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{{Underlinked|date=May 2016}}
{{Infobox_gene}}
{{Infobox_gene}}
'''Uncharacterized protein C11orf16''' is a [[protein]] that in humans is encoded by the ''C11orf16'' [[gene]].<ref name="pmid11528127">{{cite journal | vauthors = Amid C, Bahr A, Mujica A, Sampson N, Bikar SE, Winterpacht A, Zabel B, Hankeln T, Schmidt ER | title = Comparative genomic sequencing reveals a strikingly similar architecture of a conserved syntenic region on human chromosome 11p15.3 (including gene ST5) and mouse chromosome 7 | journal = Cytogenet Cell Genet | volume = 93 | issue = 3–4 | pages = 284–90 |date=Aug 2001 | pmid = 11528127 | pmc =  | doi =10.1159/000056999 }}</ref><ref name="entrez">{{cite web | title = Entrez Gene: C11orf16 chromosome 11 open reading frame 16| url = https://www.ncbi.nlm.nih.gov/sites/entrez?Db=gene&Cmd=ShowDetailView&TermToSearch=56673| accessdate = }}</ref>
'''Gene C11orf16''', chromosome 11 open reading frame 16, is a [[protein]] in humans that is encoded by the ''C11orf16'' [[gene]].<ref name="pmid11528127">{{cite journal|vauthors=Amid C, Bahr A, Mujica A, Sampson N, Bikar SE, Winterpacht A, Zabel B, Hankeln T, Schmidt ER|date=Aug 2001|title=Comparative genomic sequencing reveals a strikingly similar architecture of a conserved syntenic region on human chromosome 11p15.3 (including gene ST5) and mouse chromosome 7|journal=Cytogenet Cell Genet|volume=93|issue=3–4|pages=284–90|doi=10.1159/000056999|pmc=|pmid=11528127}}</ref><ref name="entrez">{{cite web|url=https://www.ncbi.nlm.nih.gov/sites/entrez?Db=gene&Cmd=ShowDetailView&TermToSearch=56673|title=Entrez Gene: C11orf16 chromosome 11 open reading frame 16|accessdate=}}</ref> It has 7 exons, and the size of 467 amino acids.
 
==Gene==
===Location===
The gene C11orf16 is located on chromosome 11(p15.4), starting at 8,920,076bp and ending at 8,933,006bp.
[[File:C11orf16.png|thumb|center|458x458px]]
 
===Gene Neighborhood===
Gene [http://www.wikigenes.org/e/gene/e/56787.html ASCL3] and [[AKIP1]] are the neighbor genes of C11orf16 on Chromosome 11.
 
===Expression===
====Human====
The gene does not have high expression throughout the body tissues. The percentile rank within the sample are higher in pancreas, ovary, and appendix.
[[File:Expression of C11orf16.png|thumb|center|506x506px|C11orf16 expression in human body sites extracted from NCBI GEO profile]]
 
====Mouse Brain====
Even though the gene does not have a significant high expression in the mouse brain, it is most expressed in midbrain, isocortex, olfactory areas, and medulla.
 
===Transcription Factors===
Some transcription factors that have the higher martix similarity are Kruppel-like zinc finger protein 219, Zinc finger protein 263, ZKSCAN12 (zinc finger protein with KRAB and SCAN domains 12), chorion-specific transcription factor GCMa, and Ras-responsive element binding protein 1.<ref>{{cite web|title=Genomatix|url=https://www.genomatix.de/?s=f235485dde95ccac200db8865073698a}}</ref>
 
==mRNA==
===[[Isoform]]===
The predicted C11orf16 transcript variant X1 is 2386bp long and has NCBI accession number of XM_017018013.1.<ref>{{cite web|title=NCBI Nucleotide|url=https://www.ncbi.nlm.nih.gov/nuccore/XM_017018013.1}}</ref>
 
==Homology==
===[[Paralogs]]===
No paralogs were found for the C11orf16 gene through NCBI [[BLAST]].
 
