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Aliases for HP1BP3 Gene

Aliases for HP1BP3 Gene

  • Heterochromatin Protein 1 Binding Protein 3 2 3 5
  • Heterochromatin Protein 1, Binding Protein 3 2
  • Heterochromatin Protein 1-Binding Protein 3 3
  • Protein HP1-BP74 4
  • HP1-BP74 3
  • HP1BP74 3

External Ids for HP1BP3 Gene

Previous GeneCards Identifiers for HP1BP3 Gene

  • GC01M020941
  • GC01M021069
  • GC01M019314

Summaries for HP1BP3 Gene

GeneCards Summary for HP1BP3 Gene

HP1BP3 (Heterochromatin Protein 1 Binding Protein 3) is a Protein Coding gene. Gene Ontology (GO) annotations related to this gene include nucleosome binding. An important paralog of this gene is H1FOO.

UniProtKB/Swiss-Prot for HP1BP3 Gene

  • Component of heterochromatin that maintains heterochromatin integrity during G1/S progression and regulates the duration of G1 phase to critically influence cell proliferative capacity (PubMed:24830416). Mediates chromatin condensation during hypoxia, leading to increased tumor cell viability, radio-resistance, chemo-resistance and self-renewal(PubMed:25100860).

Gene Wiki entry for HP1BP3 Gene

Additional gene information for HP1BP3 Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for HP1BP3 Gene

Genomics for HP1BP3 Gene

GeneHancer (GH) Regulatory Elements for HP1BP3 Gene

Promoters and enhancers for HP1BP3 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
GH01I020784 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 550.8 +0.5 456 4.2 HDGF PKNOX1 CLOCK SMAD1 FOXA2 ARNT ZFP64 ARID4B SIN3A FEZF1 HP1BP3 EIF4G3 ENSG00000233069 SH2D5 GC01P020738
GH01I021331 Promoter/Enhancer 2.9 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 100.9 -551.9 -551863 15.2 CLOCK MLX FEZF1 DMAP1 YBX1 IRF4 YY1 ZNF213 E2F8 ZNF416 ECE1 HP1BP3 NBPF3 USP48 NBPF2P CDC42-IT1 LDLRAD2 ENSG00000236936 HSPG2 MUL1
GH01I020780 Promoter 0.5 EPDnew 550.4 +6.8 6751 0.1 HP1BP3 SH2D5 ENSG00000233069 GC01P020738
GH01I020474 Promoter/Enhancer 2.8 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 43.7 +306.2 306242 13.8 MLX DMAP1 YY1 SLC30A9 ZNF213 ZNF143 ZNF548 SP3 NFYC ZFP41 CAMK2N1 ENSG00000284743 HP1BP3 DDOST OTUD3 MUL1 FAM43B NBPF2P ENSG00000284641
GH01I020730 Promoter/Enhancer 2 EPDnew Ensembl ENCODE 32 +55.0 55019 4.2 PKNOX1 SMAD1 MLX ARID4B SIN3A DMAP1 ZNF2 SLC30A9 ZNF143 FOS SH2D5 ENSG00000233069 HP1BP3 EIF4G3 KIF17
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around HP1BP3 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the HP1BP3 gene promoter:

Genomic Locations for HP1BP3 Gene

Genomic Locations for HP1BP3 Gene
chr1:20,742,661-20,787,323
(GRCh38/hg38)
Size:
44,663 bases
Orientation:
Minus strand
chr1:21,069,154-21,113,816
(GRCh37/hg19)

Genomic View for HP1BP3 Gene

Genes around HP1BP3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
HP1BP3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for HP1BP3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for HP1BP3 Gene

Proteins for HP1BP3 Gene

  • Protein details for HP1BP3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q5SSJ5-HP1B3_HUMAN
    Recommended name:
    Heterochromatin protein 1-binding protein 3
    Protein Accession:
    Q5SSJ5
    Secondary Accessions:
    • A6NI71
    • A8K5D7
    • B3KMZ8
    • B4E210
    • Q05BI0
    • Q5SSJ6
    • Q5SWC6
    • Q6PIM9
    • Q8NDF0
    • Q9UHY0

    Protein attributes for HP1BP3 Gene

    Size:
    553 amino acids
    Molecular mass:
    61207 Da
    Quaternary structure:
    • Interacts (via PxVxL motif) with CBX5 (via Trp-174).
    SequenceCaution:
    • Sequence=AAF14871.1; Type=Frameshift; Positions=226, 237, 243; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for HP1BP3 Gene

    Alternative splice isoforms for HP1BP3 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for HP1BP3 Gene

