Summary: Occludin homology domain
Occludin homology domain Provide feedback
This domain represents a conserved region approximately 100 residues long within eukaryotic occludin proteins and the RNA polymerase II elongation factor ELL. Occludin is an integral membrane protein that localises to tight junctions  while ELL is an elongation factor that can increase the catalytic rate of RNA polymerase II transcription by suppressing transient pausing by polymerase at multiple sites along the DNA . This shared domain is thought to mediate protein interactions .
Furuse M, Hirase T, Itoh M, Nagafuchi A, Yonemura S, Tsukita S, Tsukita S; , J Cell Biol 1993;123:1777-1788.: Occludin: a novel integral membrane protein localizing at tight junctions. PUBMED:8276896 EPMC:8276896
Li Y, Fanning AS, Anderson JM, Lavie A; , J Mol Biol. 2005;352:151-164.: Structure of the conserved cytoplasmic C-terminal domain of occludin: identification of the ZO-1 binding surface. PUBMED:16081103 EPMC:16081103
External database links
This tab holds annotation information from the InterPro database.
InterPro entry IPR010844
This represents a conserved region approximately 100 residues long within eukaryotic occludin proteins and the RNA polymerase II elongation factor ELL. Occludin is an integral membrane protein that localises to tight junctions [PUBMED:8276896], while ELL is an elongation factor that can increase the catalytic rate of RNA polymerase II transcription by suppressing transient pausing by polymerase at multiple sites along the DNA [PUBMED:8596958]. This shared domain is thought to mediate protein interactions [PUBMED:8276896].
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a textual description of the architecture, e.g. Gla, EGF x 2, Trypsin.
This example describes an architecture with one
Gladomain, followed by two consecutive
EGFdomains, and finally a single
- the UniProt description of the protein sequence
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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:||Pfam-B_18556 (release 10.0)|
|Author:||Vella Briffa B, Bateman A|
|Number in seed:||18|
|Number in full:||504|
|Average length of the domain:||98.70 aa|
|Average identity of full alignment:||38 %|
|Average coverage of the sequence by the domain:||19.03 %|
|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:||8|
|Download:||download the raw HMM for this family|
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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 Occludin_ELL domain has been found. There are 3 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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