===[[Orthologs]]===
{| class="wikitable"
|-
! Description !! Common Name !! NCBI accession ID !! Query Cover !! E value !! Identity !! Date of Divergent (MYA)
|-
| ''[[Homo sapiens]]'' || Human || NP_065694.2 || 100 % || 0 || 100% || N/A
|-
| ''[[Pongo abelii]]'' || Sumatran orangutan || PNJ24628 || 84% || 0 || 95% || 15.2
|-
| ''[[Aotus nancymaae]]'' || Nancy Ma's night monkey || XP_012312127.1 || 88% || 0|| 84% || 42.6
|-
| ''[[Chinchilla lanigera]]'' || Long-tailed chinchilla || XP_013367496.1 || 97% || 0 || 68% || 88
|-
| ''[[Equus przewalskii]]'' || Przewalski's horse || XP_008512245.1 || 98% || 0 || 73% || 94
|-
| ''[[Central European red deer|Cervus elaphus hippelaphus]]'' || Central European red deer || OWK17675.1 || 99% || 0 || 67% || 94
|-
| ''[[Hipposideros armiger]]'' || Great roundleaf bat || XP_019511755.1 || 99% || 0 || 65% || 94
|-
| ''[[Neomonachus schauinslandi]]'' || Hawaiian monk seal || XP_021541375.1 || 99% || 0 || 66% || 94
|-
| ''[[Lipotes vexillifer]]'' || Baiji || XP_007459933.1 || 98% || 0 || 68% || 94
|-
| ''[[Myotis brandtii]]'' || Brandt's bat || XP_005874017.1 || 98% || 1e-174 || 67% || 94
|-
| ''[[Chelonia Mydas|Chelonia mydas]]'' || Green sea turtle || XP_007057171.1 || 83% || 1e-57 || 37% || 320
|-
| ''[[Balearica regulorum gibbericeps]]'' || Grey crowned crane || XP_010311948.1 || 70% || 6e-5 || 40% || 320
|}
 
===Conservation===
The gene C11orf16 is conserved in many animal species including mammals, avians, and reptiles.
[[File:1.BOX.6735.9907.pdf|thumb|The multiple sequence alignment shows the conservation of the gene C11orf16|center|272x272px]]
 
==Protein==
 
===Molecular Weight===
The predicted molecular weight of the protein encoded by C11orf16 is 51 [[kiloDaltons]].<ref>{{cite web|title=Expasy|url=https://web.expasy.org/compute_pi/}}</ref><ref>{{cite web|title=Sigma Antibodies|url=https://www.sigmaaldrich.com/catalog/product/sigma/sab2106115?lang=en&region=US}}</ref>
 
===Domains and Motifs===
Several protein domains and motifs were found including CHD5-like protein, Tyrosine kinase [[phosphorylation site]], Protein kinase C phosphorylation site, N-myristoylation site, Casein kinase II phosphorylation site, and cGMP-dependent protein kinase phosphorylation site.<ref>{{cite web|title=Motif Scan|url=https://myhits.isb-sib.ch/cgi-bin/motif_scan}}</ref> The picture indicates the location of the motifs.
[[File:PROTTER-motifs.png|thumb|241x241px|The predicted motifs of C11orf16 are shown in different colors to the corresponding amino acids]]
 
 
===Secondary Structure===
The protein is predicted to be made up with 21.2% of [[alpha helix]], 15.2% of extended strand, and 63% of [[random coil]].
[[File:Secondary_structure_of_C11orf16.png|thumb|156x156px|The secondary structure of protein C11orf16]]
 
===Post-translational Modifications===
No transmembrane helices<ref>{{cite web|title=TMHMM|url=http://www.cbs.dtu.dk/services/TMHMM/}}</ref>, potential GPI-modification site, and TM-protein were found. There were 7 predicted sumoylation sites<ref>{{cite web|title=SUMOplot|url=http://www.abgent.com/sumoplot}}</ref>, multiple phosporylation cites with most of them being unsp<ref>{{cite web|title=NetPhos|url=http://www.cbs.dtu.dk/services/NetPhos}}</ref>, and 9 glycosylation cites<ref>{{cite web|title=YingOYang|url=http://www.cbs.dtu.dk/services/YinOYang/}}</ref>.
[[File:PROTTER-PTM.png|thumb|Post translational modification of protein C11orf16<ref>{{cite web|title=PROTTER|url=http://wlab.ethz.ch/protter/start/}}</ref>|257x257px]]
 
 
===Subcellular Localization Predictor===
The protein is predicted to be localized to the nucleus with the probability of 47.8%; mitochondria with the probability of 26.1%.<ref>{{cite web|title=PSORTII|url=https://psort.hgc.jp/cgi-bin/runpsort.pl}}</ref>
 
 
===Protein Interaction===
Proteins C1orf105(Chromosome 1 open reading frame105 ), [[PWWP2A]], and SMYD1(SET and MYND domain containing 1) were found to be interacting with C11orf16<ref>{{cite web|title=STRING|url=https://string-db.org/}}</ref>.
 