Post-translational modifications for HP1BP3 Gene

  • Ubiquitination at posLast=1414, posLast=131131, posLast=291291, and posLast=302302

No data available for DME Specific Peptides for HP1BP3 Gene

Domains & Families for HP1BP3 Gene

Gene Families for HP1BP3 Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for HP1BP3 Gene

Graphical View of Domain Structure for InterPro Entry

Q5SSJ5

UniProtKB/Swiss-Prot:

HP1B3_HUMAN :
  • A central region that included the first H15 (linker histone H1/H5 globular) domain binds at the entry/exit site of the nucleosomal DNA.
Domain:
  • A central region that included the first H15 (linker histone H1/H5 globular) domain binds at the entry/exit site of the nucleosomal DNA.
genes like me logo Genes that share domains with HP1BP3: view

Function for HP1BP3 Gene

Molecular function for HP1BP3 Gene

UniProtKB/Swiss-Prot Function:
Component of heterochromatin that maintains heterochromatin integrity during G1/S progression and regulates the duration of G1 phase to critically influence cell proliferative capacity (PubMed:24830416). Mediates chromatin condensation during hypoxia, leading to increased tumor cell viability, radio-resistance, chemo-resistance and self-renewal(PubMed:25100860).

Phenotypes From GWAS Catalog for HP1BP3 Gene

Gene Ontology (GO) - Molecular Function for HP1BP3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003677 DNA binding IDA 20042602
GO:0003682 chromatin binding IEA --
GO:0005515 protein binding IPI 20042602
GO:0031491 nucleosome binding IDA 20042602
genes like me logo Genes that share ontologies with HP1BP3: view
genes like me logo Genes that share phenotypes with HP1BP3: view

Animal Models for HP1BP3 Gene

MGI Knock Outs for HP1BP3:

Animal Model Products

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for HP1BP3 Gene

Localization for HP1BP3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for HP1BP3 Gene

Nucleus. Chromosome. Note=localized in nuclei but not in nucleoli in interphase. Colocalized with chromosomes in mitosis, with a gradually increased during G1 progression and a maximum level during late G1 phase (G1/S). {ECO:0000269 PubMed:24830416}.

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 HP1BP3 gene
Compartment Confidence
nucleus 5
cytosol 2

Subcellular locations from the

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

Gene Ontology (GO) - Cellular Components for HP1BP3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000786 nucleosome IEA --
GO:0005634 nucleus IDA 24830416
GO:0005694 chromosome IEA,IDA 20042602
GO:0016607 nuclear speck IDA --
genes like me logo Genes that share ontologies with HP1BP3: view

Pathways & Interactions for HP1BP3 Gene

SuperPathways for HP1BP3 Gene

No Data Available

Gene Ontology (GO) - Biological Process for HP1BP3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006334 nucleosome assembly IEA --
GO:0006355 regulation of transcription, DNA-templated IMP,IEA 24830416
GO:0042127 regulation of cell proliferation IMP 24830416
GO:0070828 heterochromatin organization IEA,IMP 24830416
GO:0071456 cellular response to hypoxia IDA 25100860
genes like me logo Genes that share ontologies with HP1BP3: view

No data available for Pathways by source and SIGNOR curated interactions for HP1BP3 Gene

Drugs & Compounds for HP1BP3 Gene

No Compound Related Data Available

Transcripts for HP1BP3 Gene

Unigene Clusters for HP1BP3 Gene

Heterochromatin protein 1, binding protein 3:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for HP1BP3 Gene

ExUns: 1a · 1b ^ 2 ^ 3a · 3b · 3c ^ 4a · 4b ^ 5 ^ 6a · 6b · 6c ^ 7a · 7b ^ 8a · 8b · 8c · 8d ^ 9a · 9b ^ 10 ^ 11 ^ 12 ^ 13 ^ 14 ^ 15a ·
SP1:
SP2: - - - - - - - - -
SP3: - - - - - - - -
SP4: - - -
SP5: - - - - -
SP6:
SP7: -
SP8: - - - - -
SP9: - - - - - - - -
SP10: -
SP11: - - - - -
SP12:
SP13: -
SP14: - - - -
SP15:
SP16:

ExUns: 15b ^ 16a · 16b ^ 17 ^ 18 ^ 19 ^ 20
SP1:
SP2:
SP3:
SP4:
SP5:
SP6:
SP7:
SP8:
SP9:
SP10:
SP11:
SP12:
SP13:
SP14:
SP15:
SP16:

Relevant External Links for HP1BP3 Gene

GeneLoc Exon Structure for
HP1BP3
ECgene alternative splicing isoforms for
HP1BP3

