Summary: Spumavirus aspartic protease (A9)
Spumavirus aspartic protease (A9) Provide feedback
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This tab holds annotation information from the InterPro database.
InterPro entry IPR001641
Foamy viruses (FV) or spumavirus are single-stranded enveloped retroviruses that have been noted to infect monkeys, cats and humans. In the human virus, the aspartic protease is encoded by the retroviral gag gene [PUBMED:2451755], and in monkeys by the pol gene [PUBMED:1647358]. At present, the virus has not been proven to cause any particular disease. However, studies have shown Human foamy virus causes neurological disorders in infected mice [PUBMED:9549727].
The FV aspartic peptidases belong to MEROPS peptidase family A9 (spumapepsin family, clan AA). It is not clear whether they share a common evolutionary origin with other aspartic proteases.
The FV protease domain consists of seven beta-strands and a helical turn. The beta-strands form a closed barrel-like beta-sheet with the strand order beta1-beta2-beta7-beta3-beta6-beta5-beta1. The strands beta1 and beta7 are arranged in parallel, while all other strands are arranged in an anti-parallel manner [PUBMED:18597783].
The mapping between Pfam and Gene Ontology is provided by InterPro. If you use this data please cite InterPro.
|Molecular function||aspartic-type endopeptidase activity (GO:0004190)|
|Biological process||proteolysis (GO:0006508)|
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This clan contains aspartic peptidases, including the pepsins and retropepsins. These enzymes contains a catalytic dyad composed of two aspartates. In the retropepsins one is provided by each copy of a homodimeric protein, whereas in the pepsin-like peptidases these aspartates come from a single protein composed of two duplicated domains.
The clan contains the following 14 members:Asp Asp_protease Asp_protease_2 DUF1758 gag-asp_proteas Peptidase_A2B Peptidase_A2E Peptidase_A3 RVP RVP_2 Spuma_A9PTase TAXi_C TAXi_N Zn_protease
We make a range of alignments for each Pfam-A family:
- the curated alignment from which the HMM for the family is built
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- Representative Proteomes (RPs) at 15%, 35%, 55% and 75% co-membership thresholds
- alignment generated by searching the NCBI sequence database using the family HMM
- alignment generated by searching the metagenomics sequence database using the family HMM
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Curation and family details
|Number in seed:||4|
|Number in full:||22|
|Average length of the domain:||147.80 aa|
|Average identity of full alignment:||49 %|
|Average coverage of the sequence by the domain:||14.35 %|
|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:||9|
|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 Spuma_A9PTase domain has been found. There are 1 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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