OGFOD1

OGFOD1
Available structures PDB Ortholog search: PDBe RCSB List of PDB id codes 4NHX, 4NHY
Identifiers
Aliases	OGFOD1 , TPA1, 2-oxoglutarate and iron dependent oxygenase domain containing 1
External IDs	OMIM: 615857 MGI: 2442978 HomoloGene: 41238 GeneCards: OGFOD1
Gene location (Human) Chr. Chromosome 16 (human) [1] Band 16q13 Start 56,451,521 bp [1] End 56,479,104 bp [1]
Gene location (Mouse) Chr. Chromosome 8 (mouse) [2] Band 8|8 C5 Start 94,763,826 bp [2] End 94,794,549 bp [2]
RNA expression pattern Bgee Human Mouse (ortholog) Top expressed in oocyte gastrocnemius muscle secondary oocyte biceps brachii tibialis anterior muscle deltoid muscle vastus lateralis muscle stromal cell of endometrium islet of Langerhans Achilles tendon Top expressed in ventromedial nucleus paraventricular nucleus of hypothalamus lateral hypothalamus superior colliculus ventral tegmental area Region I of hippocampus proper dorsomedial hypothalamic nucleus spermatid otolith organ dorsal tegmental nucleus More reference expression data BioGPS n/a
Gene ontology Molecular function 2-oxoglutarate-dependent dioxygenase activity L-ascorbic acid binding iron ion binding oxidoreductase activity dioxygenase activity oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen peptidyl-proline dioxygenase activity peptidyl-proline 3-dioxygenase activity metal ion binding Cellular component cytoplasmic stress granule nucleus cytoplasm cytosol Biological process regulation of translational termination cell population proliferation peptidyl-proline hydroxylation protein hydroxylation stress granule assembly Sources:Amigo / QuickGO
Orthologs Species Human Mouse Entrez 55239 270086 Ensembl ENSG00000087263 ENSMUSG00000033009 UniProt Q8N543 Q3U0K8 RefSeq (mRNA) NM_018233 NM_001324357 NM_001324358 NM_001324359 NM_001324360 NM_001324361 NM_001324362 NM_001324363 NM_001093757 NM_177767 RefSeq (protein) NP_001311286 NP_001311287 NP_001311288 NP_001311289 NP_001311290 NP_001311291 NP_001311292 NP_060703 NP_001087226 NP_808435 Location (UCSC) Chr 16: 56.45 – 56.48 Mb Chr 8: 94.76 – 94.79 Mb PubMed search [3] [4]
Wikidata
View/Edit Human View/Edit Mouse

2-oxoglutarate and iron-dependent oxygenase domain containing 1, also known as OGFOD1, is a human gene. ^[5]

Model organisms

Ogfod1 knockout mouse phenotype

Characteristic	Phenotype
Homozygote viability	Normal
Fertility	Normal
Body weight	Normal
Anxiety	Normal
Neurological assessment	Normal
Grip strength	Normal
Hot plate	Normal
Dysmorphology	Normal
Indirect calorimetry	Normal
Glucose tolerance test	Normal
Auditory brainstem response	Normal
DEXA	Normal
Radiography	Normal
Body temperature	Normal
Eye morphology	Normal
Clinical chemistry	Normal
Haematology	Normal
Peripheral blood lymphocytes	Normal
Micronucleus test	Normal
Heart weight	Normal
Tail epidermis wholemount	Normal
Skin Histopathology	Normal
Brain histopathology	Normal
Salmonella infection	Normal [6]
Citrobacter infection	Normal [7]
All tests and analysis from [8] [9]

Model organisms have been used in the study of OGFOD1 function. A conditional knockout mouse line, called Ogfod1^{tm1a(KOMP)Wtsi [10] [11]} was generated as part of the International Knockout Mouse Consortium program — a high-throughput mutagenesis project to generate and distribute animal models of disease to interested scientists — at the Wellcome Trust Sanger Institute. ^{[12] [13] [14]} Male and female animals underwent a standardized phenotypic screen to determine the effects of deletion. ^{[8] [15]} Twenty five tests were carried out on homozygous mutant adult mice, however no significant abnormalities were observed. ^[8]

