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    CBX3 chromobox homolog 3 [ Homo sapiens ]

    Gene ID: 11335, updated on 11-May-2012
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    Summary

    Official Symbol
    CBX3provided by HGNC
    Official Full Name
    chromobox homolog 3provided by HGNC
    Primary source
    HGNC:1553
    See related
    Ensembl:ENSG00000122565; HPRD:05130; MIM:604477; Vega:OTTHUMG00000022911
    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
    HECH; HP1-GAMMA; HP1Hs-gamma
    Summary
    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]
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    Genomic context

    Location :
    7p15.2
    Sequence :
    Chromosome: 7; NC_000007.13 (26240831..26253227)
    See CBX3 in Epigenomics, MapViewer

    Chromosome 7 - NC_000007.13Genomic Context describing neighboring genes Neighboring gene nuclear factor (erythroid-derived 2)-like 3 Neighboring gene heterogeneous nuclear ribonucleoprotein A2/B1 Neighboring gene ribosomal protein L23 pseudogene 7 Neighboring gene sorting nexin 10

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    Genomic regions, transcripts, and products

    Go to nucleotideGraphics FASTA GenBank

    Go to reference sequence details
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    Bibliography

    Related articles in PubMed

    1. Integrative analysis of the ubiquitin proteome isolated using Tandem Ubiquitin Binding Entities (TUBEs). Lopitz-Otsoa F, et al. J Proteomics, 2012 Jun 6. PMID 22178446.
    2. Global identification of modular cullin-RING ligase substrates. Emanuele MJ, et al. Cell, 2011 Oct 14. PMID 21963094.
    3. Interactome study suggests multiple cellular functions of hepatoma-derived growth factor (HDGF). Zhao J, et al. J Proteomics, 2011 Dec 21. PMID 21907836.
    4. Systematic and quantitative assessment of the ubiquitin-modified proteome. Kim W, et al. Mol Cell, 2011 Oct 21. PMID 21906983.
    5. A proteome-wide, quantitative survey of in vivo ubiquitylation sites reveals widespread regulatory roles. Wagner SA, et al. Mol Cell Proteomics, 2011 Oct. PMID 21890473.

    See all (86) 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. HIV-1 Vpr displaces heterochromatin protein 1-alpha and heterochromatin protein 1-gamma from chromatin, resulting in premature chromatid separation.
      Title: Epigenetic displacement of HP1 from heterochromatin by HIV-1 Vpr causes premature sister chromatid separation.
    2. we show distinct cell-type- and cancer-stage-associated patterns of key heterochromatin marks: heterochromatic adaptor proteins HP1alpha and HP1gamma, compared with the gammaH2AX marker of endogenously activated DNA damage response.
      Title: Heterochromatin marks HP1γ, HP1α and H3K9me3, and DNA damage response activation in human testis development and germ cell tumours.
    3. HP1gamma localizes to telomeres in S phase, where it is required to establish/maintain cohesion
      Title: A role for heterochromatin protein 1γ at human telomeres.
    4. this study reveals that human NIPBL is a novel protein recruited to DSB sites, and the recruitment is controlled by MDC1, RNF168 and HP1gamma.
      Title: Recruitment of the cohesin loading factor NIPBL to DNA double-strand breaks depends on MDC1, RNF168 and HP1γ in human cells.
    5. The Ca2+ channel beta4c subunit interacts with heterochromatin protein 1 gama via a PXVXL binding motif.
      Title: The Ca2+ channel beta4c subunit interacts with heterochromatin protein 1 via a PXVXL binding motif.
    6. HP1 gamma binds CD44 pre-mRNA inside the variant region of CD44.
      Title: Histone H3 lysine 9 trimethylation and HP1γ favor inclusion of alternative exons.
    7. Under oxidative conditions, HP1gamma dimerized and held TIF1beta in a chromatin component and inhibited its repression ability.
      Title: Isoform-specific intermolecular disulfide bond formation of heterochromatin protein 1 (HP1).
    8. the spatial proximities among a constellation of functionally related sites that are found within euchromatic regions of the cell nucleus including: HP1gamma, RNA polymerase II, matrin 3, and SAF-A sites
      Title: 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.
    9. present an investigation of DNA methylation and histone modification marks across the HNRPA2B1-CBX3 locus in primary peripheral blood mononuclear cells (PBMCs) to characterise the chromatin structure that underlies UCOE activity
      Title: Correlation of DNA methylation with histone modifications across the HNRPA2B1-CBX3 ubiquitously-acting chromatin open element (UCOE).
    10. HP1 recruitment-release is a sequential mechanism that is precisely regulated and highly dependent on transcription.
      Title: Regulation of an inducible promoter by an HP1beta-HP1gamma switch.
    Submit: New GeneRIF Correction See all (19)
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    Phenotypes

