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4961  structures 3607  species 0  interactions 15585  sequences 342  architectures

Clan: Nucleoplasmin (CL0055)


Nucleoplasmin-like/VP (viral coat and capsid proteins) superfamily Add an annotation

This large superfamily includes nucleoplasmin as well as a wide range of viral coat and capsid proteins that share a jelly roll topology.

This clan contains 42 families and the total number of domains in the clan is 15585. The clan was built by RD Finn and A Bateman.


This clan contains the following 42 member families:

Adeno_hexon_C Astro_capsid_N Birna_VP2 Bromo_coat Calici_coat Calici_coat_C Capsid-VNN Capsid_N Carmo_coat_C Circo_capsid Como_LCP Como_SCP CRPV_capsid Cucumo_coat Dicistro_VP4 DUF2961 DUF4621 HAV_VP IHHNV_capsid Ilar_coat Late_protein_L1 Luteo_coat Nepo_coat Nepo_coat_C Nepo_coat_N NPL Nucleoplasmin Peptidase_A21 Peptidase_A6 Pico_P1A Polyhedrin Polyoma_coat Pox_Rif Rhv SP2 TGFb_propeptide TNV_CP TT_ORF1 Tymo_coat Viral_coat VP4_2 Waikav_capsid_1

External database links

Domain organisation

Below is a listing of the unique domain organisations or architectures from this clan. More...

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The table below shows the number of occurrences of each domain throughout the sequence database. More...

Pfam family Num. domains Alignment
TGFb_propeptide (PF00688) 7951 (51.0%) View
NPL (PF17800) 2493 (16.0%) View
Nucleoplasmin (PF03066) 1677 (10.8%) View
DUF2961 (PF11175) 1164 (7.5%) View
Capsid_N (PF16903) 328 (2.1%) View
Rhv (PF00073) 295 (1.9%) View
Late_protein_L1 (PF00500) 278 (1.8%) View
Cucumo_coat (PF00760) 248 (1.6%) View
CRPV_capsid (PF08762) 204 (1.3%) View
Viral_coat (PF00729) 157 (1.0%) View
Dicistro_VP4 (PF11492) 136 (0.9%) View
TT_ORF1 (PF02956) 106 (0.7%) View
Polyoma_coat (PF00718) 95 (0.6%) View
Luteo_coat (PF00894) 95 (0.6%) View
Adeno_hexon_C (PF03678) 65 (0.4%) View
Pox_Rif (PF03340) 45 (0.3%) View
Calici_coat (PF00915) 43 (0.3%) View
Circo_capsid (PF02443) 33 (0.2%) View
Capsid-VNN (PF11729) 24 (0.2%) View
Polyhedrin (PF00738) 21 (0.1%) View
Ilar_coat (PF01787) 15 (0.1%) View
TNV_CP (PF03898) 15 (0.1%) View
Pfam family Num. domains Alignment
Waikav_capsid_1 (PF12264) 13 (0.1%) View
Birna_VP2 (PF01766) 12 (0.1%) View
Peptidase_A21 (PF03566) 10 (0.1%) View
Pico_P1A (PF02226) 9 (0.1%) View
DUF4621 (PF15414) 6 (0.0%) View
VP4_2 (PF08935) 6 (0.0%) View
Tymo_coat (PF00983) 6 (0.0%) View
Carmo_coat_C (PF08462) 5 (0.0%) View
Astro_capsid_N (PF03115) 5 (0.0%) View
Peptidase_A6 (PF01829) 4 (0.0%) View
HAV_VP (PF12944) 3 (0.0%) View
Como_SCP (PF02248) 3 (0.0%) View
Como_LCP (PF02247) 3 (0.0%) View
Bromo_coat (PF01318) 3 (0.0%) View
Nepo_coat_N (PF03689) 2 (0.0%) View
SP2 (PF03014) 2 (0.0%) View
Nepo_coat (PF03391) 2 (0.0%) View
IHHNV_capsid (PF16530) 1 (0.0%) View
Nepo_coat_C (PF03688) 1 (0.0%) View
Calici_coat_C (PF08435) 1 (0.0%) View
Total: 42 Total: 15585
No alignment ℹ

Please note: Clan alignments can be very large and can cause problems for some browsers. Read the note above before viewing.

Family relationships

This diagram shows the relationships between members of this clan. More...

Species distribution

Tree controls


This tree shows the occurrence of the domains in this clan across different species. More...



For those sequences which have a structure in the Protein DataBank, we use the mapping between UniProt, PDB and Pfam coordinate systems from the MSD group, to allow us to map Pfam domains onto UniProt three-dimensional structures. The table below shows the mapping between the Pfam families in this clan, the corresponding UniProt entries, and the region of the three-dimensional structures that are available for that sequence.

Loading structure mapping...