Aliases for OGFOD1 Gene

Aliases for OGFOD1 Gene

  • 2-Oxoglutarate And Iron Dependent Oxygenase Domain Containing 1 2 3 5
  • 2-Oxoglutarate And Iron-Dependent Oxygenase Domain-Containing Protein 1 3 4
  • Termination And Polyadenylation 1 Homolog 3 4
  • Prolyl 3-Hydroxylase OGFOD1 3 4
  • US12 Prolyl 3-Hydroxylase 3 4
  • TPA1 3 4
  • TPA1, Termination And Polyadenylation 1, Homolog (S. Cerevisiae) 2
  • 2-Oxoglutarate And Iron-Dependent Oxygenase Domain Containing 1 2
  • TPA1, Termination And Polyadenylation 1, Homolog 3
  • EC 1.14.11.- 4
  • EC 1.14.11 52
  • KIAA1612 4

External Ids for OGFOD1 Gene

Previous GeneCards Identifiers for OGFOD1 Gene

  • GC16P055043
  • GC16P056488
  • GC16P042355

Summaries for OGFOD1 Gene

GeneCards Summary for OGFOD1 Gene

OGFOD1 (2-Oxoglutarate And Iron Dependent Oxygenase Domain Containing 1) is a Protein Coding gene. Gene Ontology (GO) annotations related to this gene include iron ion binding and oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors.

UniProtKB/Swiss-Prot Summary for OGFOD1 Gene

  • Prolyl 3-hydroxylase that catalyzes 3-hydroxylation of 'Pro-62' of small ribosomal subunit uS12 (RPS23), thereby regulating protein translation termination efficiency. Involved in stress granule formation.

Gene Wiki entry for OGFOD1 Gene

Additional gene information for OGFOD1 Gene

No data available for Entrez Gene Summary , CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for OGFOD1 Gene

Genomics for OGFOD1 Gene

GeneHancer (GH) Regulatory Elements for OGFOD1 Gene

Promoters and enhancers for OGFOD1 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
GH16J056450 Promoter/Enhancer 2 EPDnew Ensembl ENCODE CraniofacialAtlas 522.6 +0.1 84 3.8 FOXK2 ZBTB40 ZNF217 TCF12 POLR2G SP1 GTF2E2 PHF8 ZFX ZNF10 NUDT21 OGFOD1 BBS2 RSPRY1 NUP93 MT4
GH16J056518 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE CraniofacialAtlas dbSUPER 19.9 +68.2 68228 3.1 ZNF217 EP300 SIN3A NRF1 POLR2G PHF8 ZFX ZIC2 POLR2A CLOCK BBS2 OGFOD1 MT3 MT1G MT1H MT1A NUDT21 MT4 lnc-NUDT21-4
GH16J056420 Promoter/Enhancer 2 EPDnew Ensembl ENCODE CraniofacialAtlas 22.1 -27.7 -27738 6.3 CTCF SP1 PHF8 ZFX ZNF10 ZNF423 ZBTB26 TRIM28 TARDBP ZNF740 AMFR lnc-NUDT21-1 piR-43582 piR-32833 BBS2 OGFOD1 LOC105371286 RSPRY1 MT4 piR-47368
GH16J056355 Promoter/Enhancer 1.7 ENCODE CraniofacialAtlas dbSUPER 21.9 -94.5 -94482 2.9 CTCF NRF1 POLR2G SP1 PHB2 ZFX KDM6A GABPA REST ZBTB25 OGFOD1 RSPRY1 NUDT21 MT4 ENSG00000272372 lnc-NUDT21-5 GNAO1
GH16J056370 Enhancer 1.1 Ensembl ENCODE CraniofacialAtlas 32.8 -79.6 -79616 4 ZNF217 TCF12 CLOCK CTBP1 FOXA2 NR2F2 MBD2 POLR2A ESR1 CEBPB OGFOD1 NUDT21 MT4 lnc-NUDT21-5 lnc-NUDT21-2 AMFR
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around OGFOD1 on UCSC Golden Path with GeneCards custom track

