C8orf46

Chromosome 8 open reading frame 46 (C8orf46) is a protein coding gene, which in humans, is located along the forward strand of chromosome 8.[1] The gene is approximately 58,522 base pairs long, and encodes for 207 amino acids. C8orf46 is found to be highly expressed in regions of the brain and spinal cord.

Chromosome 8 open reading frame 46
Identifiers
Symbols C8orf46
Species Human
HPRD 14565
Ensembl ENSG00000169085
UniProt Q8TAG6
RefSeq (mRNA) NM_152765.3
RefSeq (protein) NP_689978.2
Location 8q13.1

Gene

Location

C8orf46 is found along the plus strand of chromosome 8 (8q13.1) with the genomic sequence beginning at 66,460,003 bp and ending at 66,518,524 bp.[2] The entire gene is 58,522 bp long.[2] C8orf46 is flanked by alcohol dehydrogenase iron containing 1 and v-myb avian myeloblastosis viral oncogene homolog-like.[1]

Gene neighborhood of C8orf46 along the forward strand of chromosome 8.

Homology

Paralogs

No human paralogs for C8orf46 have been identified[1]

Orthologs
Phylogentic tree of select orthologs of the gene C8orf46. Estimated date of divergence is shown.

C8orf46 is found in all classes of vertebrates, including mammals, birds, fish, reptiles and amphibians.[1] While C8orf46 is found in a diverse range of mammals, birds and reptiles, only one amphibian (Xenopus tropicalis) and two fish (Callorhinchus milli and Lepisosteus oculatus) have been found to possess the C8orf46 gene.[1] The most distant ortholog of C8orf46 is in Callorhinchus milli, which diverged from the human version of the gene an estimated 482.9 million years ago.[3] The gene has not been found in any plants, fungi or single celled organisms.[1]

Homologous Domains

The N-terminus and C-terminus are highly conserved regions across both distant and close orthologs. The orthologs of C8orf46 all show conservation of the SH3 protein domain family as well as a domain of unknown function (DUF4648).

mRNA

Splice Variants

C8orf46 does not have any alternative mRNA splice variants. The mature mRNA is approximately 3,741 base pairs in length and contains six exons.[2]

Protein

General Properties
Location of the domain of unknown function and nuclear localization signal along C8orf46 protein.

The protein encoded by C8orf46 is 207 amino acids long, which equates to a molecular weight of 22.6 kdal.[2] The isoelectric point of the protein is 10.42 which indicates the pH of the protein is basic.[4] The protein of C8orf46 does contain a domain of unknown function (DUF4648) and is a part of the SH3 domain family, which is known to bind to proline-rich ligands.[1] The secondary and tertiary structure of this protein is not well known.

Composition

The protein derived from C8orf46 is considered rich in arginine, and poor in phenylalanine compared to the composition of the average human protein.[4] C8orf46 does contain several regions of positively charged runs and has a high concentration of basic amino acids.[4]

Post-Translational Modifications

C8orf46 is predicted to undergo several types of post translational modifications. With a high degree of certainty, it is predicted that C8orf46 undergoes lysine glycation, O-glycosylation, serine, threonine and tyrosine phosphorylation, sumolyation and initial methionine acetylation.[5]

Type of Modification Amino Acid Position Impact on Protein[6]
Glycation of Epsilon Amino Groups of Lysine Lys33, Lys41, Lys124, Lys152. Lys153, Lys193 Impairs enzymatic function of protein.
Initial Methionine Acetylation Met1 Mediates protein stability, sorting and localization.
O-glycosylation Sites Ser25, Ser90, Ser97, Ser102, Ser113, Ser122, Ser126, Ser128 Ser130, Ser148, Ser194, Thr78, Thr101, Thr125, Thr134, Thr155 Regulates transcription and translation factors.
Phosphorylation Sites Ser22, Ser25, Ser26, Ser34, Ser35, Ser97, Ser122, Ser126, Ser130, Ser194, Thr78, Thr83, Thr138, Tyr50, Tyr158, Tyr196 Regulates protein function, cell signaling and enzymatic functions of protein
Sumolyation Sites Lys141, Lys195 Plays a role in nuclear-cytosolic transport, acts as binding site.

