C21orf62: Difference between revisions

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{{Infobox_gene}}
[[File:Predicted Structure of C21orf62 Gene.png|alt=Predicted protein structure of C21orf62. The highest confidence prediction is at the red end of the structure, and the lowest confidence prediction is at the blue end of the structure.|thumb|Figure 1.<ref name=":9">{{Cite web|url=http://www.sbg.bio.ic.ac.uk/phyre2/html/page.cgi?id=help|title=PHYRE2 Protein Fold Recognition Server|last=Kelley|first=Lawrence|website=www.sbg.bio.ic.ac.uk|access-date=2017-05-07}}</ref>]]
[[File:Predicted Structure of C21orf62 Gene.png|alt=Predicted protein structure of C21orf62. The highest confidence prediction is at the red end of the structure, and the lowest confidence prediction is at the blue end of the structure.|thumb|Figure 1.<ref name=":9">{{Cite web|url=http://www.sbg.bio.ic.ac.uk/phyre2/html/page.cgi?id=help|title=PHYRE2 Protein Fold Recognition Server|last=Kelley|first=Lawrence|website=www.sbg.bio.ic.ac.uk|access-date=2017-05-07}}</ref>]]
'''C21orf62''' is a [[protein]] that, in humans, is encoded by the C21orf62 [[gene]].<ref name=":0">{{Cite web|url=https://www.ncbi.nlm.nih.gov/gene|title=Home - Gene - NCBI|website=www.ncbi.nlm.nih.gov|access-date=2017-05-07}}</ref> C21orf62 is found on [[Chromosome 21 (human)|human chromosome 21]], and it is thought to be expressed in [[Tissue (biology)|tissues]] of the brain and reproductive organs.<ref name=":6">{{Cite web|url=https://www.ncbi.nlm.nih.gov/geoprofiles|title=Home - GEO Profiles - NCBI|website=www.ncbi.nlm.nih.gov|access-date=2017-05-07}}</ref> Additionally, C21orf62 is highly expressed in ovarian surface [[Epithelium|epithelial]] cells during normal [[Regulation of gene expression|regulation]], but is not expressed in cancerous ovarian surface epithelial cells.<ref name=":6" />
'''C21orf62''' is a [[protein]] that, in humans, is encoded by the C21orf62 [[gene]].<ref name=":0">{{Cite web|url=https://www.ncbi.nlm.nih.gov/gene|title=Home - Gene - NCBI|website=www.ncbi.nlm.nih.gov|access-date=2017-05-07}}</ref> C21orf62 is found on [[Chromosome 21 (human)|human chromosome 21]], and it is thought to be expressed in [[Tissue (biology)|tissues]] of the brain and reproductive organs.<ref name=":6">{{Cite web|url=https://www.ncbi.nlm.nih.gov/geoprofiles|title=Home - GEO Profiles - NCBI|website=www.ncbi.nlm.nih.gov|access-date=2017-05-07}}</ref> Additionally, C21orf62 is highly expressed in ovarian surface [[Epithelium|epithelial]] cells during normal [[Regulation of gene expression|regulation]], but is not expressed in cancerous ovarian surface epithelial cells.<ref name=":6" />


== Gene ==
== Gene ==
Common [[aliases]] of C21orf62 are C21orf120, PRED81, and B37.<ref name=":0" /> C21orf62 is located on chromosome 21 in humans, and is specifically at the [[Locus (genetics)|q22.11 position]].<ref>{{Cite web|url=http://www.genecards.org/cgi-bin/carddisp.pl?gene=C21orf62#localization|title=C21orf62 Gene - GeneCards {{!}} CU062 Protein {{!}} CU062 Antibody|last=Database|first=GeneCards Human Gene|website=www.genecards.org|access-date=2017-05-07}}</ref> The C21orf62 gene is 4132 [[base pair]]s in length and contains five [[exon]]s.<ref name=":0" />
Common [[aliases]] of C21orf62 are C21orf120, PRED81, and B37.<ref name=":0" /> C21orf62 is located on chromosome 21 in humans, and is specifically at the [[Locus (genetics)|q22.11 position]].<ref>{{Cite web|url=https://www.genecards.org/cgi-bin/carddisp.pl?gene=C21orf62#localization|title=C21orf62 Gene - GeneCards {{!}} CU062 Protein {{!}} CU062 Antibody|last=Database|first=GeneCards Human Gene|website=www.genecards.org|access-date=2017-05-07}}</ref> The C21orf62 gene is 4132 [[base pair]]s in length and contains five [[exon]]s.<ref name=":0" />


