SUPERFAMILY 1.75 HMM library and genome assignments server


Apolipoprotein superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   Four-helical up-and-down bundle [ 47161] (28)
Superfamily:   Apolipoprotein [ 47162]
Families:   Apolipoprotein [ 47163]


Superfamily statistics
Genomes (257) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 316 923 11
Proteins 302 910 11


Functional annotation
General category Metabolism
Detailed category Lipid metabolism and transport

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-quality)

(show details)
GO termFDR (singleton)FDR (all)SDFO levelAnnotation (direct or inherited)
Biological Process (BP)biosynthetic process04.111e-05Least InformativeDirect
Biological Process (BP)protein metabolic process04.997e-05Least InformativeDirect
Biological Process (BP)organic cyclic compound metabolic process00.0001027Least InformativeDirect
Biological Process (BP)single-organism metabolic process00.0001478Least InformativeDirect
Biological Process (BP)cellular macromolecule metabolic process00.0005548Least InformativeDirect
Biological Process (BP)localization00.0009562Least InformativeDirect
Biological Process (BP)regulation of metabolic process00.4004Least InformativeInherited
Biological Process (BP)single-organism cellular process00.03177Least InformativeInherited
Biological Process (BP)developmental process00.005999Least InformativeInherited
Biological Process (BP)multicellular organismal process00.01094Least InformativeInherited
Biological Process (BP)cellular component organization or biogenesis00.001734Least InformativeInherited
Biological Process (BP)response to stimulus00.004024Least InformativeInherited
Biological Process (BP)regulation of multicellular organismal process03.48e-13Moderately InformativeDirect
Biological Process (BP)organic hydroxy compound metabolic process07.373e-10Moderately InformativeDirect
Biological Process (BP)lipid metabolic process04.788e-08Moderately InformativeDirect
Biological Process (BP)organic substance transport08.117e-08Moderately InformativeDirect
Biological Process (BP)macromolecule localization01.022e-07Moderately InformativeDirect
Biological Process (BP)system process01.529e-07Moderately InformativeDirect
Biological Process (BP)cellular macromolecule biosynthetic process02.341e-07Moderately InformativeDirect
Biological Process (BP)cellular localization06.416e-07Moderately InformativeDirect
Biological Process (BP)organic substance catabolic process01.746e-06Moderately InformativeDirect
Biological Process (BP)nervous system development01.841e-06Moderately InformativeDirect
Biological Process (BP)anatomical structure morphogenesis01.274e-05Moderately InformativeDirect
Biological Process (BP)cell differentiation03.22e-05Moderately InformativeDirect
Biological Process (BP)regulation of gene expression03.283e-05Moderately InformativeDirect
Biological Process (BP)cellular response to stress00.0002907Moderately InformativeDirect
Biological Process (BP)regulation of biological quality00.01122Moderately InformativeInherited
Biological Process (BP)lipid localization01.287e-13InformativeDirect
Biological Process (BP)lipid catabolic process03.836e-13InformativeDirect
Biological Process (BP)blood circulation04.703e-13InformativeDirect
Biological Process (BP)regulation of anatomical structure size09.142e-12InformativeDirect
Biological Process (BP)alcohol metabolic process05.077e-11InformativeDirect
Biological Process (BP)cellular chemical homeostasis05.298e-11InformativeDirect
Biological Process (BP)cation homeostasis07.083e-11InformativeDirect
Biological Process (BP)protein catabolic process01.089e-10InformativeDirect
Biological Process (BP)cardiovascular system development01.559e-09InformativeDirect
Biological Process (BP)cell projection organization01.299e-08InformativeDirect
Biological Process (BP)generation of neurons01.304e-07InformativeDirect
Biological Process (BP)response to oxidative stress03.429e-06InformativeDirect
Biological Process (BP)regulation of growth04.14e-06InformativeDirect
Biological Process (BP)response to wounding01.548e-05InformativeDirect
Biological Process (BP)artery morphogenesis00Highly InformativeDirect
Biological Process (BP)lipoprotein metabolic process00Highly InformativeDirect
Biological Process (BP)steroid catabolic process00Highly InformativeDirect
Biological Process (BP)organic hydroxy compound transport00Highly InformativeDirect
Biological Process (BP)vascular process in circulatory system00Highly InformativeDirect
Biological Process (BP)alcohol catabolic process00Highly InformativeDirect
Biological Process (BP)response to axon injury00Highly InformativeDirect
Biological Process (BP)sterol metabolic process01.086e-14Highly InformativeDirect
Biological Process (BP)maintenance of location01.086e-14Highly InformativeDirect
Biological Process (BP)cellular calcium ion homeostasis02.448e-13Highly InformativeDirect
Biological Process (BP)neuron projection development01.679e-09Highly InformativeDirect
Biological Process (BP)regulation of multicellular organism growth04.41e-07Highly InformativeDirect
Molecular Function (MF)binding00.02014Least InformativeInherited
Molecular Function (MF)transporter activity02.344e-08Moderately InformativeDirect
Molecular Function (MF)lipid transporter activity00Highly InformativeDirect
Cellular Component (CC)extracellular region part06.964e-14Moderately InformativeDirect
Cellular Component (CC)extracellular space00InformativeDirect

