Please note: this site relies heavily on the use of javascript. Without a javascript-enabled browser, this site will not function correctly. Please enable javascript and reload the page, or switch to a different browser.
0  structures 246  species 0  interactions 358  sequences 8  architectures

Family: Coilin_N (PF15862)

Summary: Coilin N-terminus

Pfam includes annotations and additional family information from a range of different sources. These sources can be accessed via the tabs below.

This is the Wikipedia entry entitled "Coilin". More...

Coilin Edit Wikipedia article

COIL
Identifiers
Aliases COIL, Coil, C79982, Cln80, p80, p80-coilin, coilin
External IDs MGI: 104842 HomoloGene: 3413 GeneCards: COIL
Gene location (Human)
Chromosome 17 (human)
Chr. Chromosome 17 (human)[1]
Chromosome 17 (human)
Genomic location for COIL
Genomic location for COIL
Band 17q22 Start 56,938,187 bp[1]
End 56,961,054 bp[1]
RNA expression pattern
PBB GE COIL 203653 s at fs.png

PBB GE COIL 203654 s at fs.png
More reference expression data
Orthologs
Species Human Mouse
Entrez
Ensembl
UniProt
RefSeq (mRNA)

NM_004645

NM_016706

RefSeq (protein)

NP_004636

NP_057915

Location (UCSC) Chr 17: 56.94 – 56.96 Mb Chr 17: 88.97 – 88.99 Mb
PubMed search [3] [4]
Wikidata
View/Edit Human View/Edit Mouse

Coilin is a protein that in humans is encoded by the COIL gene.[5][6] Coilin got its name from the coiled shape of the CB in which it is found. It was first identified using human autoimmune serum.

Function

Coilin protein is one of the main molecular components of Cajal bodies (CBs). Cajal bodies are nuclear suborganelles of varying number and composition that are involved in the post-transcriptional modification of small nuclear and small nucleolar RNAs. In addition to its structural role, coilin acts as glue to connect the CB to the nucleolus. The N-terminus of the coilin protein directs its self-oligomerization while the C-terminus influences the number of nuclear bodies assembled per cell. Differential methylation and phosphorylation of coilin likely influences its localization among nuclear bodies and the composition and assembly of Cajal bodies. This gene has pseudogenes on chromosome 4 and chromosome 14.[6]

To study CBs, coilin can be combined with GFP (Green Fluorescent Protein) to form Coilin-GFP hybrid protein. The hybrid protein can then be used to locate CBs underneath a microscope, usually near the nucleolus of the cell. Other proteins that make up the CB include snRNPs and nucleolar snoRNPs.

Coilin has been shown to interact with ataxin 1,[7][8] nucleolar phosphoprotein p130,[9] SMN,[10][11] and SNRPB.[11]

References

  1. ^ a b c GRCh38: Ensembl release 89: ENSG00000121058 - Ensembl, May 2017
  2. ^ a b c GRCm38: Ensembl release 89: ENSMUSG00000033983 - Ensembl, May 2017
  3. ^ "Human PubMed Reference:". 
  4. ^ "Mouse PubMed Reference:". 
  5. ^ Chan EK, Takano S, Andrade LE, Hamel JC, Matera AG (Dec 1994). "Structure, expression and chromosomal localization of human p80-coilin gene". Nucleic Acids Res. 22 (21): 4462–9. doi:10.1093/nar/22.21.4462. PMC 308480Freely accessible. PMID 7971277. 
  6. ^ a b "Entrez Gene: COIL coilin". 
  7. ^ Hong S, Ka S, Kim S, Park Y, Kang S (May 2003). "p80 coilin, a coiled body-specific protein, interacts with ataxin-1, the SCA1 gene product". Biochim. Biophys. Acta. 1638 (1): 35–42. doi:10.1016/s0925-4439(03)00038-3. PMID 12757932. 
  8. ^ Hong S, Lee S, Cho SG, Kang S (Jun 2008). "UbcH6 interacts with and ubiquitinates the SCA1 gene product ataxin-1". Biochem. Biophys. Res. Commun. 371 (2): 256–60. doi:10.1016/j.bbrc.2008.04.066. PMID 18439907. 
  9. ^ Isaac C, Yang Y, Meier UT (Jul 1998). "Nopp140 functions as a molecular link between the nucleolus and the coiled bodies". J. Cell Biol. 142 (2): 319–29. doi:10.1083/jcb.142.2.319. PMC 2133063Freely accessible. PMID 9679133. 
  10. ^ Hebert MD, Shpargel KB, Ospina JK, Tucker KE, Matera AG (Sep 2002). "Coilin methylation regulates nuclear body formation". Dev. Cell. 3 (3): 329–37. doi:10.1016/s1534-5807(02)00222-8. PMID 12361597. 
  11. ^ a b Hebert MD, Szymczyk PW, Shpargel KB, Matera AG (Oct 2001). "Coilin forms the bridge between Cajal bodies and SMN, the spinal muscular atrophy protein". Genes Dev. 15 (20): 2720–9. doi:10.1101/gad.908401. PMC 312817Freely accessible. PMID 11641277. 

Further reading

This article incorporates text from the United States National Library of Medicine, which is in the public domain.


This page is based on a Wikipedia article. The text is available under the Creative Commons Attribution/Share-Alike License.