    Review eQTL and phenotype association data in this region using PheGenI

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    Interactions

    Products Interactant Other Gene Complex Source Pubs Description
    NP_009207.2 DNMT3B    BIND  PubMed DNMT3B interacts with HP1-gamma. This interaction was modeled on a demonstrated interaction between mouse Dnmt3b1 and human HP1-gamma. 
    NP_009207.2 NP_079194.2 DSN1    BIND  PubMed c20orf172 interacts with HP1-gamma. 
    NP_009207.2 NP_076944.1 MIS12    BIND  PubMed Mis12 interacts with HP1-gamma. 
    NP_009207.2 NP_002408.2 MKI67    BIND  PubMed pKi-67 interacts with HP1-gamma via its C-terminus. This interaction was modeled on a demonstrated interaction between pKi-67 from human and HP1-gamma from mouse. 
    Q13185 Q5T6C5 ATXN7L2    HPRD  PubMed  
    Q13185 P83916 CBX1    HPRD  PubMed  
    Q13185 Q13185 CBX3    HPRD  PubMed  
    Q13185 P45973 CBX5    HPRD  PubMed  
    Q13185 Q9H410 DSN1    HPRD  PubMed  
    Q13185 P10412 HIST1H1E    HPRD  PubMed  
    Q13185 Q16695 HIST3H3    HPRD  PubMed  
    Q13185 Q9Y468 L3MBTL1    HPRD  PubMed  
    Q13185 Q14739 LBR    HPRD  PubMed  
    Q13185 Q9H081 MIS12    HPRD  PubMed  
    Q13185 P46013 MKI67    HPRD  PubMed  
    Q13185 P11309 PIM1    HPRD  PubMed  
    Q13185 P23497 SP100    HPRD  PubMed  
    Q13185 O00268 TAF4    HPRD  PubMed  
    Q13185 O15164 TRIM24    HPRD  PubMed  
    Q13185 Q13263 TRIM28    HPRD  PubMed  
    BioGRID:116463 BioGRID:117616 ARL5A    BioGRID  PubMed Two-hybrid 
    BioGRID:116463 BioGRID:114342 BANF1    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:116463 BioGRID:113911 BAP1    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:116463 BioGRID:116151 CBX1    BioGRID  PubMed Affinity Capture-Western; Co-localization; Reconstituted Complex 
    BioGRID:116463 BioGRID:116463 CBX3    BioGRID  PubMed Affinity Capture-Western; Reconstituted Complex 
    BioGRID:116463 BioGRID:117030 CBX5    BioGRID  PubMed Affinity Capture-MS; Affinity Capture-Western; Co-fractionation; Co-localization; Reconstituted Complex 
    BioGRID:116463 BioGRID:107487 CENPA    BioGRID  PubMed Co-purification 
    BioGRID:116463 BioGRID:114929 CHD1L    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:116463 BioGRID:108126 DNMT3B    BioGRID  PubMed Affinity Capture-Western; Reconstituted Complex 
    BioGRID:116463 BioGRID:123045 DSN1    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:116463 BioGRID:108208 E2F6    BioGRID  PubMed Affinity Capture-Western 
    BioGRID:116463 BioGRID:116123 EHMT2    BioGRID  PubMed Co-localization; Reconstituted Complex 
    BioGRID:116463 BioGRID:160074 H3F3A    BioGRID  PubMed Reconstituted Complex 
    BioGRID:116463 BioGRID:109272 H3F3A    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:116463 BioGRID:109318 HDGF    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:116463 BioGRID:109263 HIST1H1E    BioGRID  PubMed Co-purification 