== mRNA<ref name=":0" /> ==
== mRNA<ref name=":0" /> ==
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C21orf62 in humans has higher [[cysteine]] and lower [[valine]] concentrations than expected compared to other human proteins. This trend, as showed in Table 1, is the same for other [[mammal]]s. It does not, however, occur in taxa other than ''[[mammal]]ia''.<ref name=":4" />
C21orf62 in humans has higher [[cysteine]] and lower [[valine]] concentrations than expected compared to other human proteins. This trend, as showed in Table 1, is the same for other [[mammal]]s. It does not, however, occur in taxa other than ''[[mammal]]ia''.<ref name=":4" />
{| class="wikitable"
{| class="wikitable"
|+Table 1.<ref name=":4">{{Cite journal|last=Brendel|first=Volker|date=1992|title=Statistical Analysis of PS|url=http://seqtool.sdsc.edu/|journal=Biology Workbench}}</ref> Unusual amino acid concentrations of C21orf62 in humans and orthologs.
|+Table 1.<ref name=":4">{{Cite journal|last=Brendel|first=Volker|date=1992|title=Statistical Analysis of PS|url=http://seqtool.sdsc.edu/|journal=Biology Workbench|access-date=2017-02-06|archive-url=https://web.archive.org/web/20030811031200/http://seqtool.sdsc.edu/#|archive-date=2003-08-11|dead-url=yes|df=}}</ref> Unusual amino acid concentrations of C21orf62 in humans and orthologs.
!Genus and Species
!Genus and Species
!Common Name
!Common Name
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=== Protein structure ===
=== Protein structure ===


The protein structure of C21orf62 in humans consists of a combination of [[Alpha helix|alpha helices]] and [[beta sheet]]s.<ref>{{Cite journal|last=Pearson|first=William R.|date=September 1998|title=CHOFAS Analysis|url=http://seqtool.sdsc.edu/|journal=Biology Workbench}}</ref><ref>{{Cite journal|last=Pappas, Jr.|first=Georgios J.|date=1974–1996|title=PELE: Protein Structure Prediction|url=http://seqtool.sdsc.edu/|journal=Biology Workbench}}</ref> Figure 1 shows a predicted structure of the protein.<ref name=":9" />
The protein structure of C21orf62 in humans consists of a combination of [[Alpha helix|alpha helices]] and [[beta sheet]]s.<ref>{{Cite journal|last=Pearson|first=William R.|date=September 1998|title=CHOFAS Analysis|url=http://seqtool.sdsc.edu/|journal=Biology Workbench|access-date=2017-02-06|archive-url=https://web.archive.org/web/20030811031200/http://seqtool.sdsc.edu/#|archive-date=2003-08-11|dead-url=yes|df=}}</ref><ref>{{Cite journal|last=Pappas, Jr.|first=Georgios J.|date=1974–1996|title=PELE: Protein Structure Prediction|url=http://seqtool.sdsc.edu/|journal=Biology Workbench|access-date=2017-02-06|archive-url=https://web.archive.org/web/20030811031200/http://seqtool.sdsc.edu/#|archive-date=2003-08-11|dead-url=yes|df=}}</ref> Figure 1 shows a predicted structure of the protein.<ref name=":9" />


=== Post-translational modifications ===
=== Post-translational modifications ===


