PRR29: Difference between revisions

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{{Infobox_gene}}
{{Infobox_gene}}
'''PRR29''' is a [[protein]] located on human [[Chromosome 17 (human)|chromosome 17]] that in humans is encoded by the ''PRR29'' [[gene]].<ref name=":0">{{Cite web|url=https://www.ncbi.nlm.nih.gov/gene/92340|title=PRR29 proline rich 29 [Homo sapiens (human)] - Gene - NCBI|website=www.ncbi.nlm.nih.gov|access-date=2016-04-28}}</ref><ref name="Uniprot">{{cite web|url=http://www.uniprot.org/uniprot/P0C7W0|title=PRR29_HUMAN|website=Uniprot|accessdate=28 April 2016}}</ref>
'''PRR29''' is a [[protein]] located on human [[Chromosome 17 (human)|chromosome 17]] that in humans is encoded by the ''PRR29'' [[gene]].<ref name=":0">{{Cite web|url=https://www.ncbi.nlm.nih.gov/gene/92340|title=PRR29 proline rich 29 [Homo sapiens (human)] - Gene - NCBI|website=www.ncbi.nlm.nih.gov|access-date=2016-04-28}}</ref><ref name="Uniprot">{{cite web|url=https://www.uniprot.org/uniprot/P0C7W0|title=PRR29_HUMAN|website=Uniprot|accessdate=28 April 2016}}</ref>


It is also commonly known as C17orf72. The gene has a size of 5961 [[base pair]]s and contains five [[exon]]s.<ref name=":0" />
It is also commonly known as C17orf72. The gene has a size of 5961 [[base pair]]s and contains five [[exon]]s.<ref name=":0" />
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=== Domains ===
=== Domains ===
PRR29 contains a proline rich region within its sequence from amino acids 73 to 166. A domain of unknown function, DUF 4587, is also present from amino acids 39 to 113.<ref>{{Cite web|url=http://www.uniprot.org/uniprot/P0C7W0|title=PRR29 - Proline-rich protein 29 - Homo sapiens (Human) - PRR29 gene & protein|website=www.uniprot.org|access-date=2016-05-09}}</ref> DUF 4587 is usually between 64 and 79 amino acids long and contains the two sequence motifs QNAQ and HHH. PRR29 is predicted to contain multiple alpha helix and beta-sheet forming regions. Specifically, the DUF 4587 region is predicted to form an alpha helix.<ref>{{Cite web|url=http://workbench.sdsc.edu/|title=SDSC Biology Workbench-PELE|last=|first=|date=|website=|publisher=|access-date=}}</ref>  
PRR29 contains a proline rich region within its sequence from amino acids 73 to 166. A domain of unknown function, DUF 4587, is also present from amino acids 39 to 113.<ref>{{Cite web|url=https://www.uniprot.org/uniprot/P0C7W0|title=PRR29 - Proline-rich protein 29 - Homo sapiens (Human) - PRR29 gene & protein|website=www.uniprot.org|access-date=2016-05-09}}</ref> DUF 4587 is usually between 64 and 79 amino acids long and contains the two sequence motifs QNAQ and HHH. PRR29 is predicted to contain multiple alpha helix and beta-sheet forming regions. Specifically, the DUF 4587 region is predicted to form an alpha helix.<ref>{{Cite web|url=http://workbench.sdsc.edu/|title=SDSC Biology Workbench-PELE|last=|first=|date=|website=|publisher=|access-date=}}</ref>  


