Summary: Vesicle coat trafficking protein Sec16 mid-region
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Vesicle coat trafficking protein Sec16 mid-region Provide feedback
Sec16 is a multi-domain vesicle coat protein. This central region is the functional part of the molecules and thus is vital for the family's role in mediating the movement of protein-cargo between the organelles of the secretory pathway .
Espenshade P, Gimeno RE, Holzmacher E, Teung P, Kaiser CA;, J Cell Biol. 1995;131:311-324.: Yeast SEC16 gene encodes a multidomain vesicle coat protein that interacts with Sec23p. PUBMED:7593161 EPMC:7593161
This tab holds annotation information from the InterPro database.
InterPro entry IPR024340
The yeast protein Sec16 plays a key role in the formation of coat protein II vesicles, which mediate protein transport from the endoplasmic reticulum (ER) to the Golgi apparatus [PUBMED:7593161]. Mammals have two isoforms of this protein - Sec16A and Sec16B. Sec16A appears to be the primary orthologue as it has the highest sequence similarity to the yeast sequence. Sec16B is involved in export of the peroxisomal membrane biogenesis factor peroxin 16 [PUBMED:21768384].
This entry represents the central conserved domain (CCD) of Sec16, found in all isoforms of this protein. The CCD is necessary for targeting of the protein to the ER [PUBMED:19638414].
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Curation and family details
|Author:||Wood V, Coggill P|
|Number in seed:||107|
|Number in full:||430|
|Average length of the domain:||113.00 aa|
|Average identity of full alignment:||25 %|
|Average coverage of the sequence by the domain:||7.02 %|
|HMM build commands:||
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 11927849 -E 1000 --cpu 4 HMM pfamseq
|Family (HMM) version:||4|
|Download:||download the raw HMM for this family|
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There are 3 interactions 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 Sec16 domain has been found. There are 4 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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