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for OGFOD1

Top Transcription factor binding sites by QIAGEN in the OGFOD1 gene promoter:
  • AML1a
  • AP-2alpha
  • AP-2alpha isoform 2
  • AP-2alpha isoform 3
  • AP-2alpha isoform 4
  • AREB6
  • E47
  • GATA-1
  • GATA-6
  • STAT5A

Genomic Locations for OGFOD1 Gene

Genomic Locations for OGFOD1 Gene
chr16:56,451,417-56,479,104
(GRCh38/hg38)
Size:
27,688 bases
Orientation:
Plus strand
chr16:56,485,402-56,513,012
(GRCh37/hg19)
Size:
27,611 bases
Orientation:
Plus strand

Genomic View for OGFOD1 Gene

Genes around OGFOD1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
OGFOD1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for OGFOD1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for OGFOD1 Gene

Proteins for OGFOD1 Gene

  • Protein details for OGFOD1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q8N543-OGFD1_HUMAN
    Recommended name:
    Prolyl 3-hydroxylase OGFOD1
    Protein Accession:
    Q8N543
    Secondary Accessions:
    • H3BUQ2
    • Q9H7U5
    • Q9H9J9
    • Q9HA87
    • Q9HCG0
    • Q9NVB6

    Protein attributes for OGFOD1 Gene

    Size:
    542 amino acids
    Molecular mass:
    63246 Da
    Cofactor:
    Name=Fe(2+); Xref=ChEBI:CHEBI:29033;
    Cofactor:
    Name=L-ascorbate; Xref=ChEBI:CHEBI:38290;
    Quaternary structure:
    • Monomer.
    SequenceCaution:
    • Sequence=BAB13438.1; Type=Erroneous initiation; Note=Extended N-terminus.; Evidence={ECO:0000305}; Sequence=BAB14880.1; Type=Erroneous initiation; Note=Truncated N-terminus.; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for OGFOD1 Gene

    Alternative splice isoforms for OGFOD1 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for OGFOD1 Gene

Selected DME Specific Peptides for OGFOD1 Gene

Q8N543:
  • QIQEEFEE
  • LLCHDDELEGRR
  • EYGGFTSYIAK
  • LSNFTGLKLHFLA
  • PHIPQDHEILY
  • LDFHEKYNDLYKFQQSDDLK
  • LVFFEVSPVSFHQVSEVLS
  • GPPNKRFYEKAEE
  • SRLSISGWF

Post-translational modifications for OGFOD1 Gene

  • Ubiquitination at Lys117
  • Modification sites at PhosphoSitePlus

Domains & Families for OGFOD1 Gene

Gene Families for OGFOD1 Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for OGFOD1 Gene

Suggested Antigen Peptide Sequences for OGFOD1 Gene

GenScript: Design optimal peptide antigens:
  • Termination and polyadenylation 1 homolog (OGFD1_HUMAN)

Graphical View of Domain Structure for InterPro Entry

Q8N543

UniProtKB/Swiss-Prot:

OGFD1_HUMAN :
  • Belongs to the TPA1 family.
Family:
  • Belongs to the TPA1 family.
genes like me logo Genes that share domains with OGFOD1: view

Function for OGFOD1 Gene

Molecular function for OGFOD1 Gene

UniProtKB/Swiss-Prot Function:
Prolyl 3-hydroxylase that catalyzes 3-hydroxylation of 'Pro-62' of small ribosomal subunit uS12 (RPS23), thereby regulating protein translation termination efficiency. Involved in stress granule formation.
UniProtKB/Swiss-Prot CatalyticActivity:
Reaction=2-oxoglutarate + [ribosomal protein uS12]-L-proline + O2 = [ribosomal protein uS12]-(3S)-3-hydroxy-L-proline + CO2 + succinate; Xref=Rhea:RHEA:54156, Rhea:RHEA-COMP:13816, Rhea:RHEA-COMP:13818, ChEBI:CHEBI:15379, ChEBI:CHEBI:16526, ChEBI:CHEBI:16810, ChEBI:CHEBI:30031, ChEBI:CHEBI:50342, ChEBI:CHEBI:85428; Evidence=. ;.

