Summary: Vps54-like protein
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Vps54-like protein Provide feedback
This family contains various proteins that are homologs of the yeast Vps54 protein, such as the rat homolog (Q9JMK8), the human homolog (Q86YF7), and the mouse homolog (Q8R3X1). In yeast, Vps54 associates with Vps52 and Vps53 proteins to form a trimolecular complex that is involved in protein transport between Golgi, endosomal, and vacuolar compartments . All Vps54 homologs contain a coiled coil region (not found in the region featured in this family) and multiple dileucine motifs .
Walter L, Stark S, Helou K, Flugge P, Levan G, Gunther E; , Gene 2002;285:213-220.: Identification, characterization and cytogenetic mapping of a yeast Vps54 homolog in rat and mouse. PUBMED:12039048 EPMC:12039048
External database links
This tab holds annotation information from the InterPro database.
InterPro entry IPR012501
This family contains various proteins that are homologues of the yeast Vps54 protein, such as the rat homologue (SWISSPROT), the human homologue (SWISSPROT), and the mouse homologue (SWISSPROT). In yeast, Vps54 associates with Vps52 and Vps53 proteins to form a trimolecular complex that is involved in protein transport between Golgi, endosomal, and vacuolar compartments [PUBMED:12039048]. All Vps54 homologues contain a coiled coil region (not found in the region featured in this family) and multiple dileucine motifs [PUBMED:12039048].
The mapping between Pfam and Gene Ontology is provided by InterPro. If you use this data please cite InterPro.
|Biological process||retrograde transport, endosome to Golgi (GO:0042147)|
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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_9294 (release 14.0)|
|Author:||Fenech M, Finn RD|
|Number in seed:||124|
|Number in full:||629|
|Average length of the domain:||127.20 aa|
|Average identity of full alignment:||38 %|
|Average coverage of the sequence by the domain:||12.80 %|
|HMM build commands:||
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 80369284 -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 Vps54 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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