C21orf62 has a [[Myristoylation|myristoylation site]] from amino acid 26-31.<ref name=":7">{{Cite web|url=http://myhits.isb-sib.ch/cgi-bin/motif_scan|title=Motif Scan|website=myhits.isb-sib.ch|language=en|access-date=2017-05-07}}</ref> It has a [[Sumoylation|sumoylation site]] from amino acid 132-135.<ref name=":7" /><ref>{{Cite web|url=http://sumosp.biocuckoo.org/online.php|title=GPS-SUMO 2.0 Online Service|last=The Cucko Workgroup|date=May 1, 2017|website=http://sumosp.biocuckoo.org/online.php|access-date=May 5, 2017}}</ref> Additionally, it has a [[nuclear export signal]] from amino acid 98-104.<ref>{{Cite journal|last=la Cour|first=Tanja et al.|date=2004|title=Analysis and Prediction of Leucine-Rich Nuclear Export Signals|journal=Protein Eng. Des. Sel.|volume=17 (6)|pages=527–536}}</ref>
C21orf62 has a [[Myristoylation|myristoylation site]] from amino acid 26-31.<ref name=":7">{{Cite web|url=http://myhits.isb-sib.ch/cgi-bin/motif_scan|title=Motif Scan|website=myhits.isb-sib.ch|language=en|access-date=2017-05-07}}</ref> It has a [[Sumoylation|sumoylation site]] from amino acid 132-135.<ref name=":7" /><ref>{{Cite web|url=http://sumosp.biocuckoo.org/online.php|title=GPS-SUMO 2.0 Online Service|last=The Cucko Workgroup|date=May 1, 2017|website=sumosp.biocuckoo.org/online.php|access-date=May 5, 2017}}</ref> Additionally, it has a [[nuclear export signal]] from amino acid 98-104.<ref name="pmid15314210">{{cite journal |vauthors = la Cour T, Kiemer L, Mølgaard A, Gupta R, Skriver K, Brunak S |title = Analysis and prediction of leucine-rich nuclear export signals |journal = Protein Eng. Des. Sel. |volume = 17 |issue = 6 |pages = 527–36 |year = 2004 |pmid = 15314210 |doi = 10.1093/protein/gzh062 }}</ref>


== Expression ==
== Expression ==
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!Accession Number<ref name=":1">{{Cite web|url=https://www.ncbi.nlm.nih.gov/protein|title=Home - Protein - NCBI|website=www.ncbi.nlm.nih.gov|access-date=2017-05-07}}</ref>
!Accession Number<ref name=":1">{{Cite web|url=https://www.ncbi.nlm.nih.gov/protein|title=Home - Protein - NCBI|website=www.ncbi.nlm.nih.gov|access-date=2017-05-07}}</ref>
!Amino Acid Sequence Length<ref name=":1" />
!Amino Acid Sequence Length<ref name=":1" />
!Corrected Sequence Identity to Human Protein<ref>{{Cite web|url=https://blast.ncbi.nlm.nih.gov/|title=BLAST: Basic Local Alignment Search Tool|website=blast.ncbi.nlm.nih.gov|access-date=2017-05-07}}</ref><ref>{{Cite journal|last=Meyers, E.W.|first=Miller, W.|date=1989|title=ALIGN|url=http://seqtool.sdsc.edu/|journal=CABIOS|volume=4|pages=11–17}}</ref>
!Corrected Sequence Identity to Human Protein<ref>{{Cite web|url=https://blast.ncbi.nlm.nih.gov/|title=BLAST: Basic Local Alignment Search Tool|website=blast.ncbi.nlm.nih.gov|access-date=2017-05-07}}</ref><ref>{{Cite journal|last=Meyers, E.W.|first=Miller, W.|date=1989|title=ALIGN|url=http://seqtool.sdsc.edu/|journal=CABIOS|volume=4|pages=11–17|access-date=2017-02-06|archive-url=https://web.archive.org/web/20030811031200/http://seqtool.sdsc.edu/#|archive-date=2003-08-11|dead-url=yes|df=}}</ref>
|-
|-
|''[[Homo sapiens]]''
|''[[Homo sapiens]]''