=== Subcellular localization ===
=== Subcellular localization ===
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PRR29 is ubiquitously expressed throughout the body. However, there is particularly high expression in the ovaries, muscle, heart, testes, and thymus.<ref name=":1">{{Cite web|url=https://www.ncbi.nlm.nih.gov/geoprofiles/|title=Home - GEO Profiles - NCBI|website=www.ncbi.nlm.nih.gov|access-date=2016-05-09}}</ref> According to PaxDb, PRR29 abundance falls in the bottom 5% relative to other proteins.<ref>{{Cite web|url=http://pax-db.org/dataset/9606/29|title=H.sapiens - Whole organism (Integrated) in PaxDb|website=pax-db.org|access-date=2016-05-09}}</ref>
PRR29 is ubiquitously expressed throughout the body. However, there is particularly high expression in the ovaries, muscle, heart, testes, and thymus.<ref name=":1">{{Cite web|url=https://www.ncbi.nlm.nih.gov/geoprofiles/|title=Home - GEO Profiles - NCBI|website=www.ncbi.nlm.nih.gov|access-date=2016-05-09}}</ref> According to PaxDb, PRR29 abundance falls in the bottom 5% relative to other proteins.<ref>{{Cite web|url=http://pax-db.org/dataset/9606/29|title=H.sapiens - Whole organism (Integrated) in PaxDb|website=pax-db.org|access-date=2016-05-09}}</ref>
== Homology ==
== Homology ==
PRR29 has a single known paralog, C21orf58.<ref>{{Cite web|url=https://www.ncbi.nlm.nih.gov/gene/54058|title=C21orf58 chromosome 21 open reading frame 58 [Homo sapiens (human)] - Gene - NCBI|website=www.ncbi.nlm.nih.gov|access-date=2016-04-28}}</ref> PRR29 is well conserved among chordates and PRR29-like proteins containing the DUF 4587 have been predicted in protostomes, such as Mollusca and Annelida.<ref>{{Cite web|url=http://blast.ncbi.nlm.nih.gov/Blast.cgi|title=BLAST: Basic Local Alignment Search Tool|website=blast.ncbi.nlm.nih.gov|access-date=2016-04-28}}</ref> DUF 4587 is highly conserved in all PRR29 orthologs and is also present in its paralog, C21orf58.<ref>{{Cite web|url=http://www.ebi.ac.uk/interpro/entry/IPR027904|title=Domain of unknown function DUF4587 (IPR027904) < InterPro < EMBL-EBI|last=EMBL-EBI|first=InterPro|website=www.ebi.ac.uk|access-date=2016-05-09}}</ref> This domain has been found in species as distantly related as ''Capitella teleta'', which diverged from humans 847 million years ago.<ref>{{Cite web|url=http://www.timetree.org/search/pairwise/homo%2520sapiens/capitella%2520teleta|title=TimeTree :: The Timescale of Life|website=www.timetree.org|access-date=2016-05-09}}</ref>[[File:Expression profile of PRR29 in mice.png|thumb|PRR29 Expression<ref name=":1" />]]
PRR29 has a single known paralog, [[C21orf58]].<ref>{{Cite web|url=https://www.ncbi.nlm.nih.gov/gene/54058|title=C21orf58 chromosome 21 open reading frame 58 [Homo sapiens (human)] - Gene - NCBI|website=www.ncbi.nlm.nih.gov|access-date=2016-04-28}}</ref> PRR29 is well conserved among chordates and PRR29-like proteins containing the DUF 4587 have been predicted in protostomes, such as Mollusca and Annelida.<ref>{{Cite web|url=http://blast.ncbi.nlm.nih.gov/Blast.cgi|title=BLAST: Basic Local Alignment Search Tool|website=blast.ncbi.nlm.nih.gov|access-date=2016-04-28}}</ref> DUF 4587 is highly conserved in all PRR29 orthologs and is also present in its paralog, C21orf58.<ref>{{Cite web|url=http://www.ebi.ac.uk/interpro/entry/IPR027904|title=Domain of unknown function DUF4587 (IPR027904) < InterPro < EMBL-EBI|last=EMBL-EBI|first=InterPro|website=www.ebi.ac.uk|access-date=2016-05-09}}</ref> This domain has been found in species as distantly related as ''Capitella teleta'', which diverged from humans 847 million years ago.<ref>{{Cite web|url=http://www.timetree.org/search/pairwise/homo%2520sapiens/capitella%2520teleta|title=TimeTree :: The Timescale of Life|website=www.timetree.org|access-date=2016-05-09}}</ref>[[File:Expression profile of PRR29 in mice.png|thumb|PRR29 Expression<ref name=":1" />]]
{| class="wikitable"
{| class="wikitable"
|'''Genus  and Species'''
|'''Genus  and Species'''
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|0.54
|0.54
|}   
|}   
[[File:Alignment_PRR29.pdf|thumb|PRR29 Unrooted Phylogenetic Tree<ref>{{Cite web|url=http://seqtool.sdsc.edu/CGI/BW.cgi#!|title=SDSC Biology Workbench-ClustalW|last=|first=|date=|website=|publisher=|access-date=}}</ref>]]
[[File:Alignment_PRR29.pdf|thumb|PRR29 Unrooted Phylogenetic Tree<ref>{{Cite web|url=http://seqtool.sdsc.edu/CGI/BW.cgi#!|title=SDSC Biology Workbench-ClustalW|last=|first=|date=|website=|publisher=|access-date=}}{{dead link|date=March 2018 |bot=InternetArchiveBot |fix-attempted=yes }}</ref>]]


