attributes for CBX4 Gene

    Size:
    560 amino acids
    Molecular mass:
    61368 Da
    Quaternary structure:
    • Interacts with histone H3-K9Me3. Interacts with CHTOP (By similarity). Component of a PRC1-like complex. Self-associates. Interacts with SUV39H1 and HIPK2. Interacts with CSNK2B.
    Miscellaneous:
    • The human orthologs of the Drosophila Polycomb group protein Pc are CBX2, CBX4, CBX6, CBX7 and CBX8. These show distinct nuclear localizations, contribute differently to transcriptional repression, and appear to be part of distinct PRC1-like protein complexes. The hPRC-H complex purified in PubMed:12167701 probably presents a mixture of different complexes containing different Polycomb group proteins.
    SequenceCaution:
    • Sequence=AAH14967.1; Type=Miscellaneous discrepancy; Note=Aberrant splicing.; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for CBX4 Gene

    Alternative splice isoforms for CBX4 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for CBX4 Gene

Proteomics data for CBX4 Gene at MOPED

Post-translational modifications for CBX4 Gene

  • Phosphorylated on Thr-497 by HIPK2 upon DNA damage. This phosphorylation stimulates E3 SUMO-protein ligase activity and promotes sumoylation on Lys-494, as well as sumoylation of other target proteins, such as HNRNPK.
  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for CBX4 Gene

ENSEMBL proteins:
REFSEQ proteins:

Antibody Products

No data available for DME Specific Peptides for CBX4 Gene

Domains & Families for CBX4 Gene

Gene Families for CBX4 Gene

Protein Domains for CBX4 Gene

Suggested Antigen Peptide Sequences for CBX4 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

O00257

UniProtKB/Swiss-Prot:

CBX4_HUMAN :
  • The polyhistidine repeat may act as a targeting signal to nuclear speckles.
Domain:
  • The polyhistidine repeat may act as a targeting signal to nuclear speckles.
  • Contains 1 chromo domain.
genes like me logo Genes that share domains with CBX4: view

Function for CBX4 Gene

Molecular function for CBX4 Gene

UniProtKB/Swiss-Prot Function:
E3 SUMO-protein ligase which facilitates SUMO1 conjugation by UBE2I. Involved in the sumoylation of HNRNPK, a p53/TP53 transcriptional coactivator, hence indirectly regulates p53/TP53 transcriptional activation resulting in p21/CDKN1A expression. Monosumoylates ZNF131.
UniProtKB/Swiss-Prot Function:
Component of a Polycomb group (PcG) multiprotein PRC1-like complex, a complex class required to maintain the transcriptionally repressive state of many genes, including Hox genes, throughout development. PcG PRC1 complex acts via chromatin remodeling and modification of histones; it mediates monoubiquitination of histone H2A Lys-119, rendering chromatin heritably changed in its expressibility.

Enzyme Numbers (IUBMB) for CBX4 Gene

Gene Ontology (GO) - Molecular Function for CBX4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0016874 ligase activity IEA --
GO:0044212 transcription regulatory region DNA binding IEA --
GO:0051219 phosphoprotein binding IEA --
genes like me logo Genes that share ontologies with CBX4: view
genes like me logo Genes that share phenotypes with CBX4: view

Animal Models for CBX4 Gene

MGI Knock Outs for CBX4:

Animal Model Products

miRNA for CBX4 Gene

miRTarBase miRNAs that target CBX4

No data available for Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for CBX4 Gene

Localization for CBX4 Gene

Subcellular locations from UniProtKB/Swiss-Prot for CBX4 Gene

Nucleus. Nucleus speckle. Note=Localization to nuclear polycomb bodies is required for ZNF131 sumoylation (PubMed:22467880).

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for CBX4 Gene COMPARTMENTS Subcellular localization image for CBX4 gene
Compartment Confidence
nucleus 5
cytosol 2
golgi apparatus 2

Gene Ontology (GO) - Cellular Components for CBX4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA,IDA 9367786
GO:0005654 nucleoplasm TAS --
genes like me logo Genes that share ontologies with CBX4: view

Pathways & Interactions for CBX4 Gene

genes like me logo Genes that share pathways with CBX4: view

Pathways by source for CBX4 Gene

UniProtKB/Swiss-Prot O00257-CBX4_HUMAN

  • Pathway: Protein modification; protein sumoylation.

Gene Ontology (GO) - Biological Process for CBX4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0016568 chromatin modification IEA --
GO:0043687 post-translational protein modification TAS --
genes like me logo Genes that share ontologies with CBX4: view

No data available for SIGNOR curated interactions for CBX4 Gene

Drugs & Compounds for CBX4 Gene

(1) Drugs for CBX4 Gene - From: Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
genes like me logo Genes that share compounds with CBX4: view

Transcripts for CBX4 Gene

Unigene Clusters for CBX4 Gene

Chromobox homolog 4:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for CBX4 Gene

ExUns: 1 ^ 2 ^ 3a · 3b · 3c ^ 4a · 4b ^ 5a · 5b · 5c · 5d
SP1: - -
SP2: - - -
SP3:
SP4: -

Relevant External Links for CBX4 Gene

GeneLoc Exon Structure for
CBX4
ECgene alternative splicing isoforms for
CBX4

Expression for CBX4 Gene

mRNA expression in normal human tissues for CBX4 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for CBX4 Gene

This gene is overexpressed in Platelet (65.8).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MOPED, and MaxQB for CBX4 Gene



SOURCE GeneReport for Unigene cluster for CBX4 Gene Hs.405046

mRNA Expression by UniProt/SwissProt for CBX4 Gene

O00257-CBX4_HUMAN
Tissue specificity: Ubiquitous.
genes like me logo Genes that share expression patterns with CBX4: view

Protein tissue co-expression partners for CBX4 Gene

Primer Products

In Situ Assay Products

No data available for mRNA differential expression in normal tissues for CBX4 Gene

Orthologs for CBX4 Gene

This gene was present in the common ancestor of animals.