    BioGRID:116463 BioGRID:113946 HIST1H3A    BioGRID  PubMed Affinity Capture-Western; Reconstituted Complex 
    BioGRID:116463 BioGRID:113955 HIST1H4A    BioGRID  PubMed Reconstituted Complex 
    BioGRID:116463 BioGRID:113895 HIST3H3    BioGRID  PubMed Co-crystal Structure; Protein-peptide 
    BioGRID:116463 BioGRID:113870 KDM5C    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:116463 BioGRID:117486 L3MBTL1    BioGRID  PubMed Affinity Capture-Western; Reconstituted Complex 
    BioGRID:116463 BioGRID:123753 L3MBTL2    BioGRID  PubMed Affinity Capture-Western; Reconstituted Complex 
    BioGRID:116463 BioGRID:110122 LBR    BioGRID  PubMed Affinity Capture-Western; Reconstituted Complex; Two-hybrid 
    BioGRID:116463 BioGRID:116870 MGA    BioGRID  PubMed Two-hybrid 
    BioGRID:116463 BioGRID:122474 MIS12    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:116463 BioGRID:110434 MKI67    BioGRID  PubMed Reconstituted Complex; Two-hybrid 
    BioGRID:116463 BioGRID:215010 Mad2l2    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:116463 BioGRID:211970 Mis12    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:116463 BioGRID:117363 NIPBL    BioGRID  PubMed Reconstituted Complex 
    BioGRID:116463 BioGRID:117433 NSL1    BioGRID  PubMed Two-hybrid 
    BioGRID:116463 BioGRID:123896 PCGF6    BioGRID  PubMed Affinity Capture-Western 
    BioGRID:116463 BioGRID:111310 PIM1    BioGRID  PubMed Affinity Capture-Western; Biochemical Activity; Reconstituted Complex; Two-hybrid 
    BioGRID:116463 BioGRID:111426 POLR2A    BioGRID  PubMed Affinity Capture-Western 
    BioGRID:116463 BioGRID:202030 Pax3    BioGRID  PubMed Affinity Capture-Western; Reconstituted Complex 
    BioGRID:116463 BioGRID:111903 RELB    BioGRID  PubMed Co-localization 
    BioGRID:116463 BioGRID:111947 RING1    BioGRID  PubMed Affinity Capture-Western 
    BioGRID:116463 BioGRID:121244 SMARCAD1    BioGRID  PubMed Affinity Capture-MS; Affinity Capture-Western 
    BioGRID:116463 BioGRID:112555 SP100    BioGRID  PubMed Affinity Capture-Western; Reconstituted Complex; Two-hybrid 
    BioGRID:116463 BioGRID:115544 SRRM1    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:116463 BioGRID:112497 SUMO2    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:116463 BioGRID:124257 SUV420H2    BioGRID  PubMed Affinity Capture-Western 
    BioGRID:116463 BioGRID:115457 TRIM28    BioGRID  PubMed Affinity Capture-Western; Reconstituted Complex; Two-hybrid 
    BioGRID:116463 BioGRID:113164 UBC    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:116463 BioGRID:120250 WHSC1L1    BioGRID  PubMed Two-hybrid 
    BioGRID:116463 BioGRID:115441 YAF2    BioGRID  PubMed Affinity Capture-Western 
    BioGRID:116463 BioGRID:113388 ZNF10    BioGRID  PubMed Reconstituted Complex 
    BioGRID:116463 BioGRID:124291 ZNF496    BioGRID  PubMed Reconstituted Complex 
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    General gene information

