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 (256) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 315 923 11
Proteins 301 910 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 process00.00004111Least InformativeDirect
Biological Process (BP)protein metabolic process00.00004997Least 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 process00.000000000000348Moderately InformativeDirect
Biological Process (BP)organic hydroxy compound metabolic process00.0000000007373Moderately InformativeDirect
Biological Process (BP)lipid metabolic process00.00000004788Moderately InformativeDirect
Biological Process (BP)organic substance transport00.00000008117Moderately InformativeDirect
Biological Process (BP)macromolecule localization00.0000001022Moderately InformativeDirect
Biological Process (BP)system process00.0000001529Moderately InformativeDirect
Biological Process (BP)cellular macromolecule biosynthetic process00.0000002341Moderately InformativeDirect
Biological Process (BP)cellular localization00.0000006416Moderately InformativeDirect
Biological Process (BP)organic substance catabolic process00.000001746Moderately InformativeDirect
Biological Process (BP)nervous system development00.000001841Moderately InformativeDirect
Biological Process (BP)anatomical structure morphogenesis00.00001274Moderately InformativeDirect
Biological Process (BP)cell differentiation00.0000322Moderately InformativeDirect
Biological Process (BP)regulation of gene expression00.00003283Moderately InformativeDirect
Biological Process (BP)cellular response to stress00.0002907Moderately InformativeDirect
Biological Process (BP)regulation of biological quality00.01122Moderately InformativeInherited
Biological Process (BP)lipid localization00.0000000000001287InformativeDirect
Biological Process (BP)lipid catabolic process00.0000000000003836InformativeDirect
Biological Process (BP)blood circulation00.0000000000004703InformativeDirect
Biological Process (BP)regulation of anatomical structure size00.000000000009142InformativeDirect
Biological Process (BP)alcohol metabolic process00.00000000005077InformativeDirect
Biological Process (BP)cellular chemical homeostasis00.00000000005298InformativeDirect
Biological Process (BP)cation homeostasis00.00000000007083InformativeDirect
Biological Process (BP)protein catabolic process00.0000000001089InformativeDirect
Biological Process (BP)cardiovascular system development00.000000001559InformativeDirect
Biological Process (BP)cell projection organization00.00000001299InformativeDirect
Biological Process (BP)generation of neurons00.0000001304InformativeDirect
Biological Process (BP)response to oxidative stress00.000003429InformativeDirect
Biological Process (BP)regulation of growth00.00000414InformativeDirect
Biological Process (BP)response to wounding00.00001548InformativeDirect
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 process00.00000000000001086Highly InformativeDirect
Biological Process (BP)maintenance of location00.00000000000001086Highly InformativeDirect
Biological Process (BP)cellular calcium ion homeostasis00.0000000000002448Highly InformativeDirect
Biological Process (BP)neuron projection development00.000000001679Highly InformativeDirect
Biological Process (BP)regulation of multicellular organism growth00.000000441Highly InformativeDirect
Molecular Function (MF)binding00.02014Least InformativeInherited
Molecular Function (MF)transporter activity00.00000002344Moderately InformativeDirect
Molecular Function (MF)lipid transporter activity00Highly InformativeDirect
Cellular Component (CC)extracellular region part00.00000000000006964Moderately 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 0.00004111 Least Informative Direct
Biological Process (BP) protein metabolic process 0.00004997 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 0.000000000000348 Moderately Informative Direct
Biological Process (BP) organic hydroxy compound metabolic process 0.0000000007373 Moderately Informative Direct
Biological Process (BP) lipid metabolic process 0.00000004788 Moderately Informative Direct
Biological Process (BP) organic substance transport 0.00000008117 Moderately Informative Direct
Biological Process (BP) macromolecule localization 0.0000001022 Moderately Informative Direct
Biological Process (BP) system process 0.0000001529 Moderately Informative Direct
Biological Process (BP) cellular macromolecule biosynthetic process 0.0000002341 Moderately Informative Direct
Biological Process (BP) cellular localization 0.0000006416 Moderately Informative Direct
Biological Process (BP) organic substance catabolic process 0.000001746 Moderately Informative Direct
Biological Process (BP) nervous system development 0.000001841 Moderately Informative Direct
Biological Process (BP) anatomical structure morphogenesis 0.00001274 Moderately Informative Direct
Biological Process (BP) cell differentiation 0.0000322 Moderately Informative Direct
Biological Process (BP) regulation of gene expression 0.00003283 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 0.0000000000001287 Informative Direct
Biological Process (BP) lipid catabolic process 0.0000000000003836 Informative Direct
Biological Process (BP) blood circulation 0.0000000000004703 Informative Direct
Biological Process (BP) regulation of anatomical structure size 0.000000000009142 Informative Direct
Biological Process (BP) alcohol metabolic process 0.00000000005077 Informative Direct
Biological Process (BP) cellular chemical homeostasis 0.00000000005298 Informative Direct
Biological Process (BP) cation homeostasis 0.00000000007083 Informative Direct
Biological Process (BP) protein catabolic process 0.0000000001089 Informative Direct
Biological Process (BP) cardiovascular system development 0.000000001559 Informative Direct
Biological Process (BP) cell projection organization 0.00000001299 Informative Direct
Biological Process (BP) generation of neurons 0.0000001304 Informative Direct
Biological Process (BP) response to oxidative stress 0.000003429 Informative Direct
Biological Process (BP) regulation of growth 0.00000414 Informative Direct
Biological Process (BP) response to wounding 0.00001548 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 0.00000000000001086 Highly Informative Direct
Biological Process (BP) maintenance of location 0.00000000000001086 Highly Informative Direct
Biological Process (BP) cellular calcium ion homeostasis 0.0000000000002448 Highly Informative Direct
Biological Process (BP) neuron projection development 0.000000001679 Highly Informative Direct
Biological Process (BP) regulation of multicellular organism growth 0.000000441 Highly Informative Direct
Molecular Function (MF) binding 0.02014 Least Informative Inherited
Molecular Function (MF) transporter activity 0.00000002344 Moderately Informative Direct
Molecular Function (MF) lipid transporter activity 0 Highly Informative Direct
Cellular Component (CC) extracellular region part 0.00000000000006964 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 processTransport0.000000000972Least InformativeDirect
Biological processLipid transport0.000000000000002085InformativeDirect
Cellular componentSecreted0.00000002637Moderately InformativeDirect
Post-translational modificationOxidation0.0000000000001743Highly 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 ]