Expression for HP1BP3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for HP1BP3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for HP1BP3 Gene

This gene is overexpressed in Tlymphocyte (10.3) and Nasal epithelium (6.5).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for HP1BP3 Gene



Protein tissue co-expression partners for HP1BP3 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of HP1BP3 Gene:

HP1BP3

SOURCE GeneReport for Unigene cluster for HP1BP3 Gene:

Hs.142442

Evidence on tissue expression from TISSUES for HP1BP3 Gene

  • Nervous system(4.9)
  • Liver(4.3)
  • Blood(4.1)
  • Intestine(2.4)
  • Lung(2.4)
genes like me logo Genes that share expression patterns with HP1BP3: view

No data available for mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for HP1BP3 Gene

Orthologs for HP1BP3 Gene

This gene was present in the common ancestor of chordates.

Orthologs for HP1BP3 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia HP1BP3 33 34
  • 99.76 (n)
dog
(Canis familiaris)
Mammalia HP1BP3 33 34
  • 94.09 (n)
cow
(Bos Taurus)
Mammalia HP1BP3 33 34
  • 92.71 (n)
rat
(Rattus norvegicus)
Mammalia Hp1bp3 33
  • 86.99 (n)
mouse
(Mus musculus)
Mammalia Hp1bp3 33 16 34
  • 86.24 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia -- 34
  • 83 (a)
OneToMany
-- 34
  • 79 (a)
OneToMany
oppossum
(Monodelphis domestica)
Mammalia HP1BP3 34
  • 82 (a)
OneToOne
chicken
(Gallus gallus)
Aves HP1BP3 33 34
  • 76.66 (n)
lizard
(Anolis carolinensis)
Reptilia HP1BP3 34
  • 67 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia Str.6853 33
zebrafish
(Danio rerio)
Actinopterygii hp1bp3 33 34
  • 55.64 (n)
Species where no ortholog for HP1BP3 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 HP1BP3 Gene

ENSEMBL:
Gene Tree for HP1BP3 (if available)
TreeFam:
Gene Tree for HP1BP3 (if available)

Paralogs for HP1BP3 Gene

Paralogs for HP1BP3 Gene

genes like me logo Genes that share paralogs with HP1BP3: view

Variants for HP1BP3 Gene

Sequence variations from dbSNP and Humsavar for HP1BP3 Gene

SNP ID Clin Chr 01 pos Variation AA Info Type
rs1000037191 -- 20,760,565(-) G/T intron_variant
rs1000126593 -- 20,774,759(-) C/A intron_variant
rs1000155993 -- 20,746,534(-) A/G/T intron_variant
rs1000156260 -- 20,785,661(-) A/C intron_variant
rs1000238140 -- 20,763,133(-) C/T intron_variant

Structural Variations from Database of Genomic Variants (DGV) for HP1BP3 Gene

Variant ID Type Subtype PubMed ID
nsv834369 CNV loss 17160897
nsv5742 CNV insertion 18451855
nsv545731 CNV gain 21841781
esv3577773 CNV loss 25503493

Variation tolerance for HP1BP3 Gene

Residual Variation Intolerance Score: 5.86% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.58; 30.48% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for HP1BP3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
HP1BP3

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for HP1BP3 Gene

Disorders for HP1BP3 Gene

Additional Disease Information for HP1BP3

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology

No disorders were found for HP1BP3 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for HP1BP3 Gene

Publications for HP1BP3 Gene

  1. Profiling of the Chromatin-associated Proteome Identifies HP1BP3 as a Novel Regulator of Cell Cycle Progression. (PMID: 24830416) Dutta B … Sze SK (Molecular & cellular proteomics : MCP 2014) 2 3 4 58
  2. Quantitative profiling of chromatome dynamics reveals a novel role for HP1BP3 in hypoxia-induced oncogenesis. (PMID: 25100860) Dutta B … Sze SK (Molecular & cellular proteomics : MCP 2014) 3 4 58
  3. The middle region of an HP1-binding protein, HP1-BP74, associates with linker DNA at the entry/exit site of nucleosomal DNA. (PMID: 20042602) Hayashihara K … Fukui K (The Journal of biological chemistry 2010) 3 4 58
  4. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose JE … Uhl GR (Molecular medicine (Cambridge, Mass.) 2010) 3 44 58
  5. Investigation of genetic susceptibility factors for human longevity - a targeted nonsynonymous SNP study. (PMID: 20800603) Flachsbart F … Nebel A (Mutation research 2010) 3 44 58

Products for HP1BP3 Gene

Sources for HP1BP3 Gene

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