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Aliases for GPN3 Gene

Aliases for GPN3 Gene

  • GPN-Loop GTPase 3 2 3 3 5
  • ATP-Binding Domain 1 Family Member C 3 4
  • ATPBD1C 3 4
  • ATP Binding Domain 1 Family, Member C 2
  • Protein X 0004 3

External Ids for GPN3 Gene

Previous HGNC Symbols for GPN3 Gene

  • ATPBD1C

Previous GeneCards Identifiers for GPN3 Gene

  • GC12M109374
  • GC12M110890
  • GC12M107908

Summaries for GPN3 Gene

GeneCards Summary for GPN3 Gene

GPN3 (GPN-Loop GTPase 3) is a Protein Coding gene. Gene Ontology (GO) annotations related to this gene include nucleotide binding and hydrolase activity.

UniProtKB/Swiss-Prot for GPN3 Gene

  • Small GTPase required for proper localization of RNA polymerase II (RNAPII). May act at an RNAP assembly step prior to nuclear import.

Gene Wiki entry for GPN3 Gene

Additional gene information for GPN3 Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for GPN3 Gene

Genomics for GPN3 Gene

GeneHancer (GH) Regulatory Elements for GPN3 Gene

Promoters and enhancers for GPN3 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
GH12J110466 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 686.9 +1.0 950 3.8 CLOCK ZFP64 DMAP1 YBX1 IRF4 YY1 E2F8 ZNF143 SP3 NFYC GPN3 FAM216A ARPC3 RNU4-32P IFT81 HSPA8P14 ENSG00000257268 UBE3B PPP1CC RPL31P49
GH12J110449 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 36.9 +19.1 19081 2.3 HDGF PKNOX1 SMAD1 MLX ARNT ARID4B SIN3A DMAP1 ZNF2 IRF4 ARPC3 GPN3 GLTP FAM216A ENSG00000258210
GH12J110279 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 26 +186.4 186448 5.7 HDGF PKNOX1 CLOCK SMAD1 ARNT ARID4B SIN3A FEZF1 DMAP1 ZNF2 ATP2A2 GPN3 ARPC3 ANAPC7 RNU4-32P IFT81 UBE3B RN7SL769P GC12M110365
GH12J110676 Enhancer 1.2 Ensembl ENCODE dbSUPER 33.5 -208.5 -208516 3.5 HDGF PKNOX1 STAT5A KLF5 ZNF143 ATF7 BCLAF1 IKZF2 RUNX3 CREM GPN3 TCTN1 HVCN1 FAM216A RN7SL387P
GH12J110555 Enhancer 1.1 Ensembl ENCODE dbSUPER 35.6 -86.7 -86707 1.8 MEIS2 MAX SCRT2 SCRT1 SMARCC1 L3MBTL2 HLF CEBPB PRDM6 JUND GPN3 PPTC7 TCTN1 FAM216A VPS29
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around GPN3 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the GPN3 gene promoter:
  • ATF6
  • E2F-1
  • E2F
  • Nkx2-5
  • c-Ets-1
  • HSF1 (long)
  • HSF1short
  • AP-2gamma
  • MRF-2
  • GR-alpha

Genomic Locations for GPN3 Gene

Genomic Locations for GPN3 Gene
chr12:110,452,484-110,469,268
(GRCh38/hg38)
Size:
16,785 bases
Orientation:
Minus strand
chr12:110,890,289-110,907,073
(GRCh37/hg19)
Size:
16,785 bases
Orientation:
Minus strand

Genomic View for GPN3 Gene

Genes around GPN3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
GPN3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for GPN3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for GPN3 Gene

Proteins for GPN3 Gene

  • Protein details for GPN3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9UHW5-GPN3_HUMAN
    Recommended name:
    GPN-loop GTPase 3
    Protein Accession:
    Q9UHW5
    Secondary Accessions:
    • B2RC54
    • D4YWV1
    • F5H759
    • Q53FS3
    • Q6UVZ6
    • Q7Z3D3
    • Q8NEI2
    • Q96HK9

    Protein attributes for GPN3 Gene

    Size:
    284 amino acids
    Molecular mass:
    32761 Da
    Quaternary structure:
    • Heterodimer with GPN1 (PubMed:21768307). Binds to RNA polymerase II (RNAPII) (PubMed:20864038, PubMed:21768307). Interacts directly with subunits RPB4 and RPB7 and the CTD of RPB1 (PubMed:21768307).
    SequenceCaution:
    • Sequence=CAD97937.1; Type=Erroneous initiation; Evidence={ECO:0000305};