Document: GO annotation of SCOP domains

Gene Ontology (high-coverage)

(show details)
GO term FDR (all) SDFO level Annotation (direct or inherited)
Biological Process (BP) biosynthetic process 4.111e-05 Least Informative Direct
Biological Process (BP) protein metabolic process 4.997e-05 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 0.0001027 Least Informative Direct
Biological Process (BP) single-organism metabolic process 0.0001478 Least Informative Direct
Biological Process (BP) cellular macromolecule metabolic process 0.0005548 Least Informative Direct
Biological Process (BP) localization 0.0009562 Least Informative Direct
Biological Process (BP) regulation of metabolic process 0.4004 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.03177 Least Informative Inherited
Biological Process (BP) developmental process 0.005999 Least Informative Inherited
Biological Process (BP) multicellular organismal process 0.01094 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.001734 Least Informative Inherited
Biological Process (BP) response to stimulus 0.004024 Least Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 3.48e-13 Moderately Informative Direct
Biological Process (BP) organic hydroxy compound metabolic process 7.373e-10 Moderately Informative Direct
Biological Process (BP) lipid metabolic process 4.788e-08 Moderately Informative Direct
Biological Process (BP) organic substance transport 8.117e-08 Moderately Informative Direct
Biological Process (BP) macromolecule localization 1.022e-07 Moderately Informative Direct
Biological Process (BP) system process 1.529e-07 Moderately Informative Direct
Biological Process (BP) cellular macromolecule biosynthetic process 2.341e-07 Moderately Informative Direct
Biological Process (BP) cellular localization 6.416e-07 Moderately Informative Direct
Biological Process (BP) organic substance catabolic process 1.746e-06 Moderately Informative Direct
Biological Process (BP) nervous system development 1.841e-06 Moderately Informative Direct
Biological Process (BP) anatomical structure morphogenesis 1.274e-05 Moderately Informative Direct
Biological Process (BP) cell differentiation 3.22e-05 Moderately Informative Direct
Biological Process (BP) regulation of gene expression 3.283e-05 Moderately Informative Direct
Biological Process (BP) cellular response to stress 0.0002907 Moderately Informative Direct
Biological Process (BP) regulation of biological quality 0.01122 Moderately Informative Inherited
Biological Process (BP) lipid localization 1.287e-13 Informative Direct
Biological Process (BP) lipid catabolic process 3.836e-13 Informative Direct
Biological Process (BP) blood circulation 4.703e-13 Informative Direct
Biological Process (BP) regulation of anatomical structure size 9.142e-12 Informative Direct
Biological Process (BP) alcohol metabolic process 5.077e-11 Informative Direct
Biological Process (BP) cellular chemical homeostasis 5.298e-11 Informative Direct
Biological Process (BP) cation homeostasis 7.083e-11 Informative Direct
Biological Process (BP) protein catabolic process 1.089e-10 Informative Direct
Biological Process (BP) cardiovascular system development 1.559e-09 Informative Direct
Biological Process (BP) cell projection organization 1.299e-08 Informative Direct
Biological Process (BP) generation of neurons 1.304e-07 Informative Direct
Biological Process (BP) response to oxidative stress 3.429e-06 Informative Direct
Biological Process (BP) regulation of growth 4.14e-06 Informative Direct
Biological Process (BP) response to wounding 1.548e-05 Informative Direct
Biological Process (BP) artery morphogenesis 0 Highly Informative Direct
Biological Process (BP) lipoprotein metabolic process 0 Highly Informative Direct
Biological Process (BP) steroid catabolic process 0 Highly Informative Direct
Biological Process (BP) organic hydroxy compound transport 0 Highly Informative Direct
Biological Process (BP) vascular process in circulatory system 0 Highly Informative Direct
Biological Process (BP) alcohol catabolic process 0 Highly Informative Direct
Biological Process (BP) response to axon injury 0 Highly Informative Direct
Biological Process (BP) sterol metabolic process 1.086e-14 Highly Informative Direct
Biological Process (BP) maintenance of location 1.086e-14 Highly Informative Direct
Biological Process (BP) cellular calcium ion homeostasis 2.448e-13 Highly Informative Direct
Biological Process (BP) neuron projection development 1.679e-09 Highly Informative Direct
Biological Process (BP) regulation of multicellular organism growth 4.41e-07 Highly Informative Direct
Molecular Function (MF) binding 0.02014 Least Informative Inherited
Molecular Function (MF) transporter activity 2.344e-08 Moderately Informative Direct
Molecular Function (MF) lipid transporter activity 0 Highly Informative Direct
Cellular Component (CC) extracellular region part 6.964e-14 Moderately Informative Direct
Cellular Component (CC) extracellular space 0 Informative Direct

Document: GO annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTransport9.72e-10Least InformativeDirect
Biological processLipid transport2.085e-15InformativeDirect
Cellular componentSecreted2.637e-08Moderately InformativeDirect
Post-translational modificationOxidation1.743e-13Highly InformativeDirect

Document: KW annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · 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 1 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 Apolipoprotein 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 1 hidden Markov models representing the Apolipoprotein 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 · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · UniProtKB KeyWords (KW) · Internal database links ]