== References ==
== References ==
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== External links ==
== External links ==
* [https://www.ebi.ac.uk/gxa/genes/ENSG00000224383?bs=%7B%22homo+sapiens%22%3A%7B%22ORGANISM_PART%22%3Atrue%7D%7D&ds=%7B%7D#baseline Human Expression Atlas data] (EBI)
* [https://www.ebi.ac.uk/gxa/genes/ENSG00000224383?bs=%7B%22homo+sapiens%22%3A%7B%22ORGANISM_PART%22%3Atrue%7D%7D&ds=%7B%7D#baseline Human Expression Atlas data] (EBI)
* [http://www.genecards.org/cgi-bin/carddisp.pl?gene=PRR29 Genecards]
* [https://www.genecards.org/cgi-bin/carddisp.pl?gene=PRR29 Genecards]


{{gene-17-stub}}
{{gene-17-stub}}


[[Category:Proteins]]
[[Category:Proteins]]

Latest revision as of 14:41, 8 May 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

PRR29 is a protein located on human chromosome 17 that in humans is encoded by the PRR29 gene.[1][2]

It is also commonly known as C17orf72. The gene has a size of 5961 base pairs and contains five exons.[1]

Gene

PRR29 is located on the long arm of chromosome 17 (17q23.3), starting at 63998344 and ending at 64004305.[1] The gene spans 5961 base pairs and is oriented on the plus strand. Genes SNHG25 and LOC105371858 neighbor PRR29 on chromosome 17.The gene ICAM2 is located on the negative strand, directly opposite of PRR29.

mRNA

The gene has 12 common splice variants and one unspliced form.[3] The longest transcribed mRNA is made up of 3048 base pairs and the transcribed protein sequence for this mRNA is 189 amino acids.[1]

File:PRR29 Locus on Chromosome 17.png
Locus of PRR29[4]
File:Genomic view of PRR29.png
Genomic view of PRR29

Protein

General properties

Homo sapiens PRR29 has several protein isoforms, with the longest being 236 amino acids.[1] PRR29 has a predicted Isoelectric point of 5.23 and a predicted Molecular weight of 26.1 kilodaltons. PRR29 is characterized by a larger than average proportion of prolines (19.1%) and a smaller than average amount of asparagines (0.4%)[5]

Domains

PRR29 contains a proline rich region within its sequence from amino acids 73 to 166. A domain of unknown function, DUF 4587, is also present from amino acids 39 to 113.[6] DUF 4587 is usually between 64 and 79 amino acids long and contains the two sequence motifs QNAQ and HHH. PRR29 is predicted to contain multiple alpha helix and beta-sheet forming regions. Specifically, the DUF 4587 region is predicted to form an alpha helix.[7]

Subcellular localization

Using PSORTII, PRR29 is predicted to localize in the nucleus of the cell.[8] PSORTII does not predict any targeting sequences or signal peptides.

Modification

PRR29 is predicted to undergo sumoylation, acetylation, and serine, threonine and tyrosine phosphorylation.[9]

Interactions

The interactome of PRR29 is not yet well characterized. One experimental study found that a Sus scrofa PRR29-like protein interacts with the N-terminal protease of classical swine fever virus (CSFV).[10]

File:ITasser PRR29 Structure Prediction.gif
3D structure prediction from I-TASSER [11]

Expression

PRR29 is ubiquitously expressed throughout the body. However, there is particularly high expression in the ovaries, muscle, heart, testes, and thymus.[12] According to PaxDb, PRR29 abundance falls in the bottom 5% relative to other proteins.[13]

Homology

PRR29 has a single known paralog, C21orf58.[14] PRR29 is well conserved among chordates and PRR29-like proteins containing the DUF 4587 have been predicted in protostomes, such as Mollusca and Annelida.[15] DUF 4587 is highly conserved in all PRR29 orthologs and is also present in its paralog, C21orf58.[16] This domain has been found in species as distantly related as Capitella teleta, which diverged from humans 847 million years ago.[17]

