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4243  structures 3300  species 52  interactions 11016  sequences 285  architectures

Clan: Nucleoplasmin (CL0055)

Summary

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 11016. The clan was built by RD Finn and A Bateman.

Members

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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Alignments

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

Pfam family Num. domains Alignment
TGFb_propeptide (PF00688) 4828 (43.8%) View
NPL (PF17800) 1814 (16.5%) View
Nucleoplasmin (PF03066) 1119 (10.2%) View
DUF2961 (PF11175) 935 (8.5%) View
Late_protein_L1 (PF00500) 316 (2.9%) View
Rhv (PF00073) 300 (2.7%) View
Capsid_N (PF16903) 279 (2.5%) View
Cucumo_coat (PF00760) 220 (2.0%) View
CRPV_capsid (PF08762) 212 (1.9%) View
Viral_coat (PF00729) 149 (1.4%) View
Dicistro_VP4 (PF11492) 145 (1.3%) View
TT_ORF1 (PF02956) 105 (1.0%) View
Adeno_hexon_C (PF03678) 97 (0.9%) View
Polyoma_coat (PF00718) 91 (0.8%) View
Luteo_coat (PF00894) 90 (0.8%) View
Polyhedrin (PF00738) 66 (0.6%) View
Calici_coat (PF00915) 43 (0.4%) View
Pox_Rif (PF03340) 40 (0.4%) View
Circo_capsid (PF02443) 30 (0.3%) View
Capsid-VNN (PF11729) 22 (0.2%) View
Ilar_coat (PF01787) 15 (0.1%) View
Waikav_capsid_1 (PF12264) 13 (0.1%) View
continued
Pfam family Num. domains Alignment
TNV_CP (PF03898) 13 (0.1%) View
Peptidase_A21 (PF03566) 10 (0.1%) View
Birna_VP2 (PF01766) 10 (0.1%) View
Pico_P1A (PF02226) 9 (0.1%) View
Tymo_coat (PF00983) 7 (0.1%) View
VP4_2 (PF08935) 6 (0.1%) View
DUF4621 (PF15414) 5 (0.0%) View
Carmo_coat_C (PF08462) 4 (0.0%) View
Peptidase_A6 (PF01829) 4 (0.0%) View
Astro_capsid_N (PF03115) 4 (0.0%) View
HAV_VP (PF12944) 2 (0.0%) View
Nepo_coat_N (PF03689) 2 (0.0%) View
Como_SCP (PF02248) 2 (0.0%) View
SP2 (PF03014) 2 (0.0%) View
Como_LCP (PF02247) 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
Nepo_coat (PF03391) 1 (0.0%) View
Bromo_coat (PF01318) 1 (0.0%) View
Total: 42 Total: 11016
No alignment ℹ
 

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Family relationships

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

Species distribution

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

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Structures

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.

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