Revision as of 12:11, 15 November 2018

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Identifiers
Aliases
External IDsGeneCards: [1]
Orthologs
SpeciesHumanMouse
Entrez

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Ensembl

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UniProt

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RefSeq (mRNA)

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RefSeq (protein)

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Location (UCSC)n/an/a
PubMed searchn/an/a
Wikidata
View/Edit Human
Predicted protein structure of C21orf62. The highest confidence prediction is at the red end of the structure, and the lowest confidence prediction is at the blue end of the structure.
Figure 1.[1]

C21orf62 is a protein that, in humans, is encoded by the C21orf62 gene.[2] C21orf62 is found on human chromosome 21, and it is thought to be expressed in tissues of the brain and reproductive organs.[3] Additionally, C21orf62 is highly expressed in ovarian surface epithelial cells during normal regulation, but is not expressed in cancerous ovarian surface epithelial cells.[3]

Gene

Common aliases of C21orf62 are C21orf120, PRED81, and B37.[2] C21orf62 is located on chromosome 21 in humans, and is specifically at the q22.11 position.[4] The C21orf62 gene is 4132 base pairs in length and contains five exons.[2]

mRNA[2]

The mRNA sequence of C21orf62 in humans has one known isoform. This isoform is called uncharacterized protein C21orf62 isoform X1. This isoform is 458 base pairs, or 104 amino acids, in length, and it is significantly shorter than the most observed sequence of C21orf62 in humans. In addition to having an isoform, C21orf62 also has splice variants. All splice variants encode the same gene, but the differences in splice variant sequences occur in the 5' untranslated region of the mRNA sequence.

Protein

General protein characteristics

The C21orf62 protein in humans has a sequence that is 219 amino acids in length.[5] The primary sequence of C21orf62 in humans has a molecular weight of 24.9 kDa and an isoelectric point of 8.[6][7] When it's cleavable signal peptide, which spans amino acids 1-19, is removed, it has a molecular weight of 22.8 kDa and an isoelectric point of 7.8.[6][7][8][9]

Protein composition

C21orf62 in humans has higher cysteine and lower valine concentrations than expected compared to other human proteins. This trend, as showed in Table 1, is the same for other mammals. It does not, however, occur in taxa other than mammalia.[10]

Table 1.[10] Unusual amino acid concentrations of C21orf62 in humans and orthologs.
Genus and Species Common Name Organism Clade % Cysteine Amino Acid Concentration of Cysteine Compared to Expected % Valine Amino Acid Concentration of Valine Compared to Expected Other Amino Acids with High or Low Concentration Compared to Expected
Homo sapiens Human Mammalia 4.6% High 3.2% Low -
Mus musculus House Mouse Mammalia 4.3% High 3.5% Low Glutamic Acid (1.7%, low)
Canis lupus familiaris Dog Mammalia 4.1% High 2.7% Low Leucine (14.2%, high)
Physeter catodon Sperm Whale Mammalia 4.6% High 4.1% Expected Serine (11.9%, high)
Gallus gallus Chicken Aves 3.1% Expected 6.7% Expected Alanine (2.2%, low)

Glycine (3.1%, low)

Proline (1.8%, low)

Phenylalanine (7.1%, high)

Serine (12.4%, high)

Threonine (9.8%)

Chelonia mydas Green Sea Turtle Reptilia 3.6% Expected 5.8% Expected Alanine (1.8%, low)

Serine (11.2%, high)

Protein structure

The protein structure of C21orf62 in humans consists of a combination of alpha helices and beta sheets.[11][12] Figure 1 shows a predicted structure of the protein.[1]

