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C16orf82

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C16orf82
Identifiers
AliasesC16orf82, TNT, chromosome 16 open reading frame 82
External IDsHomoloGene: 82387; GeneCards: C16orf82; OMA:C16orf82 - orthologs
Orthologs
SpeciesHumanMouse
Entrez

162083

n/a

Ensembl

ENSG00000234186

n/a

UniProt

Q7Z2V1

n/a

RefSeq (mRNA)

NM_182831
NM_001145545

n/a

RefSeq (protein)

NP_001139017

n/a

Location (UCSC)Chr 16: 27.07 – 27.07 Mbn/a
PubMed search[2]n/a
Wikidata
View/Edit Human

C16orf82 is a protein that, in humans, is encoded by the C16orf82 gene.[3] C16orf82 encodes a 2285 nucleotide mRNA transcript which is translated into a 154 amino acid protein using a non-AUG (CUG) start codon. The gene has been shown to be largely expressed in the testis, tibial nerve, and the pituitary gland, although expression has been seen throughout a majority of tissue types.[4][5][6] The function of C16orf82 is not fully understood by the scientific community.[7]

Gene

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Locus

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C16orf82 is located in humans at locus 16p12.1 on the positive strand.

General features

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The gene encodes for a 2285 nucleotide mRNA transcript that is intronless. Human intronless genes represent a unique subset of the genome that are often involved in signaling, sperm formation, immune responses, or development.[8] C16orf82 being such a gene indicates it may play a role in one of these processes. Translation of C16orf82 initiates at a non-AUG (CUG) start codon. The presence of the non-canonical start codon suggests possible increased regulation of C16orf82 translation and/or possibly could allow for the translation of protein products that start with leucine instead of methionine as seen in proteins coded for by some genes present in the major histocompatibility complex.[9][10]

DNA level regulation

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Promoter

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The C16orf82 promoter region has been predicted to contain a number of transcription factor binding sites including binding sites for transcription factors within the SOX family.[11] The presence of the SOX family transcription binding sites suggests that C16orf82 may play a role in sex determination.[12] Actual transcription factor functional studies show binding of the C16ORF82 promoter by ARNT, ELF5, SMAD4, and STAT3.[13]

Expression

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C16orf82 expression in humans has been observed in major organ systems including the heart, liver, brain, and kidney at a constant level.[14] The tissue in which C16orf82 has been seen to be most highly expressed has been the testis, both by microarray experiments as well as RNA-seq.[4][5] C16orf82 expression is also highly variable between individuals, with some expressing the gene in large amounts while others barely express the gene within the same tissue type.[6][15] Micro RNA (miR-483) over expression has been shown to knock down C16orf82 expression.[16]

Protein

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General features

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The C16orf82 protein is 154 amino acids in length with an approximate molecular weight of 16.46 kDa with a predicted isoelectric point of 6.06.[17] There are no known variants or isoforms of C16orf82.

Domains

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C16orf82 contains one domain, DUF4694, which currently has a function that is uncharacterized. The domain spans from amino acid 8 to amino acid 153.[18] DUF4694 contains a SSGY (serine-serine-glycine-tyrosine) sequence motif that is found in a majority of the protein's orthologs.[19][20] There is no presence of a transmembrane domain thus the protein is not a transmembrane protein.[21]

Cellular localization

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A conceptual diagram of C16orf82's structure. The flags represent sites of predicted phosphorylation and O-linked glycosylation. Grey flags represent phosphorylation sites and red flags represent sites of overlap between phosphorylation and O-linked glycosylation.[3][22]

The localization of C16orf82 within a cell has been predicted to be nuclear.[21] A bipartite nuclear localization signal can be found starting at Arg107.

One of the predicted 3D models of the human C16orf82 protein.[23][24][25]

Post-translational modifications

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The human C16orf82 protein has been predicted to be phosphorylated at a number of serine residues.[26] O-linked glycosylation has also been predicted to happen at a number of sites, including some that overlap with the aforementioned phosphorylation sites.[27] The sites of overlap between the two types of post-translational modifications could play important regulatory roles in the activity and lifespan of the human C16orf82 protein.[28]

Secondary structure

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The secondary structure of the human C16orf82 protein has been predicted to be largely disordered by a number of modeling programs.[29][30][31][32]

Evolution/homology

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Paralogs

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No paralogs of C16orf82 exist within humans.[20]

Orthologs

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C16orf82 has over 100 predicted orthologs, which all reside in the class mammalia and more precisely the subclass eutheria.[33][20] All of the orthologs contained the domain DUF4964.[33] The most distant ortholog detected was within the nine-banded armadillo (Dasypus novemcinctus) within the order Cingluata. Below is a table of 20 orthologs from various orders within the subclass eutheria with the sequence identity and time since divergence in relation to humans.