This tab holds the annotation information that is stored in the Pfam database. As we move to using Wikipedia as our main source of annotation, the contents of this tab will be gradually replaced by the Wikipedia tab.

Coilin N-terminus Provide feedback

No Pfam abstract.

Literature references

  1. Chan EK, Takano S, Andrade LE, Hamel JC, Matera AG;, Nucleic Acids Res. 1994;22:4462-4469.: Structure, expression and chromosomal localization of human p80-coilin gene. PUBMED:7971277 EPMC:7971277


This tab holds annotation information from the InterPro database.

InterPro entry IPR031722

Coilin is a nuclear phosphoprotein that concentrates within Cajal bodies (CBs) and has a role in small nuclear ribonucleoprotein (snRNP) biogenesis [PUBMED:15862129]. Coilin also acts to repress polymerase I activity in response to cisplatin-induced DNA damage, which could indicate a link between the DNA damage response and the inhibition of rRNA synthesis [PUBMED:21289084]. Conservation at the amino acid level is highest within coilin's N- and C-termini. The first N-terminal 92-amino acid domain have been shown to self-interact and to be essential for proper targeting of coilin to CBs [PUBMED:7490287, PUBMED:11102515].

Domain organisation

Below is a listing of the unique domain organisations or architectures in which this domain is found. More...

Loading domain graphics...

Alignments

We store a range of different sequence alignments for families. As well as the seed alignment from which the family is built, we provide the full alignment, generated by searching the sequence database (reference proteomes) using the family HMM. We also generate alignments using four representative proteomes (RP) sets, the UniProtKB sequence database, the NCBI sequence database, and our metagenomics sequence database. More...

View options

We make a range of alignments for each Pfam-A family. You can see a description of each above. You can view these alignments in various ways but please note that some types of alignment are never generated while others may not be available for all families, most commonly because the alignments are too large to handle.

  Seed
(39)
Full
(358)
Representative proteomes UniProt
(501)
NCBI
(903)
Meta
(0)
RP15
(71)
RP35
(171)
RP55
(249)
RP75
(306)
Jalview View  View  View  View  View  View  View  View   
HTML View  View               
PP/heatmap 1 View               

1Cannot generate PP/Heatmap alignments for seeds; no PP data available

Key: ✓ available, x not generated, not available.

Format an alignment

  Seed
(39)
Full
(358)
Representative proteomes UniProt
(501)
NCBI
(903)
Meta
(0)
RP15
(71)
RP35
(171)
RP55
(249)
RP75
(306)
Alignment:
Format:
Order:
Sequence:
Gaps:
Download/view:

Download options

We make all of our alignments available in Stockholm format. You can download them here as raw, plain text files or as gzip-compressed files.

  Seed
(39)
Full
(358)
Representative proteomes UniProt
(501)
NCBI
(903)
Meta
(0)
RP15
(71)
RP35
(171)
RP55
(249)
RP75
(306)
Raw Stockholm Download   Download   Download   Download   Download   Download   Download   Download    
Gzipped Download   Download   Download   Download   Download   Download   Download   Download    

You can also download a FASTA format file containing the full-length sequences for all sequences in the full alignment.

HMM logo

HMM logos is one way of visualising profile HMMs. Logos provide a quick overview of the properties of an HMM in a graphical form. You can see a more detailed description of HMM logos and find out how you can interpret them here. More...

Trees

This page displays the phylogenetic tree for this family's seed alignment. We use FastTree to calculate neighbour join trees with a local bootstrap based on 100 resamples (shown next to the tree nodes). FastTree calculates approximately-maximum-likelihood phylogenetic trees from our seed alignment.

Note: You can also download the data file for the tree.

Curation and family details

This section shows the detailed information about the Pfam family. You can see the definitions of many of the terms in this section in the glossary and a fuller explanation of the scoring system that we use in the scores section of the help pages.

Curation View help on the curation process

Seed source: Jackhmmer:A1Z7A8
Previous IDs: none
Type: Family
Sequence Ontology: SO:0100021
Author: Eberhardt R
Number in seed: 39
Number in full: 358
Average length of the domain: 188.70 aa
Average identity of full alignment: 21 %
Average coverage of the sequence by the domain: 33.40 %

HMM information View help on HMM parameters

HMM build commands:
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 45638612 -E 1000 --cpu 4 HMM pfamseq
Model details:
Parameter Sequence Domain
Gathering cut-off 32.9 32.9
Trusted cut-off 32.9 32.9
Noise cut-off 32.7 32.7
Model length: 139
Family (HMM) version: 5
Download: download the raw HMM for this family

Species distribution

Sunburst controls

Hide

Weight segments by...


Change the size of the sunburst

Small
Large

Colour assignments

Archea Archea Eukaryota Eukaryota
Bacteria Bacteria Other sequences Other sequences
Viruses Viruses Unclassified Unclassified
Viroids Viroids Unclassified sequence Unclassified sequence

Selections

Align selected sequences to HMM

Generate a FASTA-format file

Clear selection

This visualisation provides a simple graphical representation of the distribution of this family across species. You can find the original interactive tree in the adjacent tab. More...

Loading sunburst data...

Tree controls

Hide

The tree shows the occurrence of this domain across different species. More...

Loading...

Please note: for large trees this can take some time. While the tree is loading, you can safely switch away from this tab but if you browse away from the family page entirely, the tree will not be loaded.