    Markers

    Genotypes

    Homology

    Pathways from BioSystems

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enzyme binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    identical protein binding IPI
    Inferred from Physical Interaction
    more info
    		  
    protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    protein domain specific binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    chromatin remodeling NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    negative regulation of transcription, DNA-dependent IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    negative regulation of transcription, DNA-dependent IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    chromatin IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    chromocenter IEA
    Inferred from Electronic Annotation
    more info
    		  
    condensed chromosome, centromeric region ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    nuclear centromeric heterochromatin ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    nuclear envelope ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    nuclear euchromatin IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    nuclear heterochromatin IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    nuclear inner membrane NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    spindle IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
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    General protein information

    Preferred Names
    chromobox protein homolog 3
    Names
    chromobox protein homolog 3
    HP1 gamma homolog
    modifier 2 protein
    heterochromatin-like protein 1
    heterochromatin protein HP1 gamma
    heterochromatin protein 1 homolog gamma
    chromobox homolog 3 (HP1 gamma homolog, Drosophila)
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    NCBI Reference Sequences (RefSeq)

    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_007276.4 → NP_009207.2  chromobox protein homolog 3

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) contains an alternate 5' exon but encodes the same protein as transcript variant 2.
      Source sequence(s)
      BC000954, BX648807, CV575477, DB565723
      Consensus CDS
      CCDS5398.1
      UniProtKB/TrEMBL
      A4D177
      UniProtKB/Swiss-Prot
      Q13185
      Related
      ENSP00000336687, OTTHUMP00000122519, ENST00000337620, OTTHUMT00000214117
      Conserved Domains (2) summary
      cd00024
      Location:36 – 78
      Blast Score: 108
      CHROMO; Chromatin organization modifier (chromo) domain is a conserved region of around 50 amino acids found in a variety of chromosomal proteins, which appear to play a role in the functional organization of the eukaryotic nucleus. Experimental evidence ...
      cd00034
      Location:123 – 175
      Blast Score: 175
      ChSh; Chromo Shadow Domain, found in association with N-terminal chromo (CHRromatin Organization MOdifier) domain; Chromo domains mediate the interaction of the heterochromatin with other heterochromatin proteins, thereby affecting chromatin structure (e.g. ...

    2. NM_016587.3 → NP_057671.2  chromobox protein homolog 3

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) contains an alternate 5' exon but encodes the same protein as transcript variant 1.
      Source sequence(s)
      BX648807, CD514780, DB565723
      Consensus CDS
      CCDS5398.1
      UniProtKB/TrEMBL
      A4D177
      UniProtKB/Swiss-Prot
      Q13185
      Related
      ENSP00000379670, OTTHUMP00000122520, ENST00000396386, OTTHUMT00000214118
      Conserved Domains (2) summary
      cd00024
      Location:36 – 78
      Blast Score: 108
      CHROMO; Chromatin organization modifier (chromo) domain is a conserved region of around 50 amino acids found in a variety of chromosomal proteins, which appear to play a role in the functional organization of the eukaryotic nucleus. Experimental evidence ...
      cd00034
      Location:123 – 175
      Blast Score: 175
      ChSh; Chromo Shadow Domain, found in association with N-terminal chromo (CHRromatin Organization MOdifier) domain; Chromo domains mediate the interaction of the heterochromatin with other heterochromatin proteins, thereby affecting chromatin structure (e.g. ...

    RefSeqs of Annotated Genomes: Build 37.3

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

    Reference GRCh37.p5 Primary Assembly

    Genomic

    1. NC_000007.13 Reference GRCh37.p5 Primary Assembly

      Range
      26240831..26253227
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate HuRef

    Genomic

    1. AC_000139.1 Alternate HuRef

      Range
      26122745..26135135
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate CRA_TCAGchr7v2

    Genomic

    1. AC_000068.1 Alternate CRA_TCAGchr7v2

      Range
      26291980..26304374
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
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    Related Sequences

    Nucleotide Protein
    Heading Accession and Version
    genomic AC010677.4 (9243..21120) None
    genomic CH236948.1 EAL24235.1
    genomic CH471073.1 EAW93842.1
      EAW93843.1
      EAW93844.1
      EAW93845.1
      EAW93846.1
    mRNA AB030905.1 BAA83340.1
    mRNA AF136630.1 AAF62370.1
    mRNA AL542267.3 None
    mRNA BC000954.1 AAH00954.1
    mRNA BC014380.1 AAH14380.1
    mRNA BX647444.1 None
    mRNA BX648807.1 None
    mRNA CD514780.1 None
    mRNA CV575477.1 None
    mRNA DB565723.1 None
    mRNA U26312.1 AAB48101.1
    other-genetic EU831928.1 ACE87369.1
    other-genetic EU832023.1 ACE86685.1
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q13185.4 GenPept UniProtKB/Swiss-Prot:Q13185
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    Additional Links

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Chemical Information
    Medical
    Molecular Biology Databases
    Research Materials
    Tools
    Miscellaneous

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