Structural Classification of Proteins

Fold: Nucleoplasmin-like/VP (viral coat and capsid proteins)

: sandwich; 8 strands in 2 sheets; jelly-roll; some members can have additional 1-2 strands
characteristic interaction between the domains of this fold allows the formation of five-fold and pseudo six-fold assemblies

Lineage:

Root: scop
Class: All beta proteins [48724]
Fold: Nucleoplasmin-like/VP (viral coat and capsid proteins) [88632]
sandwich; 8 strands in 2 sheets; jelly-roll; some members can have additional 1-2 strands
characteristic interaction between the domains of this fold allows the formation of five-fold and pseudo six-fold assemblies

Superfamilies:

Nucleoplasmin-like core domain [69203] (1)
oligomerizes into a pentameric ring structure
uperfamily
1. Nucleoplasmin-like core domain [69204] (3)
Positive stranded ssRNA viruses [88633] (9)
uperfamily
1. Picornaviridae-like VP (VP1, VP2, VP3 and VP4) [88634] (18)
  the order of the chains N-VP0-VP3-VP1-C is as in the polyprotein; VP0 is cleaved later upon capsid assembly to VP4 and VP2
  there is a different order in the shuffled genome of insect picorna-like proteins (Cricket paralysis virus)
2. Comoviridae-like VP [88636] (3)
  duplication: mature coat protein consists of three similar domains that can be in a single chain or in two separate chains
3. Caliciviridae-like VP [88637] (1)
4. Nodaviridae-like VP [88638] (3)
5. Tetraviridae-like VP [101568] (1)
6. Bromoviridae-like VP [88639] (4)
7. Tymoviridae-like VP [88641] (3)
8. Tombusviridae-like VP [88643] (7)
9. Birnaviridae-like VP [141109] (1)
  dsRNA virus but unlike the other dsRNA viruses has a genomic arrangement and genomic replication strategy similar to +sRNA viruses; includes Pfam 01766; Birnavirus VP2 protein
ssDNA viruses [88645] (3)
uperfamily
1. Microviridae-like VP [49612] (3)
2. Parvoviridae-like VP [88646] (7)
3. Densovirinae-like VP [88647] (1)
Group I dsDNA viruses [88648] (1)
uperfamily
1. Papovaviridae-like VP [88649] (3)
Group II dsDNA viruses VP [49749] (3)
duplication: consists of two domains of this fold packed together like the nucleoplasmin subunits
trimeric; in the trimers, the domains are arranged around pseudo six-fold axis
uperfamily
1. Coat protein p3 [49750] (1)
2. Major capsid protein vp54 [82013] (1)
3. Adenovirus hexon [49753] (2)
  each domain is heavily decorated with many insertions
Satellite viruses [88650] (1)
uperfamily
1. Satellite viruses [88651] (3)
PHM/PNGase F [49742] (2)
members of this superfamily bind peptide substrates
duplication: consists of two domains of this fold packed together like the adjacent nucleoplasmin subunits
uperfamily
1. Glycosyl-asparaginase [49743] (1)
2. Peptidylglycine alpha-hydroxylating monooxygenase, PHM [49746] (1)