Post-translational modifications

C21orf62 has a myristoylation site from amino acid 26-31.[13] It has a sumoylation site from amino acid 132-135.[13][14] Additionally, it has a nuclear export signal from amino acid 98-104.[15]

Expression

Tissue expression

C21orf62 is expressed in human tissues of the brain and reproductive organs.[2]

Expression level

C21orf62 in humans is moderately expressed in the brain, kidneys, pancreas, prostate, testes, and ovaries.[2][16][17]

Regulation of expression

C21orf62 is expressed during blastocyst, fetus, and adult states of human development.[16] It is overexpressed during some tumor states, including pancreatic, gastrointestinal, germ cell, and glioma tumors.[16]

Function

The specific function of C21orf62 in humans is not yet well understood.[2]

Interacting proteins

C21orf62 is thought to potentially interact with nine other proteins.[18] These interactions are shown in Table 2, and they were found through text mining.

Table 2.[18] Proteins with Evidence of Interaction with C21orf62
Protein Full Name Protein Name Symbol Brief Protein Description[2]
BCL2 Interacting Protein Like BNIPL May function as a bridge molecule that promotes cell death.
Thymosin Beta 4, X-linked Pseudogene 4 TMSB4XP4 Potentially influences actin polymerization.
Synovial Sarcoma X Family Member 4 SSX4 May function as a repressor of transcription, and can be useful targets in cancer vaccine-based immunotherapy.
Crystallin Beta A2 CRYBA2 A major protein in vertebrate eyes that maintains lens transparency and reflective index.
Oral Cancer Overexpressed 1 ORAOV1 A gene that is frequently overexpressed in esophageal squamous cell cancer.
Oligodendrocyte Transcription Factor 1 OLIG1 May be expressed during the time from process extension through membrane maintenance in oligodendrocytes.
PAX3 and PAX7 Binding Protein 1 GCFC1 (PAXBP1) The encoded protein potentially binds to GC-rich DNA sequences. It is suggested that this gene is involved in the regulation of transcription.
Relaxin/Insulin Like Family Peptide Receptor 1 and 2 RXFP1 and RXFP2 Encoded protein is a receptor for the protein hormone relaxin that influences sperm motility and pregnancy.

Clinical significance

C21orf62 over or under expression is linked to some types of cancerous cells and tumors.[3][16]

Homology

Paralogs

There are no known paralogs of C21orf62 in humans at this time.[2]

Orthologs

There are currently 193 organisms that are known to be orthologs of C21orf62.[2] The orthologs of C21orf62 are deuterostome animals in the clade Chordata.[2] Table 3 shows a range of C21orf62 orthologs, their NCBI accession numbers, sequence lengths, and sequence identity to the C21orf62 human protein. At this time, C21orf62 is not known to have any protostome or invertebrate orthologs.[2]

Table 3. Orthologs of Human Protein C21orf62
Genus and Species Common Name Organism Clade Estimated Date of Divergence from Humans (Millions of Years Ago)[19] Accession Number[5] Amino Acid Sequence Length[5] Corrected Sequence Identity to Human Protein[20][21]
Homo sapiens Human mammalia 0 NP_001155967.2 219 100%
Mus musculus House Mouse mammalia 90 NP_083181.1 230 68.2%
Meleagris gallopavo Wild Turkey aves 312 XP_010721230.1 225 56.4%
Chelonia mydas Green Sea Turtle reptilia 312 XP_007063646.1 224 60.8%
Xenopus tropicalis Western Clawed Frog tetrapoda 352 NP_001004889.1 207 48.9%
Latimeria chalumnae West Indian Ocean Coelacanth sarcopterygii 413 XP_005993681.2 237 45.0%
Ictalurus punctatus Channel Catfish actinopterygii 435 XP_017326002.1 214 29.6%
Callorhinchus milii Australian Ghostshark condrichthyes 473 XP_007904174.1 222 40.4%
The rate of evolution in C21orf62 is graphed alongside the evolution rate of cytochrome C and fibrinogen.
Figure 2.[5] Evolution of C21orf62 in humans over time.