Genus and Species Common Name Date of divergence (Mya)[34] Accession number[35] Protein Sequence length [35] Sequence Identity (%)
Homo sapiens Human 0 NP_001139017.1 154 100
Gorilla gorilla gorilla Gorilla 9.06 XP_004057433.1 217 97
Saimiri boliviensis boliviensis Bolivian squirrel monkey 43.2 XP_003945340.1 217 81
Carlito syrichta Philippine tarsier 67.1 XP_008059656.1 194 54
Tupaia chinensis Chinese tree shrew 82 XP_006148346.2 211 54
Ochotona princeps American pika 90 XP_004587173.1 184 46
Oryctolagus cuniculus Rabbit 90 XP_008256138.1 207 49
Microtus ochrogaster Prairie Vole 90 XP_005372535.1 180 48
Fukomys damarensis Damara mole-rat 90 XP_010621795.1 188 47
Enhydra lutris kenyoni Northern Sea Otter 96 XP_022382137.1 168 46
Mustela putorius furo domestic ferret 96 XP_012901961.1 173 46
Canis lupus familiaris Dog 96 NP_001139232.1 158 50
Condylura cristata star-nosed mole 96 XP_004696008.1 199 40
Bos taurus Cattle 96 NP_001139230.1 156 56
Bison bison bison American Bison 96 XP_010835728.1 197 55
Capra hircus Goat 96 XP_013830092.1 201 54
Balaenoptera acutorostrata scammoni Minke Whale 96 XP_007187042.1 206 52
Equus Caballus Horse 96 N/A 153 47
Hipposideros armiger Great Roundleaf Bat 96 XP_019505352.1 192 63
Loxodonta africana African savanna elephant 105 XP_023414770.1 183 53
Dasypus novemcinctus nine-banded armadillo 105 XP_012377635.1 238 49

Rate of evolution

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Graph of the adjusted protein sequence divergence of C16orf82, cytochrome C, and fibrinogen using species which contain C16orf82 orthologs.[20][36]

C16orf82's rate of evolution was determined to be relatively fast even in comparison to fibrinogen, a gene that has been shown to evolve quickly.[36]

Clinical significance

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Behavioral disorders

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C16orf82 has been associated with Schizophrenia through a genome-wide association study and autism based on copy number variation analysis.[37][38] Currently, research has not shown if C16orf82 plays any direct role in either of these disorders.

References

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  8. ^ Grzybowska EA (July 2012). "Human intronless genes: functional groups, associated diseases, evolution, and mRNA processing in absence of splicing". Biochemical and Biophysical Research Communications. 424 (1): 1–6. doi:10.1016/j.bbrc.2012.06.092. PMID 22732409.
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  28. ^ Funakoshi Y, Suzuki T (February 2009). "Glycobiology in the cytosol: the bitter side of a sweet world". Biochimica et Biophysica Acta (BBA) - General Subjects. 1790 (2): 81–94. doi:10.1016/j.bbagen.2008.09.009. PMID 18952151.
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  34. ^ Kumar S, Stecher G, Suleski M, Hedges SB (July 2017). "TimeTree: A Resource for Timelines, Timetrees, and Divergence Times". Molecular Biology and Evolution. 34 (7): 1812–1819. doi:10.1093/molbev/msx116. PMID 28387841.
  35. ^ a b "Home - Protein - NCBI". www.ncbi.nlm.nih.gov. Retrieved 2018-04-23.
  36. ^ a b Zhang J, Yang JR (July 2015). "Determinants of the rate of protein sequence evolution". Nature Reviews. Genetics. 16 (7): 409–20. doi:10.1038/nrg3950. PMC 4523088. PMID 26055156.
  37. ^ McCarthy MJ, Nievergelt CM, Kelsoe JR, Welsh DK (2012-02-22). "A survey of genomic studies supports association of circadian clock genes with bipolar disorder spectrum illnesses and lithium response". PLOS ONE. 7 (2): e32091. Bibcode:2012PLoSO...732091M. doi:10.1371/journal.pone.0032091. PMC 3285204. PMID 22384149.
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