SUPERFAMILY 1.75 HMM library and genome assignments server


ssDNA viruses superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All beta proteins [ 48724] (174)
Fold:   Nucleoplasmin-like/VP (viral coat and capsid proteins) [ 88632] (7)
Superfamily:   ssDNA viruses [ 88645] (3)
Families:   Microviridae-like VP [ 49612]
  Parvoviridae-like VP [ 88646] (2)
  Densovirinae-like VP [ 88647]


Superfamily statistics
Genomes (32) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 43 7,473 20
Proteins 41 7,461 20


Functional annotation
General category Other
Detailed category Viral proteins

Document:
Function annotation of SCOP domain superfamilies

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processHost-virus interaction0Moderately InformativeDirect
Biological processVirus entry into host cell0InformativeDirect
Biological processClathrin-mediated endocytosis of virus by host0Highly InformativeDirect
Biological processViral penetration into host nucleus9.189e-06Highly InformativeDirect
Cellular componentHost nucleus0InformativeDirect
Cellular componentCapsid protein0InformativeDirect
Cellular componentHost cytoplasm1.417e-09InformativeDirect
Molecular functionMagnesium1.063e-09Moderately InformativeDirect

Document: KW annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · UniProtKB KeyWords (KW) ]

Internal database links

Browse genome assignments for this superfamily. The SUPERFAMILY hidden Markov model library has been used to carry out SCOP domain assignments to all genomes at the superfamily level.


Alignments of sequences to 13 models in this superfamily are available by clicking on the 'Alignments' icon above. PDB sequences less than 40% identical are shown by default, but any other sequence(s) may be aligned. Select PDB sequences, genome sequences, or paste in or upload your own sequences.


Browse and view proteins in genomes which have different domain combinations including a ssDNA viruses domain.


Examine the distribution of domain superfamilies, or families, across the major taxonomic kingdoms or genomes within a kingdom. This gives an immediate impression of how superfamilies, or families, are restricted to certain kingdoms of life.


Explore domain occurrence network where nodes represent genomes and edges are domain architectures (shared between genomes) containing the superfamily of interest.

There are 13 hidden Markov models representing the ssDNA viruses superfamily. Information on how the models are built, and plots showing hydrophobicity, match emmission probabilities and insertion/deletion probabilities can be inspected.


Jump to [ Top of page · SCOP classification · Functional annotation · UniProtKB KeyWords (KW) · Internal database links ]