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Aliases for HOMER3 Gene

Aliases for HOMER3 Gene

  • Homer Scaffolding Protein 3 2 3 5
  • HOMER-3 3 4
  • Homer, Neuronal Immediate Early Gene, 3 3
  • Homer Homolog 3 (Drosophila) 2
  • Homer Protein Homolog 3 3
  • Homer Homolog 3 3
  • VESL3 3

External Ids for HOMER3 Gene

Previous GeneCards Identifiers for HOMER3 Gene

  • GC19M019431
  • GC19M018885
  • GC19M018901
  • GC19M019040
  • GC19M018604

Summaries for HOMER3 Gene

Entrez Gene Summary for HOMER3 Gene

  • This gene encodes a member of the HOMER family of postsynaptic density scaffolding proteins that share a similar domain structure consisting of an N-terminal Enabled/vasodilator-stimulated phosphoprotein homology 1 domain which mediates protein-protein interactions, and a carboxy-terminal coiled-coil domain and two leucine zipper motifs that are involved in self-oligomerization. The encoded protein binds numerous other proteins including group I metabotropic glutamate receptors, inositol 1,4,5-trisphosphate receptors and amyloid precursor proteins and has been implicated in diverse biological functions such as neuronal signaling, T-cell activation and trafficking of amyloid beta peptides. Alternative splicing results in multiple transcript variants.[provided by RefSeq, Mar 2009]

GeneCards Summary for HOMER3 Gene

HOMER3 (Homer Scaffolding Protein 3) is a Protein Coding gene. Among its related pathways are FoxO signaling pathway and Circadian entrainment. GO annotations related to this gene include protein domain specific binding and G-protein coupled glutamate receptor binding. An important paralog of this gene is HOMER1.

UniProtKB/Swiss-Prot for HOMER3 Gene

  • Postsynaptic density scaffolding protein. Binds and cross-links cytoplasmic regions of GRM1, GRM5, ITPR1, DNM3, RYR1, RYR2, SHANK1 and SHANK3. By physically linking GRM1 and GRM5 with ER-associated ITPR1 receptors, it aids the coupling of surface receptors to intracellular calcium release. Isoforms can be differently regulated and may play an important role in maintaining the plasticity at glutamatergic synapses.

Gene Wiki entry for HOMER3 Gene

Additional gene information for HOMER3 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for HOMER3 Gene

Genomics for HOMER3 Gene

Regulatory Elements for HOMER3 Gene

Enhancers for HOMER3 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH19H019039 1.1 Ensembl ENCODE 10.5 -98.9 -98913 2.1 FOXA2 SAP130 ARID4B MAX CEBPG ZNF384 RAD21 YY1 GATAD2A TEAD1 TMEM161A SLC25A42 MEF2B BORCS8 BORCS8-MEF2B RFXANK HOMER3 HAPLN4 ARMC6 SUGP2
GH19H018893 1.3 FANTOM5 ENCODE 5.3 +46.8 46775 2.6 ARID4B SIN3A BMI1 RAD21 GLIS2 EGR1 ZNF143 CREM DEK EGR2 GDF1 TMEM59L CRTC1 HAPLN4 HOMER3 NCAN SUGP2 KLHL26 SLC25A42 ENSG00000269694
GH19H018918 1.1 ENCODE 5.6 +21.7 21708 2.6 HDGF PKNOX1 FOXA2 ARID4B SIN3A DMAP1 ZBTB7B YY1 SLC30A9 ZNF207 KIAA1683 UPF1 ELL HOMER3 LPAR2 DDX49 COPE
GH19H018966 1.6 FANTOM5 Ensembl ENCODE 3 -28.7 -28664 7.1 ARID4B BRCA1 GTF3C2 FOS ATF7 REST PPARGC1A SREBF1 NFIL3 MAFF ATP13A1 TMEM161A UPF1 NR2C2AP GATAD2A ENSG00000268030 SUGP2 MAU2 ENSG00000268938 KIAA1683
GH19H018915 0.6 ENCODE 6.9 +25.5 25480 0.7 CTCF ARID4B SIN3A SMC3 CREB1 RAD21 HOMER3 COPE PIR40504
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around HOMER3 on UCSC Golden Path with GeneCards custom track

Promoters for HOMER3 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000108171 561 1801 CTCF RB1 SAP130 ZNF792 RAD21 FOSL1 POLR2A EGR1 ZNF143 CHD2

Genomic Locations for HOMER3 Gene

Genomic Locations for HOMER3 Gene
chr19:18,929,201-18,941,261
(GRCh38/hg38)
Size:
12,061 bases
Orientation:
Minus strand
chr19:19,040,010-19,052,070
(GRCh37/hg19)

Genomic View for HOMER3 Gene

Genes around HOMER3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
HOMER3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for HOMER3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for HOMER3 Gene

