Summary: SWIRM domain
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SWIRM domain Provide feedback
This SWIRM domain is a small alpha-helical domain of about 85 amino acid residues found in chromosomal proteins. It contains a helix-turn helix motif and binds to DNA .
Da G, Lenkart J, Zhao K, Shiekhattar R, Cairns BR, Marmorstein R; , Proc Natl Acad Sci U S A. 2006;103:2057-2062.: Structure and function of the SWIRM domain, a conserved protein module found in chromatin regulatory complexes. PUBMED:16461455 EPMC:16461455
External database links
This tab holds annotation information from the InterPro database.
InterPro entry IPR007526
The SWIRM domain is a small alpha-helical domain of about 85 amino acid residues found in eukaryotic chromosomal proteins. It is named after the proteins SWI3, RSC8 and MOIRA in which it was first recognised. This domain is predicted to mediate protein-protein interactions in the assembly of chromatin-protein complexes [PUBMED:12186646].
The SWIRM domain can be linked to different domains, such as the ZZ-type zinc finger (INTERPRO), the Myb DNA-binding domain (INTERPRO), the HORMA domain (INTERPRO), the amino-oxidase domain, the chromo domain (INTERPRO), and the JAB1/PAD1 domain.
The mapping between Pfam and Gene Ontology is provided by InterPro. If you use this data please cite InterPro.
|Molecular function||protein binding (GO:0005515)|
- the number of sequences which exhibit this architecture
a textual description of the architecture, e.g. Gla, EGF x 2, Trypsin.
This example describes an architecture with one
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We make a range of alignments for each Pfam-A family:
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Curation and family details
|Seed source:||Aravind L|
|Number in seed:||79|
|Number in full:||1274|
|Average length of the domain:||86.30 aa|
|Average identity of full alignment:||27 %|
|Average coverage of the sequence by the domain:||11.90 %|
|HMM build commands:||
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 23193494 -E 1000 --cpu 4 HMM pfamseq
|Family (HMM) version:||12|
|Download:||download the raw HMM for this family|
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The tree shows the occurrence of this domain across different species. More...
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There is 1 interaction for this family. More...
We determine these interactions using iPfam, which considers the interactions between residues in three-dimensional protein structures and maps those interactions back to Pfam families. You can find more information about the iPfam algorithm in the journal article that accompanies the website.
For those sequences which have a structure in the Protein DataBank, we use the mapping between UniProt, PDB and Pfam coordinate systems from the PDBe group, to allow us to map Pfam domains onto UniProt sequences and three-dimensional protein structures. The table below shows the structures on which the SWIRM domain has been found. There are 28 instances of this domain found in the PDB. Note that there may be multiple copies of the domain in a single PDB structure, since many structures contain multiple copies of the same protein seqence.
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