Summary: Cucumovirus coat protein
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Cucumovirus coat protein Provide feedback
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This tab holds annotation information from the InterPro database.
InterPro entry IPR023800Cucumoviruses are tripartite RNA plant viruses believed to share a close evolutionary relationship with Brome mosaic virus (BMV). The cucumoviruses include: Cucumber mosaic virus [PUBMED:2230731], Peanut stunt virus [PUBMED:1926787] and Tomato aspermy virus [PUBMED:1990057]. The viral coat proteins show a high degree of sequence similarity [PUBMED:2230731].
The core structure of cucumber mosaic virus (CMV) and chlorotic mottle virus (CCMV), both members of the Bromoviridae family, are highly homologous. In CCMV, the structures of the A, B, and C subunits are nearly identical except in their N termini. In contrast, the structures of two loops in subunit A of CMV differ from those in B and C [PUBMED:10906212]. This entry represents the structural domain of subunit A of the cucumber mosaic virus and other cucumovirusus [PUBMED:9721241].
The mapping between Pfam and Gene Ontology is provided by InterPro. If you use this data please cite InterPro.
|Cellular component||viral capsid (GO:0019028)|
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The clan contains a set of viral coat protein families and peptidase A6. The only known peptidase activity is an autolytic cleavage releasing a 44-residue C-terminal fragment. The reaction is very slow and only occurs within the assembled virion. There is debate whether this is actually a true peptidase. The virion with these coat or capsid proteins are icosahedral viruses containing sixty triangular coat protein units, each unit consisting of three proteins. The coat protein consists of two subdomains, an eight-stranded beta-barrel on the surface and a three-helix bundle on the inner face.
The clan contains the following 18 members:Astro_capsid_N Birna_VP2 Bromo_coat Calici_coat Capsid-VNN Circo_capsid Como_LCP CRPV_capsid Cucumo_coat Luteo_coat Nepo_coat Peptidase_A21 Peptidase_A6 Rhv SP2 TT_ORF1 Tymo_coat Viral_coat
We make a range of alignments for each Pfam-A family:
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Curation and family details
|Seed source:||Pfam-B_867 (release 2.1)|
|Number in seed:||1|
|Number in full:||750|
|Average length of the domain:||183.20 aa|
|Average identity of full alignment:||87 %|
|Average coverage of the sequence by the domain:||94.91 %|
|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:||14|
|Download:||download the raw HMM for this family|
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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 Cucumo_coat domain has been found. There are 6 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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