Subcellular Location
Conceptual translation of C8orf46 depicts predicted post-translational modification sites.

C8orf46 is predicted to be a nuclear protein, given the classical nuclear localization signal found at amino acids Lys191 to Lys193.[5] C8orf46 does not contain any transmembrane domains or signal peptides suggesting that it is an intracellular protein.[5]

Expression
Image from Allen Brain Atlas shows the areas of elevated expression of C8orf46 in the brain.[7]

C8orf46 has shown to be ubiquitously expressed in the body. The gene is expressed in 13 different types of tissue throughout the body, with the brain, spinal cord and nerves showing elevated expression of the gene.[8] Specifically, the isocortex and hippocampal formation areas of the brain show high levels of expression. In addition to healthy tissue, C8orf46 is also found in several disease states. These disease states include chondrosarcoma, glioma, kidney tumors, liver tumors, and germ cell tumors.[8] C8orf46 is only expressed in infants and adults.[8]

Regulation of Expression

Promoter

The promoter region of C8orf46, GXP_80707, is approximately 1,044 bp in length.[9] The promoter sequence begins at 66,492,708 bp and ends at 66,493,751 bp.[9] There are several important transcription factors that are predicted to bind to the promoter sequence of C8orf46. The most common transcription factors include; HMG box-containing protein 1, repressive glucocorticoid receptor, cAMP-responsive binding protein and Homeo domain factor Pbx-1.[9]

Clinical Significance

C8orf46 has been associated with breast cancer in humans. The gene has been researched in connection with estrogen receptor 1- enhancer (ESR1), whose expression determines if a breast cancer patient receives endocrine therapy.[10] It is predicted that C8orf46 has ESR1 enhancer regions that become hypermethylated and promote acquired endocrine resistance in breast cancer.[10]

gollark: I get a bunch of zgrab requests too, weird.
gollark: Hey, the server which tried something with osmarks.tk has *SSH* open, too!
gollark: Would that *work* over tor?
gollark: Ran what, massscan?
gollark: Palindromic strings: strings are terminated with themselves, backward.

References
  1. "C8orf46 chromosome 8 open reading frame 46 [Homo sapiens (human)] - Gene - NCBI". www.ncbi.nlm.nih.gov. Retrieved 2016-04-25.
  2. "www.genecards.org/cgi-bin/carddisp.pl?gene=C8orf46". www.genecards.org. Retrieved 2016-04-25.
  3. "TimeTree :: The Timescale of Life". www.timetree.org. Retrieved 2016-05-09.
  4. "SDSC Biology Workbench".
  5. "ExPASy: SIB Bioinformatics Resource Portal - Home". www.expasy.org. Retrieved 2016-04-25.
  6. "Overview of Post-Translational Modification". www.thermofisher.com. Retrieved 2016-05-09.
  7. "ISH Data :: Allen Brain Atlas: Developing Mouse Brain" Check |url= value (help). developingmouse.brain-map.org. Retrieved 2016-05-09.
  8. "EST Profile - Hs.268869". www.ncbi.nlm.nih.gov. Retrieved 2016-05-09.
  9. "ElDorado Introduction". www.genomatix.de. Retrieved 2016-05-09.
  10. Stone, Andrew; Zotenko, Elena; Locke, Warwick J.; Korbie, Darren; Millar, Ewan K. A.; Pidsley, Ruth; Stirzaker, Clare; Graham, Peter; Trau, Matt (2015-07-14). "DNA methylation of oestrogen-regulated enhancers defines endocrine sensitivity in breast cancer". Nature Communications. 6: 7758. doi:10.1038/ncomms8758. PMC 4510968. PMID 26169690.

Further reading
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