    Alternative splice isoforms for GPN3 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for GPN3 Gene

Post-translational modifications for GPN3 Gene

  • Ubiquitination at isoforms=2, 3216 and Lys16
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for GPN3 Gene

Domains & Families for GPN3 Gene

Gene Families for GPN3 Gene

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

Protein Domains for GPN3 Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for GPN3 Gene

Graphical View of Domain Structure for InterPro Entry

Q9UHW5

UniProtKB/Swiss-Prot:

GPN3_HUMAN :
  • Belongs to the GPN-loop GTPase family.
Family:
  • Belongs to the GPN-loop GTPase family.
genes like me logo Genes that share domains with GPN3: view

Function for GPN3 Gene

Molecular function for GPN3 Gene

UniProtKB/Swiss-Prot Function:
Small GTPase required for proper localization of RNA polymerase II (RNAPII). May act at an RNAP assembly step prior to nuclear import.

Phenotypes From GWAS Catalog for GPN3 Gene

Gene Ontology (GO) - Molecular Function for GPN3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003924 GTPase activity IBA --
GO:0005515 protein binding IPI 25241168
GO:0005525 GTP binding IEA --
GO:0016787 hydrolase activity IEA --
genes like me logo Genes that share ontologies with GPN3: view
genes like me logo Genes that share phenotypes with GPN3: view

Animal Model Products

miRNA for GPN3 Gene

miRTarBase miRNAs that target GPN3

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for GPN3 Gene

Localization for GPN3 Gene

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 GPN3 gene
Compartment Confidence
nucleus 3
cytosol 3
plasma membrane 1
extracellular 1
mitochondrion 1
peroxisome 1
endoplasmic reticulum 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Cytosol (2)
  • Nuclear speckles (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for GPN3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005622 intracellular IEA --
GO:0032991 protein-containing complex IDA --
genes like me logo Genes that share ontologies with GPN3: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot for GPN3 Gene

Pathways & Interactions for GPN3 Gene

No Data Available

Gene Ontology (GO) - Biological Process for GPN3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0044376 obsolete RNA polymerase II complex import to nucleus IBA --
GO:1990022 obsolete RNA polymerase III complex import into nucleus IBA --
genes like me logo Genes that share ontologies with GPN3: view

No data available for Pathways by source and SIGNOR curated interactions for GPN3 Gene

Drugs & Compounds for GPN3 Gene

No Compound Related Data Available

Transcripts for GPN3 Gene

Unigene Clusters for GPN3 Gene

GPN-loop GTPase 3:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for GPN3 Gene

ExUns: 1 ^ 2 ^ 3a · 3b ^ 4 ^ 5 ^ 6 ^ 7 ^ 8a · 8b ^ 9
SP1: - -
SP2: -
SP3:
SP4:

Relevant External Links for GPN3 Gene

GeneLoc Exon Structure for
GPN3
ECgene alternative splicing isoforms for
GPN3

Expression for GPN3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for GPN3 Gene

Protein differential expression in normal tissues from HIPED for GPN3 Gene

This gene is overexpressed in Bone (16.5), Peripheral blood mononuclear cells (11.1), and Testis (10.4).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for GPN3 Gene



Protein tissue co-expression partners for GPN3 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of GPN3 Gene:

GPN3

SOURCE GeneReport for Unigene cluster for GPN3 Gene:

Hs.634680

Evidence on tissue expression from TISSUES for GPN3 Gene

  • Adrenal gland(4.2)
  • Bone marrow(4.2)
  • Liver(4.2)
  • Lung(4.2)
  • Spleen(4.2)
  • Eye(4.1)
genes like me logo Genes that share expression patterns with GPN3: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for GPN3 Gene