Orthologs for CBX4 Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
Mammalia CBX4 35
  • 91.15 (n)
  • 91.72 (a)
CBX4 36
  • 77 (a)
OneToOne
dog
(Canis familiaris)
Mammalia CBX4 35
  • 89.77 (n)
  • 92.04 (a)
CBX4 36
  • 92 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Cbx4 35
  • 85.85 (n)
  • 90.53 (a)
Cbx4 16
Cbx4 36
  • 91 (a)
OneToOne
chimpanzee
(Pan troglodytes)
Mammalia CBX4 35
  • 99.76 (n)
  • 100 (a)
CBX4 36
  • 100 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Cbx4 35
  • 88.77 (n)
  • 91.58 (a)
oppossum
(Monodelphis domestica)
Mammalia CBX4 36
  • 75 (a)
OneToOne
chicken
(Gallus gallus)
Aves CBX4 35
  • 76.96 (n)
  • 73.82 (a)
CBX4 36
  • 63 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia CBX4 36
  • 57 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia cbx4 35
  • 58.75 (n)
  • 59.71 (a)
Str.19494 35
African clawed frog
(Xenopus laevis)
Amphibia cbx4-A-prov 35
zebrafish
(Danio rerio)
Actinopterygii cbx4 35
  • 57 (n)
  • 50.11 (a)
Dr.20970 35
cbx4 36
  • 44 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta Pc 36
  • 21 (a)
OneToMany
Species with no ortholog for CBX4:
  • 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)
  • 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)
  • worm (Caenorhabditis elegans)

Evolution for CBX4 Gene

ENSEMBL:
Gene Tree for CBX4 (if available)
TreeFam:
Gene Tree for CBX4 (if available)

Paralogs for CBX4 Gene

Paralogs for CBX4 Gene

(6) SIMAP similar genes for CBX4 Gene using alignment to 3 proteins:

genes like me logo Genes that share paralogs with CBX4: view

Variants for CBX4 Gene

Sequence variations from dbSNP and Humsavar for CBX4 Gene

SNP ID Clin Chr 17 pos Sequence Context AA Info Type
rs1285243 -- 79,840,307(-) CCCCA(A/G)GCGGA upstream-variant-2KB
rs1285248 -- 79,836,645(+) ACCCT(A/G)GCTAC intron-variant, utr-variant-5-prime
rs1285249 -- 79,836,344(+) CGCTG(C/G)GCTCC intron-variant, utr-variant-5-prime
rs1285250 -- 79,836,199(+) AGGGC(C/T)CTTTC intron-variant, utr-variant-5-prime
rs1285251 -- 79,836,024(-) TGGGC(A/G)GGAGG intron-variant, utr-variant-5-prime

Structural Variations from Database of Genomic Variants (DGV) for CBX4 Gene

Variant ID Type Subtype PubMed ID
nsv483050 CNV Loss 15286789
dgv3292n71 CNV Loss 21882294
nsv828116 CNV Loss 20364138
dgv538n67 CNV Gain 20364138
nsv469865 CNV Loss 16826518
dgv3294n71 CNV Loss 21882294
nsv908960 CNV Loss 21882294
nsv908961 CNV Loss 21882294
nsv828120 CNV Gain 20364138

Variation tolerance for CBX4 Gene

Residual Variation Intolerance Score: 22.9% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 6.20; 76.03% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for CBX4 Gene

HapMap Linkage Disequilibrium report
CBX4
Human Gene Mutation Database (HGMD)
CBX4

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CBX4 Gene

Disorders for CBX4 Gene

Relevant External Links for CBX4

Genetic Association Database (GAD)
CBX4
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
CBX4

No disorders were found for CBX4 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for CBX4 Gene

Publications for CBX4 Gene

  1. Interference with the expression of a novel human polycomb protein, hPc2, results in cellular transformation and apoptosis. (PMID: 9315667) Satijn D.P.E. … Otte A.P. (Mol. Cell. Biol. 1997) 2 3 4 67
  2. Inhibition of CtBP1 activity by Akt-mediated phosphorylation. (PMID: 20361981) Merrill J.C. … Wotton D. (J. Mol. Biol. 2010) 3 23
  3. Overlapping roles of the methylated DNA-binding protein MBD1 and polycomb group proteins in transcriptional repression of HOXA genes and heterochromatin foci formation. (PMID: 17428788) Sakamoto Y. … Nakao M. (J. Biol. Chem. 2007) 3 23
  4. Polycomb protein Cbx4 promotes SUMO modification of de novo DNA methyltransferase Dnmt3a. (PMID: 17439403) Li B. … Xu G. (Biochem. J. 2007) 3 23
  5. Multiple activities contribute to Pc2 E3 function. (PMID: 15592428) Kagey M.H. … Wotton D. (EMBO J. 2005) 3 23

Products for CBX4 Gene

Sources for CBX4 Gene

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