SUPERFAMILY 1.75 HMM library and genome assignments server


Apolipophorin-III superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   Apolipophorin-III [ 47856]
Superfamily:   Apolipophorin-III [ 47857]
Families:   Apolipophorin-III [ 47858]


Superfamily statistics
Genomes (35) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 38 89 3
Proteins 38 89 3


Functional annotation
General category coiled coil
Detailed category The code refers to 4-helix bundles. These are a type of structure which frequently contain coiled-coils.

Document:
Function annotation of SCOP domain superfamilies

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTransport2.958e-07Least InformativeDirect
Biological processLipid transport0InformativeDirect
Cellular componentSecreted0Moderately InformativeDirect
DomainSignal1.812e-07Least InformativeDirect

Document: KW annotation of SCOP domains

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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 2 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 Apolipophorin-III 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 2 hidden Markov models representing the Apolipophorin-III 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 ]