Free for academic non-profit institutions. Other users need a Commercial license

Aliases for CBX3 Gene

Aliases for CBX3 Gene

  • Chromobox 3 2 3 5
  • Heterochromatin Protein 1 Homolog Gamma 3 4
  • Modifier 2 Protein 3 4
  • HECH 3 4
  • Chromobox Homolog 3 (HP1 Gamma Homolog, Drosophila) 3
  • Chromobox Homolog 3 (Drosophila HP1 Gamma) 2
  • Heterochromatin Protein HP1 Gamma 3
  • HP1 Gamma Homolog (Drosophila) 2
  • Heterochromatin-Like Protein 1 3
  • Chromobox Homolog 3 2
  • HP1 Gamma Homolog 3
  • HP1Hs-Gamma 3
  • HP1-GAMMA 3
  • HP1 Gamma 4

External Ids for CBX3 Gene

Previous GeneCards Identifiers for CBX3 Gene

  • GC07P025883
  • GC07P025983
  • GC07P026014
  • GC07P026207
  • GC07P026240

Summaries for CBX3 Gene

Entrez Gene Summary for CBX3 Gene

  • At the nuclear envelope, the nuclear lamina and heterochromatin are adjacent to the inner nuclear membrane. The protein encoded by this gene binds DNA and is a component of heterochromatin. This protein also can bind lamin B receptor, an integral membrane protein found in the inner nuclear membrane. The dual binding functions of the encoded protein may explain the association of heterochromatin with the inner nuclear membrane. This protein binds histone H3 tails methylated at Lys-9 sites. This protein is also recruited to sites of ultraviolet-induced DNA damage and double-strand breaks. Two transcript variants encoding the same protein but differing in the 5' UTR, have been found for this gene.[provided by RefSeq, Mar 2011]

GeneCards Summary for CBX3 Gene

CBX3 (Chromobox 3) is a Protein Coding gene. Among its related pathways are Activated PKN1 stimulates transcription of AR (androgen receptor) regulated genes KLK2 and KLK3 and Gene Expression. GO annotations related to this gene include identical protein binding and protein domain specific binding. An important paralog of this gene is CBX1.

UniProtKB/Swiss-Prot for CBX3 Gene

  • Seems to be involved in transcriptional silencing in heterochromatin-like complexes. Recognizes and binds histone H3 tails methylated at Lys-9, leading to epigenetic repression. May contribute to the association of the heterochromatin with the inner nuclear membrane through its interaction with lamin B receptor (LBR). Involved in the formation of functional kinetochore through interaction with MIS12 complex proteins. Contributes to the conversion of local chromatin to a heterochromatin-like repressive state through H3 Lys-9 trimethylation, mediates the recruitment of the mehtyltransferases SUV39H1 and/or SUV39H2 by the PER complex to the E-box elements of the circadian target genes such as PER2 itself or PER1.

Gene Wiki entry for CBX3 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CBX3 Gene

Genomics for CBX3 Gene

Regulatory Elements for CBX3 Gene

Enhancers for CBX3 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 CBX3 on UCSC Golden Path with GeneCards custom track

Promoters for CBX3 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around CBX3 on UCSC Golden Path with GeneCards custom track

Transcription factor binding sites by QIAGEN in the CBX3 gene promoter:

Genomic Location for CBX3 Gene

Chromosome:
7
Start:
26,201,162 bp from pter
End:
26,213,607 bp from pter
Size:
12,446 bases
Orientation:
Plus strand

Genomic View for CBX3 Gene

Genes around CBX3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CBX3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CBX3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CBX3 Gene

Proteins for CBX3 Gene

  • Protein details for CBX3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q13185-CBX3_HUMAN
    Recommended name:
    Chromobox protein homolog 3
    Protein Accession:
    Q13185
    Secondary Accessions:
    • Q96CD7
    • Q99409
    • Q9BVS3
    • Q9P0Z6

    Protein attributes for CBX3 Gene

    Size:
    183 amino acids
    Molecular mass:
    20811 Da
    Quaternary structure:
    • Binds directly to CHAF1A. Interacts with histone H3 methylated at Lys-9. Part of the E2F6.com-1 complex in G0 phase composed of E2F6, MGA, MAX, TFDP1, CBX3, BAT8, EUHMTASE1, RING1, RNF2, MBLR, L3MBTL2 and YAF2. Interacts with LBR, INCENP, TRIM28/TIF1B, KMT5B, KMT5C and SP100. Interacts with TIF1A. Interacts with MIS12 and DSN1. Can interact directly with CBX5 via the chromoshadow domain. Interacts with POGZ. Interacts with CHAMP1. Interacts with ASXL1. The large PER complex involved in the histone methylation is composed of at least PER2, CBX3, TRIM28, SUV39H1 and/or SUV39H2; CBX3 mediates the formation of the complex.