Proteins for HOMER3 Gene

  • Protein details for HOMER3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9NSC5-HOME3_HUMAN
    Recommended name:
    Homer protein homolog 3
    Protein Accession:
    Q9NSC5
    Secondary Accessions:
    • B2RA10
    • E9PCW9
    • O14580
    • O95350
    • Q9NSB9
    • Q9NSC0
    • Q9NSC1

    Protein attributes for HOMER3 Gene

    Size:
    361 amino acids
    Molecular mass:
    39836 Da
    Quaternary structure:
    • Isoform 1 and isoform 2 encode coiled-coil structures that mediate homo- and heteromultimerization.
    SequenceCaution:
    • Sequence=AAB81545.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for HOMER3 Gene

    Alternative splice isoforms for HOMER3 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for HOMER3 Gene

Post-translational modifications for HOMER3 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for HOMER3 Gene

Domains & Families for HOMER3 Gene

Gene Families for HOMER3 Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for HOMER3 Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for HOMER3 Gene

Graphical View of Domain Structure for InterPro Entry

Q9NSC5

UniProtKB/Swiss-Prot:

HOME3_HUMAN :
  • The WH1 domain interacts with the PPXXF motif in GRM1, GRM5, RYR1, RYR2, ITPR1, SHANK 1 and SHANK3.
  • Belongs to the Homer family.
Domain:
  • The WH1 domain interacts with the PPXXF motif in GRM1, GRM5, RYR1, RYR2, ITPR1, SHANK 1 and SHANK3.
Family:
  • Belongs to the Homer family.
genes like me logo Genes that share domains with HOMER3: view

Function for HOMER3 Gene

Molecular function for HOMER3 Gene

GENATLAS Biochemistry:
homer,neuronal immediate early gene 3,constitutively expressed at excitating synapses,binding,clustering and linking metabotropic glutamate receptors group I with the inositol triphosphate receptors regulator of GRMs signaling
UniProtKB/Swiss-Prot Function:
Postsynaptic density scaffolding protein. Binds and cross-links cytoplasmic regions of GRM1, GRM5, ITPR1, DNM3, RYR1, RYR2, SHANK1 and SHANK3. By physically linking GRM1 and GRM5 with ER-associated ITPR1 receptors, it aids the coupling of surface receptors to intracellular calcium release. Isoforms can be differently regulated and may play an important role in maintaining the plasticity at glutamatergic synapses.

Gene Ontology (GO) - Molecular Function for HOMER3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 16098226
GO:0008022 protein C-terminus binding IEA --
GO:0019904 protein domain specific binding IEA --
GO:0035256 G-protein coupled glutamate receptor binding IBA --
GO:0042802 identical protein binding IPI 25416956
genes like me logo Genes that share ontologies with HOMER3: view
genes like me logo Genes that share phenotypes with HOMER3: view

Animal Models for HOMER3 Gene

MGI Knock Outs for HOMER3:

Animal Model Products

Clone Products

No data available for Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Human Phenotype Ontology , miRNA , Transcription Factor Targets and HOMER Transcription for HOMER3 Gene

Localization for HOMER3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for HOMER3 Gene

Cytoplasm. Cell junction, synapse, postsynaptic cell membrane, postsynaptic density. Cell junction, synapse. Note=Postsynaptic density of neuronal cells. {ECO:0000250}.

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 HOMER3 gene
Compartment Confidence
cytosol 5
plasma membrane 4
mitochondrion 2
cytoskeleton 1
nucleus 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Cytosol (3)
  • Plasma membrane (3)
  • Cytoplasmic bodies (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for HOMER3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005575 cellular_component ND --
GO:0005737 cytoplasm IEA --
GO:0005829 cytosol TAS --
GO:0005886 plasma membrane IEA --
GO:0014069 postsynaptic density IEA --
genes like me logo Genes that share ontologies with HOMER3: view

Pathways & Interactions for HOMER3 Gene

genes like me logo Genes that share pathways with HOMER3: view

Pathways by source for HOMER3 Gene

Gene Ontology (GO) - Biological Process for HOMER3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006605 protein targeting TAS 10653696
GO:0007216 G-protein coupled glutamate receptor signaling pathway TAS 9808458
genes like me logo Genes that share ontologies with HOMER3: view

No data available for SIGNOR curated interactions for HOMER3 Gene

Drugs & Compounds for HOMER3 Gene

(1) Drugs for HOMER3 Gene - From: HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
calcium Nutra 0
genes like me logo Genes that share compounds with HOMER3: view

Transcripts for HOMER3 Gene

Unigene Clusters for HOMER3 Gene

Homer homolog 3 (Drosophila):
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for HOMER3 Gene

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

ExUns: 13d
SP1:
SP2:
SP3:
SP4:
SP5:
SP6:
SP7:
SP8:
SP9:
SP10:
SP11:
SP12:

Relevant External Links for HOMER3 Gene

GeneLoc Exon Structure for
HOMER3
ECgene alternative splicing isoforms for
HOMER3

Expression for HOMER3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for HOMER3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for HOMER3 Gene

This gene is overexpressed in Spleen (x4.5).