Enzyme Numbers (IUBMB) for OGFOD1 Gene

Phenotypes From GWAS Catalog for OGFOD1 Gene

Gene Ontology (GO) - Molecular Function for OGFOD1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005506 iron ion binding IEA --
GO:0016491 oxidoreductase activity IEA --
GO:0016705 oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen IEA --
GO:0016706 oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors IEA --
GO:0031418 L-ascorbic acid binding IEA --
genes like me logo Genes that share ontologies with OGFOD1: view
genes like me logo Genes that share phenotypes with OGFOD1: view

Animal Models for OGFOD1 Gene

MGI Knock Outs for OGFOD1:
  • Ogfod1 Ogfod1<tm1a(KOMP)Wtsi>
  • Ogfod1 Ogfod1<tm1d(KOMP)Wtsi>

Animal Model Products

CRISPR Products

Clone Products

No data available for Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for OGFOD1 Gene

Localization for OGFOD1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for OGFOD1 Gene

[Isoform 1]: Cytoplasm. Nucleus. Note=Mainly nuclear. A portion relocalizes to cytoplasmic stress granules upon stress.
[Isoform 2]: Cytoplasm.

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 OGFOD1 gene
Compartment Confidence
nucleus 5
cytosol 5
plasma membrane 1
extracellular 1
cytoskeleton 1
mitochondrion 1
endoplasmic reticulum 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Cytosol (3)
  • Nucleoplasm (3)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for OGFOD1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IDA --
GO:0005654 nucleoplasm IDA --
GO:0005737 cytoplasm IBA 21873635
GO:0005829 cytosol IDA --
GO:0010494 cytoplasmic stress granule IMP 24550447
genes like me logo Genes that share ontologies with OGFOD1: view

Pathways & Interactions for OGFOD1 Gene

PathCards logo

SuperPathways for OGFOD1 Gene

No Data Available

Gene Ontology (GO) - Biological Process for OGFOD1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006449 regulation of translational termination IBA,IMP 24550447
GO:0008283 cell proliferation IMP 24550447
GO:0018126 protein hydroxylation IDA 24550447
GO:0019511 peptidyl-proline hydroxylation IDA 24550447
GO:0034063 stress granule assembly IMP 24550447
genes like me logo Genes that share ontologies with OGFOD1: view

No data available for Pathways by source and SIGNOR curated interactions for OGFOD1 Gene

Drugs & Compounds for OGFOD1 Gene

(2) Drugs for OGFOD1 Gene - From: DrugBank and HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Vitamin C Approved Nutra Target 739,739
Iron Approved, Experimental Pharma 1496
genes like me logo Genes that share compounds with OGFOD1: view

Transcripts for OGFOD1 Gene

mRNA/cDNA for OGFOD1 Gene

8 REFSEQ mRNAs :
8 NCBI additional mRNA sequence :
11 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for OGFOD1 Gene

ExUns: 1a · 1b · 1c · 1d ^ 2a · 2b ^ 3a · 3b ^ 4 ^ 5a · 5b ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13
SP1: -
SP2: - -
SP3: -
SP4: - -
SP5:

Relevant External Links for OGFOD1 Gene

GeneLoc Exon Structure for
OGFOD1

Expression for OGFOD1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for OGFOD1 Gene

mRNA differential expression in normal tissues according to GTEx for OGFOD1 Gene

This gene is overexpressed in Muscle - Skeletal (x4.3).

Protein differential expression in normal tissues from HIPED for OGFOD1 Gene

This gene is overexpressed in Cervix (47.2), Breast (10.0), and Plasma (8.3).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for OGFOD1 Gene



Transcriptomic regulation report from SPP (The Signaling Pathways Project) for OGFOD1

SOURCE GeneReport for Unigene cluster for OGFOD1 Gene:

Hs.231883

Evidence on tissue expression from TISSUES for OGFOD1 Gene

  • Nervous system(4.9)
genes like me logo Genes that share expression patterns with OGFOD1: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for OGFOD1 Gene