    Three dimensional structures from OCA and Proteopedia for CBX3 Gene

neXtProt entry for CBX3 Gene

Proteomics data for CBX3 Gene at MOPED

Post-translational modifications for CBX3 Gene

  • Phosphorylated by PIM1. Phosphorylated during interphase and possibly hyper-phosphorylated during mitosis.
  • Ubiquitination at Lys 34, Lys 44, Lys 50, Lys 52, Lys 143, Lys 154, and Lys 159
  • Modification sites at PhosphoSitePlus

Other Protein References for CBX3 Gene

Antibody Products

  • Cell Signaling Technology (CST) Antibodies for CBX3 (CBX3)

No data available for DME Specific Peptides for CBX3 Gene

Domains & Families for CBX3 Gene

Gene Families for CBX3 Gene

Suggested Antigen Peptide Sequences for CBX3 Gene

Graphical View of Domain Structure for InterPro Entry

Q13185

UniProtKB/Swiss-Prot:

CBX3_HUMAN :
  • Contains 2 chromo domains.
Domain:
  • Contains 2 chromo domains.
genes like me logo Genes that share domains with CBX3: view

Function for CBX3 Gene

Molecular function for CBX3 Gene

UniProtKB/Swiss-Prot Function:
Seems to be involved in transcriptional silencing in heterochromatin-like complexes. Recognizes and binds histone H3 tails methylated at Lys-9, leading to epigenetic repression. May contribute to the association of the heterochromatin with the inner nuclear membrane through its interaction with lamin B receptor (LBR). Involved in the formation of functional kinetochore through interaction with MIS12 complex proteins. Contributes to the conversion of local chromatin to a heterochromatin-like repressive state through H3 Lys-9 trimethylation, mediates the recruitment of the mehtyltransferases SUV39H1 and/or SUV39H2 by the PER complex to the E-box elements of the circadian target genes such as PER2 itself or PER1.

Gene Ontology (GO) - Molecular Function for CBX3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0019904 protein domain specific binding IPI 8663349
genes like me logo Genes that share ontologies with CBX3: view
genes like me logo Genes that share phenotypes with CBX3: view

Animal Models for CBX3 Gene

MGI Knock Outs for CBX3:

Animal Model Products

miRNA for CBX3 Gene

miRTarBase miRNAs that target CBX3

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for CBX3 Gene

Localization for CBX3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for CBX3 Gene

Nucleus. Note=Associates with euchromatin and is largely excluded from constitutive heterochromatin. May be associated with microtubules and mitotic poles during mitosis (Potential). {ECO:0000305}.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for CBX3 Gene COMPARTMENTS Subcellular localization image for CBX3 gene
Compartment Confidence
cytoskeleton 5
nucleus 5

Gene Ontology (GO) - Cellular Components for CBX3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000779 condensed chromosome, centromeric region ISS --
GO:0005635 nuclear envelope ISS --
GO:0005637 nuclear inner membrane NAS 8663349
GO:0005719 nuclear euchromatin IDA 11124534
GO:0005720 nuclear heterochromatin IDA 11124534
genes like me logo Genes that share ontologies with CBX3: view

Pathways & Interactions for CBX3 Gene

genes like me logo Genes that share pathways with CBX3: view

SIGNOR curated interactions for CBX3 Gene

Is activated by:

Gene Ontology (GO) - Biological Process for CBX3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006338 chromatin remodeling NAS 8663349
genes like me logo Genes that share ontologies with CBX3: view

Drugs & Compounds for CBX3 Gene

No Compound Related Data Available

Transcripts for CBX3 Gene

Unigene Clusters for CBX3 Gene

Chromobox homolog 3:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for CBX3 Gene

ExUns: 1 ^ 2a · 2b · 2c ^ 3 ^ 4a · 4b · 4c ^ 5a · 5b · 5c · 5d ^ 6a · 6b · 6c ^ 7a · 7b ^ 8a · 8b · 8c · 8d
SP1: - - - - - -
SP2: - - -
SP3: - - -
SP4: - - - -
SP5: - - - - -
SP6: - - - - -
SP7:
SP8: -

Relevant External Links for CBX3 Gene

GeneLoc Exon Structure for
CBX3
ECgene alternative splicing isoforms for
CBX3

Expression for CBX3 Gene

mRNA expression in normal human tissues for CBX3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for CBX3 Gene

This gene is overexpressed in Peripheral blood mononuclear cells (11.4), Fetal ovary (7.5), and Tlymphocyte (6.8).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MOPED, and MaxQB for CBX3 Gene



SOURCE GeneReport for Unigene cluster for CBX3 Gene Hs.381189

genes like me logo Genes that share expression patterns with CBX3: view

Protein tissue co-expression partners for CBX3 Gene

- Elite partner

Primer Products

No data available for mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for CBX3 Gene

Orthologs for CBX3 Gene

This gene was present in the common ancestor of animals.