Orthologs for GPN3 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for GPN3 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia GPN3 34 33
  • 99.88 (n)
OneToOne
cow
(Bos Taurus)
Mammalia GPN3 34 33
  • 93.08 (n)
OneToOne
dog
(Canis familiaris)
Mammalia GPN3 34 33
  • 92.72 (n)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia GPN3 34
  • 90 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia GPN3 34
  • 88 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Gpn3 33
  • 86.62 (n)
mouse
(Mus musculus)
Mammalia Gpn3 16 34 33
  • 85.21 (n)
chicken
(Gallus gallus)
Aves GPN3 34 33
  • 78.4 (n)
OneToOne
lizard
(Anolis carolinensis)
Reptilia GPN3 34
  • 85 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia gpn3 33
  • 78.17 (n)
Str.15832 33
African clawed frog
(Xenopus laevis)
Amphibia Xl.10460 33
zebrafish
(Danio rerio)
Actinopterygii gpn3 34 33
  • 75.27 (n)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta CG2656 34 33
  • 60.71 (n)
OneToOne
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP001152 33
  • 58.03 (n)
worm
(Caenorhabditis elegans)
Secernentea CELE_Y75B8A.14 33
  • 56.39 (n)
Y75B8A.14 34
  • 50 (a)
OneToOne
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes GPN3 36 33
  • 54.01 (n)
-- 34
  • 40 (a)
OneToOne
A. gosspyii yeast
(Ashbya gossypii)
Saccharomycetes AGOS_AGL117C 33
  • 53.94 (n)
K. lactis yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0D18557g 33
  • 53.87 (n)
thale cress
(Arabidopsis thaliana)
eudicotyledons AT4G12790 33
  • 59.97 (n)
rice
(Oryza sativa)
Liliopsida Os03g0337700 33
  • 59.16 (n)
Os.11878 33
barley
(Hordeum vulgare)
Liliopsida Hv.2697 33
sea squirt
(Ciona savignyi)
Ascidiacea CSA.2812 34
  • 55 (a)
OneToOne
Cin.4433 33
bread mold
(Neurospora crassa)
Ascomycetes NCU02658 33
  • 54.81 (n)
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes fet5 33
  • 53.41 (n)
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.4433 33
Species where no ortholog for GPN3 was found in the sources mined by GeneCards:
  • Actinobacteria (Mycobacterium tuberculosis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • beta proteobacteria (Neisseria meningitidis)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • 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 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)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for GPN3 Gene

ENSEMBL:
Gene Tree for GPN3 (if available)
TreeFam:
Gene Tree for GPN3 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for GPN3: view image

Paralogs for GPN3 Gene

(2) SIMAP similar genes for GPN3 Gene using alignment to 5 proteins:

  • GPN3_HUMAN
  • F8W1F4_HUMAN
  • H0YHZ5_HUMAN
  • H0YI19_HUMAN
  • S4R3M7_HUMAN

Pseudogenes.org Pseudogenes for GPN3 Gene

genes like me logo Genes that share paralogs with GPN3: view

No data available for Paralogs for GPN3 Gene

Variants for GPN3 Gene

Sequence variations from dbSNP and Humsavar for GPN3 Gene

SNP ID Clin Chr 12 pos Variation AA Info Type
rs1000234468 -- 110,467,687(-) C/G intron_variant
rs1000288999 -- 110,453,836(-) G/A coding_sequence_variant, synonymous_variant
rs1000308884 -- 110,461,376(-) A/G intron_variant
rs1000350321 -- 110,467,907(-) GTTGTTGT/GTTGT intron_variant
rs1000458476 -- 110,460,920(-) C/T intron_variant

Structural Variations from Database of Genomic Variants (DGV) for GPN3 Gene

Variant ID Type Subtype PubMed ID
nsv973114 CNV duplication 23825009

Variation tolerance for GPN3 Gene

Residual Variation Intolerance Score: 30.2% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.58; 30.52% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for GPN3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
GPN3

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for GPN3 Gene

Disorders for GPN3 Gene

Additional Disease Information for GPN3

No disorders were found for GPN3 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for GPN3 Gene

Publications for GPN3 Gene

  1. The secreted protein discovery initiative (SPDI), a large-scale effort to identify novel human secreted and transmembrane proteins: a bioinformatics assessment. (PMID: 12975309) Clark HF … Gray A (Genome research 2003) 2 3 4 58
  2. Human GTPases associate with RNA polymerase II to mediate its nuclear import. (PMID: 21768307) Carré C … Shiekhattar R (Molecular and cellular biology 2011) 3 4 58
  3. Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3 58
  4. The Gpn3 Q279* cancer-associated mutant inhibits Gpn1 nuclear export and is deficient in RNA polymerase II nuclear targeting. (PMID: 28940195) Barbosa-Camacho AA … Calera MR (FEBS letters 2017) 3 58
  5. Gpn3 is polyubiquitinated on lysine 216 and degraded by the proteasome in the cell nucleus in a Gpn1-inhibitable manner. (PMID: 29029378) Méndez-Hernández LE … Sánchez-Olea R (FEBS letters 2017) 3 58

Products for GPN3 Gene

Sources for GPN3 Gene

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