Evolution rate

C21orf62 has an evolution rate that is faster than cytochrome C and fibrinogen. Figure 2 shows the rate of evolution of the C21orf62 gene over the past 473 million years.

External links

References

  1. ↑ 1.0 1.1 Kelley, Lawrence. "PHYRE2 Protein Fold Recognition Server". www.sbg.bio.ic.ac.uk. Retrieved 2017-05-07.
  2. ↑ 2.00 2.01 2.02 2.03 2.04 2.05 2.06 2.07 2.08 2.09 2.10 2.11 "Home - Gene - NCBI". www.ncbi.nlm.nih.gov. Retrieved 2017-05-07.
  3. ↑ 3.0 3.1 3.2 "Home - GEO Profiles - NCBI". www.ncbi.nlm.nih.gov. Retrieved 2017-05-07.
  4. ↑ Database, GeneCards Human Gene. "C21orf62 Gene - GeneCards | CU062 Protein | CU062 Antibody". www.genecards.org. Retrieved 2017-05-07.
  5. ↑ 5.0 5.1 5.2 5.3 "Home - Protein - NCBI". www.ncbi.nlm.nih.gov. Retrieved 2017-05-07.
  6. ↑ 6.0 6.1 Kramer, Jack (1990). "AASTATS". Biology Workbench.
  7. ↑ 7.0 7.1 Toldo, Luca. "PI Isoelectric Point Determination Program". Biology Workbench.
  8. ↑ "PSORT II server - GenScript". www.genscript.com. Retrieved 2017-05-07.
  9. ↑ Charpilloz, Jean-Luc Falcone & Christophe. "TERMINUS - Welcome to terminus". terminus.unige.ch. Retrieved 2017-05-07.
  10. ↑ 10.0 10.1 Brendel, Volker (1992). "Statistical Analysis of PS". Biology Workbench. Archived from the original on 2003-08-11. Retrieved 2017-02-06.
  11. ↑ Pearson, William R. (September 1998). "CHOFAS Analysis". Biology Workbench. Archived from the original on 2003-08-11. Retrieved 2017-02-06.
  12. ↑ Pappas, Jr., Georgios J. (1974–1996). "PELE: Protein Structure Prediction". Biology Workbench. Archived from the original on 2003-08-11. Retrieved 2017-02-06.
  13. ↑ 13.0 13.1 "Motif Scan". myhits.isb-sib.ch. Retrieved 2017-05-07.
  14. ↑ The Cucko Workgroup (May 1, 2017). "GPS-SUMO 2.0 Online Service". sumosp.biocuckoo.org/online.php. Retrieved May 5, 2017.
  15. ↑ la Cour T, Kiemer L, Mølgaard A, Gupta R, Skriver K, Brunak S (2004). "Analysis and prediction of leucine-rich nuclear export signals". Protein Eng. Des. Sel. 17 (6): 527–36. doi:10.1093/protein/gzh062. PMID 15314210.
  16. ↑ 16.0 16.1 16.2 16.3 "Home - UniGene - NCBI". www.ncbi.nlm.nih.gov. Retrieved 2017-05-07.
  17. ↑ "The Human Protein Atlas". www.proteinatlas.org. Retrieved 2017-05-07.
  18. ↑ 18.0 18.1 "STRING: functional protein association networks". string-db.org. Retrieved 2017-05-07.
  19. ↑ "TimeTree :: The Timescale of Life". timetree.org. Retrieved 2017-05-07.
  20. ↑ "BLAST: Basic Local Alignment Search Tool". blast.ncbi.nlm.nih.gov. Retrieved 2017-05-07.
  21. ↑ Meyers, E.W., Miller, W. (1989). "ALIGN". CABIOS. 4: 11–17. Archived from the original on 2003-08-11. Retrieved 2017-02-06.
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