File:Expression profile of PRR29 in mice.png
PRR29 Expression[12]
Genus and Species Common Name Divergence date from human (MYA)[18] Protein accession # [19] Sequence Length (aa) Identity to human sequence Similarity to human sequence
Homo sapiens Human 0 NP_001177958.1 236 1 1
Nannospalax galili Blind mole-rat 90.9 XP_008844796.1 181 0.62 0.68
Bubalus bubalis Water buffalo 97.5 XP_006041674.1 236 0.56 0.65
Monodelphis domestica opossum 163.7 XP_007482631.1| 195 0.51 0.62
Aquila chrysaetos canadensis Golden eagle 320 XP_011593496.1 170 0.36 0.48
Anolis carolinensis Anole Lizard 320.5 XP_008111611.1 186 0.39 0.52
Xenopus laevis African clawed frog 355.7 NP_001079741.1 309 0.34 0.49
Esox lucius Northern Pike 429 XP_010873077.1 197 0.48 0.74
Branchiostoma floridae lancelet 733 XP_002603029.1 1341 0.37 0.71
Ciona intestinalis Ciona intestinalis 733 XP_009857401.1 227 0.43 0.67
Capitella teleta Capitella teleta 847 ELU01749 558 0.37 0.51
Lottia gigantea Owl limpet 847 XP_009046359.1 299 0.33 0.54
File:Alignment PRR29.pdf
PRR29 Unrooted Phylogenetic Tree[20]

References

  1. ↑ 1.0 1.1 1.2 1.3 1.4 "PRR29 proline rich 29 [Homo sapiens (human)] - Gene - NCBI". www.ncbi.nlm.nih.gov. Retrieved 2016-04-28.
  2. ↑ "PRR29_HUMAN". Uniprot. Retrieved 28 April 2016.
  3. ↑ "NCBI Aceview".
  4. ↑ "PRR29 proline rich 29 [Homo sapiens (human)] - Gene - NCBI". www.ncbi.nlm.nih.gov. Retrieved 2016-05-09.
  5. ↑ "Compute pI/Mw". SIB Swiss Institute of Bioinformatics.
  6. ↑ "PRR29 - Proline-rich protein 29 - Homo sapiens (Human) - PRR29 gene & protein". www.uniprot.org. Retrieved 2016-05-09.
  7. ↑ "SDSC Biology Workbench-PELE".
  8. ↑ "PSORT II Prediction". psort.hgc.jp. Retrieved 2016-05-09.
  9. ↑ "CBS Prediction Servers". www.cbs.dtu.dk. Retrieved 2016-05-09.
  10. ↑ Li D, Li S, Sun Y, Dong H, Li Y, Zhao B, Guo D, Weng C, Qiu HJ (February 2013). "Poly(C)-binding protein 1, a novel N(pro)-interacting protein involved in classical swine fever virus growth". Journal of Virology. 87 (4): 2072–80. doi:10.1128/JVI.02807-12. PMC 3571455. PMID 23221550.
  11. ↑ "I-TASSER server for protein structure and function prediction". zhanglab.ccmb.med.umich.edu. Retrieved 2016-04-28.
  12. ↑ 12.0 12.1 "Home - GEO Profiles - NCBI". www.ncbi.nlm.nih.gov. Retrieved 2016-05-09.
  13. ↑ "H.sapiens - Whole organism (Integrated) in PaxDb". pax-db.org. Retrieved 2016-05-09.
  14. ↑ "C21orf58 chromosome 21 open reading frame 58 [Homo sapiens (human)] - Gene - NCBI". www.ncbi.nlm.nih.gov. Retrieved 2016-04-28.
  15. ↑ "BLAST: Basic Local Alignment Search Tool". blast.ncbi.nlm.nih.gov. Retrieved 2016-04-28.
  16. ↑ EMBL-EBI, InterPro. "Domain of unknown function DUF4587 (IPR027904) < InterPro < EMBL-EBI". www.ebi.ac.uk. Retrieved 2016-05-09.
  17. ↑ "TimeTree :: The Timescale of Life". www.timetree.org. Retrieved 2016-05-09.
  18. ↑ "TimeTree :: The Timescale of Life". www.timetree.org. Retrieved 2016-05-09.
  19. ↑ "National Center for Biotechnology Information". www.ncbi.nlm.nih.gov. Retrieved 2016-05-09.
  20. ↑ "SDSC Biology Workbench-ClustalW".[permanent dead link]

External links

Retrieved from "https://www.wikidoc.org/index.php?title=PRR29&oldid=1529324"