 
==Clinical Significance==
===Disease Association===
Protein coded by C11orf16 gene is also predicted to have 19.61% sequence identity to [[tumor suppressor p53]]-binding protein suggesting that this gene might be involved with tumor suppressing process<ref>{{cite web|title=SWISS-MODEL|url=https://swissmodel.expasy.org/interactive/c4PYLU/models/}}</ref>.


==References==
==References==
Line 8: Line 99:
==External links==
==External links==
* {{UCSC gene info|C11orf16}}
* {{UCSC gene info|C11orf16}}
* C11orf16 information on [https://www.genecards.org/cgi-bin/carddisp.pl?gene=C11orf16 GeneCards]


==Further reading==
==Further reading==
Line 16: Line 108:
*{{cite journal  | vauthors=Maruyama K, Sugano S |title=Oligo-capping: a simple method to replace the cap structure of eukaryotic mRNAs with oligoribonucleotides |journal=Gene |volume=138 |issue= 1–2 |pages= 171–4 |year= 1994 |pmid= 8125298 |doi=10.1016/0378-1119(94)90802-8  }}
*{{cite journal  | vauthors=Maruyama K, Sugano S |title=Oligo-capping: a simple method to replace the cap structure of eukaryotic mRNAs with oligoribonucleotides |journal=Gene |volume=138 |issue= 1–2 |pages= 171–4 |year= 1994 |pmid= 8125298 |doi=10.1016/0378-1119(94)90802-8  }}
{{refend}}
{{refend}}
 
__FORCETOC__
 
{{gene-11-stub}}

Latest revision as of 21:03, 6 May 2018

VALUE_ERROR (nil)
Identifiers
Aliases
External IDsGeneCards: [1]
Orthologs
SpeciesHumanMouse
Entrez

n/a

n/a

Ensembl

n/a

n/a

UniProt

n/a

n/a

RefSeq (mRNA)

n/a

n/a

RefSeq (protein)

n/a

n/a

Location (UCSC)n/an/a
PubMed searchn/an/a
Wikidata
View/Edit Human

Gene C11orf16, chromosome 11 open reading frame 16, is a protein in humans that is encoded by the C11orf16 gene.[1][2] It has 7 exons, and the size of 467 amino acids.

Gene

Location

The gene C11orf16 is located on chromosome 11(p15.4), starting at 8,920,076bp and ending at 8,933,006bp.

File:C11orf16.png

Gene Neighborhood

Gene ASCL3 and AKIP1 are the neighbor genes of C11orf16 on Chromosome 11.

Expression

Human

The gene does not have high expression throughout the body tissues. The percentile rank within the sample are higher in pancreas, ovary, and appendix.

File:Expression of C11orf16.png
C11orf16 expression in human body sites extracted from NCBI GEO profile

Mouse Brain

Even though the gene does not have a significant high expression in the mouse brain, it is most expressed in midbrain, isocortex, olfactory areas, and medulla.

Transcription Factors

Some transcription factors that have the higher martix similarity are Kruppel-like zinc finger protein 219, Zinc finger protein 263, ZKSCAN12 (zinc finger protein with KRAB and SCAN domains 12), chorion-specific transcription factor GCMa, and Ras-responsive element binding protein 1.[3]

mRNA

Isoform

The predicted C11orf16 transcript variant X1 is 2386bp long and has NCBI accession number of XM_017018013.1.[4]

Homology

Paralogs

No paralogs were found for the C11orf16 gene through NCBI BLAST.