Orthologs for OGFOD1 Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for OGFOD1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia OGFOD1 31 30
  • 99.14 (n)
OneToOne
dog
(Canis familiaris)
Mammalia OGFOD1 31 30
  • 90.1 (n)
OneToOne
cow
(Bos Taurus)
Mammalia OGFOD1 31 30
  • 87.07 (n)
OneToOne
mouse
(Mus musculus)
Mammalia Ogfod1 17 31 30
  • 84.01 (n)
rat
(Rattus norvegicus)
Mammalia Ogfod1 30
  • 83.64 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia OGFOD1 31
  • 74 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia OGFOD1 31
  • 64 (a)
OneToOne
chicken
(Gallus gallus)
Aves OGFOD1 31 30
  • 67.63 (n)
OneToOne
lizard
(Anolis carolinensis)
Reptilia OGFOD1 31
  • 65 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia ogfod1 30
  • 61.73 (n)
Str.13349 30
African clawed frog
(Xenopus laevis)
Amphibia Xl.4465 30
zebrafish
(Danio rerio)
Actinopterygii ogfod1 31 30
  • 59.99 (n)
OneToOne
wufc33b08 30
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.3158 30
worm
(Caenorhabditis elegans)
Secernentea C17G10.1 31 30
  • 44.78 (n)
OneToOne
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes TPA1 33 31
  • 20 (a)
sea squirt
(Ciona savignyi)
Ascidiacea -- 31
  • 33 (a)
OneToOne
Species where no ortholog for OGFOD1 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)
  • 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)
  • 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 OGFOD1 Gene

ENSEMBL:
Gene Tree for OGFOD1 (if available)
TreeFam:
Gene Tree for OGFOD1 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for OGFOD1: view image

Paralogs for OGFOD1 Gene

Pseudogenes.org Pseudogenes for OGFOD1 Gene

genes like me logo Genes that share paralogs with OGFOD1: view

No data available for Paralogs for OGFOD1 Gene

Variants for OGFOD1 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for OGFOD1 Gene

SNP ID Clinical significance and condition Chr 16 pos Variation AA Info Type
rs34883368 - p.Pro173Ser

Additional dbSNP identifiers (rs#s) for OGFOD1 Gene

Structural Variations from Database of Genomic Variants (DGV) for OGFOD1 Gene

Variant ID Type Subtype PubMed ID
nsv474844 CNV novel sequence insertion 20440878
nsv833243 CNV gain 17160897

Variation tolerance for OGFOD1 Gene

Residual Variation Intolerance Score: 55.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 4.83; 67.11% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for OGFOD1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
OGFOD1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for OGFOD1 Gene

Disorders for OGFOD1 Gene

Additional Disease Information for OGFOD1

No disorders were found for OGFOD1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for OGFOD1 Gene

Publications for OGFOD1 Gene

  1. Prediction of the coding sequences of unidentified human genes. XVIII. The complete sequences of 100 new cDNA clones from brain which code for large proteins in vitro. (PMID: 10997877) Nagase T … Ohara O (DNA research : an international journal for rapid publication of reports on genes and genomes 2000) 2 3 4 54
  2. OGFOD1 catalyzes prolyl hydroxylation of RPS23 and is involved in translation control and stress granule formation. (PMID: 24550447) Singleton RS … Cockman ME (Proceedings of the National Academy of Sciences of the United States of America 2014) 3 4 54
  3. Hydroxylation of the eukaryotic ribosomal decoding center affects translational accuracy. (PMID: 24550462) Loenarz C … Schofield CJ (Proceedings of the National Academy of Sciences of the United States of America 2014) 3 4 54
  4. OGFOD1, a member of the 2-oxoglutarate and iron dependent dioxygenase family, functions in ischemic signaling. (PMID: 20579638) Saito K … Matsushita M (FEBS letters 2010) 3 4 54
  5. OGFOD1, a novel modulator of eukaryotic translation initiation factor 2alpha phosphorylation and the cellular response to stress. (PMID: 20154146) Wehner KA … Sarnow P (Molecular and cellular biology 2010) 3 4 54

Products for OGFOD1 Gene

Sources for OGFOD1 Gene