References

1. GRCh38: Ensembl release 89: ENSG00000087263 - Ensembl, May 2017
2. GRCm38: Ensembl release 89: ENSMUSG00000033009 - Ensembl, May 2017
3. "Human PubMed Reference:". National Center for Biotechnology Information, U.S. National Library of Medicine.
4. "Mouse PubMed Reference:". National Center for Biotechnology Information, U.S. National Library of Medicine.
5. "Entrez Gene: 2-oxoglutarate and iron-dependent oxygenase domain containing 1" . Retrieved 2011-08-30.
6. "Salmonella infection data for Ogfod1". Wellcome Trust Sanger Institute.
7. "Citrobacter infection data for Ogfod1". Wellcome Trust Sanger Institute.
8. Gerdin AK (2010). "The Sanger Mouse Genetics Programme: High throughput characterisation of knockout mice". Acta Ophthalmologica. 88 (S248). doi:10.1111/j.1755-3768.2010.4142.x. S2CID   85911512.
9. Mouse Resources Portal, Wellcome Trust Sanger Institute.
10. "International Knockout Mouse Consortium".
11. "Mouse Genome Informatics".
12. Skarnes WC, Rosen B, West AP, Koutsourakis M, Bushell W, Iyer V, Mujica AO, Thomas M, Harrow J, Cox T, Jackson D, Severin J, Biggs P, Fu J, Nefedov M, de Jong PJ, Stewart AF, Bradley A (Jun 2011). "A conditional knockout resource for the genome-wide study of mouse gene function". Nature. 474 (7351): 337–42. doi:10.1038/nature10163. PMC   3572410 . PMID   21677750.
13. Dolgin E (Jun 2011). "Mouse library set to be knockout". Nature. 474 (7351): 262–3. doi:10.1038/474262a. PMID   21677718. S2CID   39281705.
14. Collins FS, Rossant J, Wurst W (Jan 2007). "A mouse for all reasons". Cell. 128 (1): 9–13. doi: 10.1016/j.cell.2006.12.018 . PMID   17218247. S2CID   18872015.
15. van der Weyden L, White JK, Adams DJ, Logan DW (2011). "The mouse genetics toolkit: revealing function and mechanism". Genome Biology. 12 (6): 224. doi: 10.1186/gb-2011-12-6-224 . PMC   3218837 . PMID   21722353.

Further reading

• Saito K, Adachi N, Koyama H, Matsushita M (Aug 2010). "OGFOD1, a member of the 2-oxoglutarate and iron dependent dioxygenase family, functions in ischemic signaling". FEBS Letters. 584 (15): 3340–7. doi:10.1016/j.febslet.2010.06.015. PMID   20579638. S2CID   22010617.
• Nagase T, Kikuno R, Nakayama M, Hirosawa M, Ohara O (Aug 2000). "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". DNA Research. 7 (4): 273–81. doi: 10.1093/dnares/7.4.271 . PMID   10997877.
• Wehner KA, Schütz S, Sarnow P (Apr 2010). "OGFOD1, a novel modulator of eukaryotic translation initiation factor 2alpha phosphorylation and the cellular response to stress". Molecular and Cellular Biology. 30 (8): 2006–16. doi:10.1128/MCB.01350-09. PMC   2849474 . PMID   20154146.
• Barbe L, Lundberg E, Oksvold P, Stenius A, Lewin E, Björling E, Asplund A, Pontén F, Brismar H, Uhlén M, Andersson-Svahn H (Mar 2008). "Toward a confocal subcellular atlas of the human proteome". Molecular & Cellular Proteomics. 7 (3): 499–508. doi: 10.1074/mcp.M700325-MCP200 . PMID   18029348.