Orthologs

Description Common Name NCBI accession ID Query Cover E value Identity Date of Divergent (MYA)
Homo sapiens Human NP_065694.2 100 % 0 100% N/A
Pongo abelii Sumatran orangutan PNJ24628 84% 0 95% 15.2
Aotus nancymaae Nancy Ma's night monkey XP_012312127.1 88% 0 84% 42.6
Chinchilla lanigera Long-tailed chinchilla XP_013367496.1 97% 0 68% 88
Equus przewalskii Przewalski's horse XP_008512245.1 98% 0 73% 94
Cervus elaphus hippelaphus Central European red deer OWK17675.1 99% 0 67% 94
Hipposideros armiger Great roundleaf bat XP_019511755.1 99% 0 65% 94
Neomonachus schauinslandi Hawaiian monk seal XP_021541375.1 99% 0 66% 94
Lipotes vexillifer Baiji XP_007459933.1 98% 0 68% 94
Myotis brandtii Brandt's bat XP_005874017.1 98% 1e-174 67% 94
Chelonia mydas Green sea turtle XP_007057171.1 83% 1e-57 37% 320
Balearica regulorum gibbericeps Grey crowned crane XP_010311948.1 70% 6e-5 40% 320

Conservation

The gene C11orf16 is conserved in many animal species including mammals, avians, and reptiles.

File:1.BOX.6735.9907.pdf
The multiple sequence alignment shows the conservation of the gene C11orf16

Protein

Molecular Weight

The predicted molecular weight of the protein encoded by C11orf16 is 51 kiloDaltons.[5][6]

Domains and Motifs

Several protein domains and motifs were found including CHD5-like protein, Tyrosine kinase phosphorylation site, Protein kinase C phosphorylation site, N-myristoylation site, Casein kinase II phosphorylation site, and cGMP-dependent protein kinase phosphorylation site.[7] The picture indicates the location of the motifs.

File:PROTTER-motifs.png
The predicted motifs of C11orf16 are shown in different colors to the corresponding amino acids


Secondary Structure

The protein is predicted to be made up with 21.2% of alpha helix, 15.2% of extended strand, and 63% of random coil.

File:Secondary structure of C11orf16.png
The secondary structure of protein C11orf16

Post-translational Modifications

No transmembrane helices[8], potential GPI-modification site, and TM-protein were found. There were 7 predicted sumoylation sites[9], multiple phosporylation cites with most of them being unsp[10], and 9 glycosylation cites[11].

File:PROTTER-PTM.png
Post translational modification of protein C11orf16[12]


Subcellular Localization Predictor

The protein is predicted to be localized to the nucleus with the probability of 47.8%; mitochondria with the probability of 26.1%.[13]


Protein Interaction

Proteins C1orf105(Chromosome 1 open reading frame105 ), PWWP2A, and SMYD1(SET and MYND domain containing 1) were found to be interacting with C11orf16[14].


Clinical Significance

Disease Association

Protein coded by C11orf16 gene is also predicted to have 19.61% sequence identity to tumor suppressor p53-binding protein suggesting that this gene might be involved with tumor suppressing process[15].

References

  1. ↑ Amid C, Bahr A, Mujica A, Sampson N, Bikar SE, Winterpacht A, Zabel B, Hankeln T, Schmidt ER (Aug 2001). "Comparative genomic sequencing reveals a strikingly similar architecture of a conserved syntenic region on human chromosome 11p15.3 (including gene ST5) and mouse chromosome 7". Cytogenet Cell Genet. 93 (3–4): 284–90. doi:10.1159/000056999. PMID 11528127.
  2. ↑ "Entrez Gene: C11orf16 chromosome 11 open reading frame 16".
  3. ↑ "Genomatix".
  4. ↑ "NCBI Nucleotide".
  5. ↑ "Expasy".
  6. ↑ "Sigma Antibodies".
  7. ↑ "Motif Scan".
  8. ↑ "TMHMM".
  9. ↑ "SUMOplot".
  10. ↑ "NetPhos".
  11. ↑ "YingOYang".
  12. ↑ "PROTTER".
  13. ↑ "PSORTII".
  14. ↑ "STRING".
  15. ↑ "SWISS-MODEL".

External links

Further reading

Retrieved from "https://www.wikidoc.org/index.php?title=C11orf16&oldid=1527934"