Protein differential expression in normal tissues from HIPED for HOMER3 Gene

This gene is overexpressed in Spleen (41.5) and Monocytes (6.4).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for HOMER3 Gene



NURSA nuclear receptor signaling pathways regulating expression of HOMER3 Gene:

HOMER3

SOURCE GeneReport for Unigene cluster for HOMER3 Gene:

Hs.720208

Evidence on tissue expression from TISSUES for HOMER3 Gene

  • Nervous system(4.8)
  • Muscle(2.6)
genes like me logo Genes that share expression patterns with HOMER3: view

No data available for Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for HOMER3 Gene

Orthologs for HOMER3 Gene

This gene was present in the common ancestor of animals.

Orthologs for HOMER3 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia HOMER3 33 34
  • 99.17 (n)
dog
(Canis familiaris)
Mammalia HOMER3 33 34
  • 88.49 (n)
cow
(Bos Taurus)
Mammalia HOMER3 33 34
  • 87.71 (n)
rat
(Rattus norvegicus)
Mammalia Homer3 33
  • 83.71 (n)
mouse
(Mus musculus)
Mammalia Homer3 33 16 34
  • 82.77 (n)
oppossum
(Monodelphis domestica)
Mammalia HOMER3 34
  • 80 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia -- 34
  • 72 (a)
ManyToMany
chicken
(Gallus gallus)
Aves HOMER3 33 34
  • 70.18 (n)
tropical clawed frog
(Silurana tropicalis)
Amphibia homer3 33
  • 64.21 (n)
African clawed frog
(Xenopus laevis)
Amphibia homer3-prov 33
zebrafish
(Danio rerio)
Actinopterygii homer3 33 34
  • 61.56 (n)
zgc55557 33
fruit fly
(Drosophila melanogaster)
Insecta homer 34
  • 34 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 35 (a)
OneToMany
Species where no ortholog for HOMER3 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)
  • 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)
  • lizard (Anolis carolinensis)
  • 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)
  • worm (Caenorhabditis elegans)

Evolution for HOMER3 Gene

ENSEMBL:
Gene Tree for HOMER3 (if available)
TreeFam:
Gene Tree for HOMER3 (if available)

Paralogs for HOMER3 Gene

Paralogs for HOMER3 Gene

(3) SIMAP similar genes for HOMER3 Gene using alignment to 6 proteins:

genes like me logo Genes that share paralogs with HOMER3: view

Variants for HOMER3 Gene

Sequence variations from dbSNP and Humsavar for HOMER3 Gene

SNP ID Clin Chr 19 pos Sequence Context AA Info Type
rs1000062098 -- 18,928,985(+) TTTGG(A/C)CAGAC downstream-variant-500B
rs1000208428 -- 18,936,798(+) TCCTG(A/G)CTAAC intron-variant
rs1000262151 -- 18,936,538(+) TGGTG(C/T)GTCTG intron-variant
rs1000374083 -- 18,930,961(+) TGAGA(G/T)CGTGC intron-variant
rs1000418128 -- 18,934,825(+) TAGAG(A/G)CGGGG intron-variant

Structural Variations from Database of Genomic Variants (DGV) for HOMER3 Gene

Variant ID Type Subtype PubMed ID
nsv956592 CNV deletion 24416366
nsv952423 CNV deletion 24416366
nsv833778 CNV loss 17160897
nsv470132 CNV loss 18288195
nsv1151217 CNV deletion 26484159
esv3556142 CNV deletion 23714750
esv2667412 CNV deletion 23128226
esv2665463 CNV deletion 23128226

Variation tolerance for HOMER3 Gene

Residual Variation Intolerance Score: 51.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.62; 45.35% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for HOMER3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
HOMER3

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for HOMER3 Gene

Disorders for HOMER3 Gene

Relevant External Links for HOMER3

Genetic Association Database (GAD)
HOMER3
Human Genome Epidemiology (HuGE) Navigator
HOMER3
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
HOMER3

No disorders were found for HOMER3 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for HOMER3 Gene

Publications for HOMER3 Gene

  1. Molecular characterisation of two structurally distinct groups of human homers, generated by extensive alternative splicing. (PMID: 10653696) Soloviev MM … McIlhinney RA (Journal of molecular biology 2000) 2 3 4 22 60
  2. The DNA sequence and biology of human chromosome 19. (PMID: 15057824) Grimwood J … Lucas SM (Nature 2004) 3 4 60
  3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 60
  4. Homer-3 regulates activation of serum response element in T cells via its EVH1 domain. (PMID: 14645007) Ishiguro K … Xavier R (Blood 2004) 3 22 60
  5. Mutation screening of the Homer gene family and association analysis in schizophrenia. (PMID: 12815733) Norton N … Owen MJ (American journal of medical genetics. Part B, Neuropsychiatric genetics : the official publication of the International Society of Psychiatric Genetics 2003) 3 45 60

Products for HOMER3 Gene

Sources for HOMER3 Gene

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