Orthologs for CBX3 Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
Mammalia CBX3 35
  • 93.62 (n)
  • 100 (a)
CBX3 36
  • 94 (a)
OneToOne
dog
(Canis familiaris)
Mammalia CBX3 35
  • 91.06 (n)
  • 94.41 (a)
-- 36
  • 91 (a)
OneToMany
mouse
(Mus musculus)
Mammalia Cbx3 35
  • 90.16 (n)
  • 100 (a)
Cbx3 16
Cbx3 36
  • 100 (a)
OneToMany
Gm10068 36
  • 100 (a)
OneToMany
chimpanzee
(Pan troglodytes)
Mammalia CBX3 35
  • 100 (n)
  • 100 (a)
CBX3 36
  • 100 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Cbx3 35
  • 90.53 (n)
  • 100 (a)
oppossum
(Monodelphis domestica)
Mammalia CBX3 36
  • 99 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia CBX3 36
  • 96 (a)
OneToOne
chicken
(Gallus gallus)
Aves CBX3 35
  • 85.55 (n)
  • 96.53 (a)
CBX3 36
  • 96 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia CBX3 36
  • 93 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia cbx3 35
  • 83.82 (n)
  • 92.49 (a)
Str.7994 35
zebrafish
(Danio rerio)
Actinopterygii cbx3a 35
  • 72.09 (n)
  • 79.65 (a)
cbx3a 36
  • 77 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta HP1b 37
  • 56 (a)
HP1b 36
  • 38 (a)
ManyToMany
HP1c 36
  • 29 (a)
ManyToMany
HP1e 36
  • 30 (a)
ManyToMany
HP6 36
  • 38 (a)
ManyToMany
Su(var)205 36
  • 40 (a)
ManyToMany
worm
(Caenorhabditis elegans)
Secernentea hpl-1 36
  • 33 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea CSA.3133 36
  • 43 (a)
OneToMany
Species with no ortholog for CBX3:
  • 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)
  • 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 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 CBX3 Gene

ENSEMBL:
Gene Tree for CBX3 (if available)
TreeFam:
Gene Tree for CBX3 (if available)

Paralogs for CBX3 Gene

Paralogs for CBX3 Gene

(7) SIMAP similar genes for CBX3 Gene using alignment to 5 proteins:

genes like me logo Genes that share paralogs with CBX3: view

Variants for CBX3 Gene

Sequence variations from dbSNP and Humsavar for CBX3 Gene

SNP ID Clin Chr 07 pos Sequence Context AA Info Type
rs6949939 -- 26,205,402(+) ATTTG(A/T)AATGT intron-variant
rs6955003 -- 26,208,036(+) tgaga(C/G)ccctt intron-variant
rs12672942 -- 26,207,580(+) GTGGC(A/G)TGATC intron-variant
rs13234120 -- 26,213,708(+) AAAAA(A/G)GTAAA downstream-variant-500B
rs13244784 -- 26,208,973(+) tccct(C/T)tgtca intron-variant

Structural Variations from Database of Genomic Variants (DGV) for CBX3 Gene

Variant ID Type Subtype PubMed ID
nsv7393 OTHER Inversion 18451855
dgv7229n71 CNV Loss 21882294
dgv7230n71 CNV Loss 21882294
esv2734157 CNV Deletion 23290073
esv2390496 CNV Deletion 18987734
esv2734158 CNV Deletion 23290073
esv2734159 CNV Deletion 23290073
dgv1093n67 CNV Gain 20364138
esv23140 CNV Gain 19812545

Variation tolerance for CBX3 Gene

Residual Variation Intolerance Score: 52.4% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.23; 5.18% of all genes are more intolerant (likely to be disease-causing)

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Relevant External Links for CBX3 Gene

Disorders for CBX3 Gene

Relevant External Links for CBX3

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
CBX3

No disorders were found for CBX3 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for CBX3 Gene

Publications for CBX3 Gene

  1. Interaction between an integral protein of the nuclear envelope inner membrane and human chromodomain proteins homologous to Drosophila HP1. (PMID: 8663349) Ye Q. … Worman H.J. (J. Biol. Chem. 1996) 2 3 4 67
  2. Identifying functional neighborhoods within the cell nucleus: proximity analysis of early S-phase replicating chromatin domains to sites of transcription, RNA polymerase II, HP1gamma, matrin 3 and SAF-A. (PMID: 18618731) Malyavantham K.S. … Berezney R. (J. Cell. Biochem. 2008) 3 23
  3. L3MBTL1, a histone-methylation-dependent chromatin lock. (PMID: 17540172) Trojer P. … Reinberg D. (Cell 2007) 3 23
  4. Functional domain analysis of human HP1 isoforms in Drosophila. (PMID: 17575412) Kato M. … Yamaguchi M. (Cell Struct. Funct. 2007) 3 23
  5. Automethylation of G9a and its implication in wider substrate specificity and HP1 binding. (PMID: 17962312) Chin H.G. … Pradhan S. (Nucleic Acids Res. 2007) 3 23

Products for CBX3 Gene

Sources for CBX3 Gene

Content