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 process00.0002533Least InformativeDirect
Biological Process (BP)protein metabolic process00.0003193Least InformativeDirect
Biological Process (BP)organic cyclic compound metabolic process00.000584Least InformativeDirect
Biological Process (BP)regulation of metabolic process00.5629Least InformativeInherited
Biological Process (BP)response to stimulus00.0104Least InformativeInherited
Biological Process (BP)developmental process00.01689Least InformativeInherited
Biological Process (BP)single-organism cellular process00.1143Least InformativeInherited
Biological Process (BP)cellular macromolecule metabolic process00.002315Least InformativeInherited
Biological Process (BP)localization00.004019Least InformativeInherited
Biological Process (BP)cellular component organization or biogenesis00.006664Least InformativeInherited
Biological Process (BP)single-organism metabolic process00.003818Least InformativeInherited
Biological Process (BP)multicellular organismal process00.02319Least InformativeInherited
Biological Process (BP)organic hydroxy compound metabolic process00.00000003322Moderately InformativeDirect
Biological Process (BP)lipid metabolic process00.0000008205Moderately InformativeDirect
Biological Process (BP)organic substance transport00.000001312Moderately InformativeDirect
Biological Process (BP)macromolecule localization00.000001479Moderately InformativeDirect
Biological Process (BP)single-organism catabolic process00.00000203Moderately InformativeDirect
Biological Process (BP)cellular macromolecule biosynthetic process00.00000319Moderately InformativeDirect
Biological Process (BP)cellular localization00.000008064Moderately InformativeDirect
Biological Process (BP)organic substance catabolic process00.00001786Moderately InformativeDirect
Biological Process (BP)nervous system development00.00001863Moderately InformativeDirect
Biological Process (BP)anatomical structure morphogenesis00.00009502Moderately InformativeDirect
Biological Process (BP)cell differentiation00.0002181Moderately InformativeDirect
Biological Process (BP)regulation of gene expression00.0002898Moderately InformativeDirect
Biological Process (BP)regulation of biological quality00.02613Moderately InformativeInherited
Biological Process (BP)cellular response to stress00.00103Moderately InformativeInherited
Biological Process (BP)response to external stimulus00.001593Moderately InformativeInherited
Biological Process (BP)organic hydroxy compound transport00.000000000000635InformativeDirect
Biological Process (BP)lipid localization00.00000000001593InformativeDirect
Biological Process (BP)lipid catabolic process00.00000000003748InformativeDirect
Biological Process (BP)blood circulation00.00000000004507InformativeDirect
Biological Process (BP)regulation of anatomical structure size00.0000000005546InformativeDirect
Biological Process (BP)cellular chemical homeostasis00.000000002143InformativeDirect
Biological Process (BP)alcohol metabolic process00.000000002708InformativeDirect
Biological Process (BP)cation homeostasis00.000000002823InformativeDirect
Biological Process (BP)protein catabolic process00.000000004967InformativeDirect
Biological Process (BP)response to nutrient levels00.00000001007InformativeDirect
Biological Process (BP)cardiovascular system development00.00000004391InformativeDirect
Biological Process (BP)cell projection organization00.0000002853InformativeDirect
Biological Process (BP)generation of neurons00.000001963InformativeDirect
Biological Process (BP)response to oxidative stress00.00002431InformativeDirect
Biological Process (BP)steroid catabolic process00Highly InformativeDirect
Biological Process (BP)sterol transport00.000000000000001913Highly InformativeDirect
Biological Process (BP)artery morphogenesis00.000000000000003707Highly InformativeDirect
Biological Process (BP)response to axon injury00.000000000000007248Highly InformativeDirect
Biological Process (BP)vascular process in circulatory system00.00000000000003082Highly InformativeDirect
Biological Process (BP)alcohol catabolic process00.00000000000003735Highly InformativeDirect
Biological Process (BP)lipoprotein metabolic process00.0000000000001622Highly InformativeDirect
Biological Process (BP)sterol metabolic process00.000000000001722Highly InformativeDirect
Biological Process (BP)maintenance of location00.000000000008897Highly InformativeDirect
Biological Process (BP)cellular calcium ion homeostasis00.00000000002484Highly InformativeDirect
Biological Process (BP)neuron projection development00.00000004853Highly InformativeDirect
Molecular Function (MF)binding00.04796Least InformativeInherited
Molecular Function (MF)transporter activity00.0000004479Moderately InformativeDirect
Molecular Function (MF)lipid transporter activity00.00000000000001212Highly InformativeDirect
Cellular Component (CC)extracellular region part00.000000000001255Moderately 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 0.0002533 Least Informative Direct
Biological Process (BP) protein metabolic process 0.0003193 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 0.000584 Least Informative Direct
Biological Process (BP) regulation of metabolic process 0.5629 Least Informative Inherited
Biological Process (BP) response to stimulus 0.0104 Least Informative Inherited
Biological Process (BP) developmental process 0.01689 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.1143 Least Informative Inherited
Biological Process (BP) cellular macromolecule metabolic process 0.002315 Least Informative Inherited
Biological Process (BP) localization 0.004019 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.006664 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 0.003818 Least Informative Inherited
Biological Process (BP) multicellular organismal process 0.02319 Least Informative Inherited
Biological Process (BP) organic hydroxy compound metabolic process 0.00000003322 Moderately Informative Direct
Biological Process (BP) lipid metabolic process 0.0000008205 Moderately Informative Direct
Biological Process (BP) organic substance transport 0.000001312 Moderately Informative Direct
Biological Process (BP) macromolecule localization 0.000001479 Moderately Informative Direct
Biological Process (BP) single-organism catabolic process 0.00000203 Moderately Informative Direct
Biological Process (BP) cellular macromolecule biosynthetic process 0.00000319 Moderately Informative Direct
Biological Process (BP) cellular localization 0.000008064 Moderately Informative Direct
Biological Process (BP) organic substance catabolic process 0.00001786 Moderately Informative Direct
Biological Process (BP) nervous system development 0.00001863 Moderately Informative Direct
Biological Process (BP) anatomical structure morphogenesis 0.00009502 Moderately Informative Direct
Biological Process (BP) cell differentiation 0.0002181 Moderately Informative Direct
Biological Process (BP) regulation of gene expression 0.0002898 Moderately Informative Direct
Biological Process (BP) regulation of biological quality 0.02613 Moderately Informative Inherited
Biological Process (BP) cellular response to stress 0.00103 Moderately Informative Inherited
Biological Process (BP) response to external stimulus 0.001593 Moderately Informative Inherited
Biological Process (BP) organic hydroxy compound transport 0.000000000000635 Informative Direct
Biological Process (BP) lipid localization 0.00000000001593 Informative Direct
Biological Process (BP) lipid catabolic process 0.00000000003748 Informative Direct
Biological Process (BP) blood circulation 0.00000000004507 Informative Direct
Biological Process (BP) regulation of anatomical structure size 0.0000000005546 Informative Direct
Biological Process (BP) cellular chemical homeostasis 0.000000002143 Informative Direct
Biological Process (BP) alcohol metabolic process 0.000000002708 Informative Direct
Biological Process (BP) cation homeostasis 0.000000002823 Informative Direct
Biological Process (BP) protein catabolic process 0.000000004967 Informative Direct
Biological Process (BP) response to nutrient levels 0.00000001007 Informative Direct
Biological Process (BP) cardiovascular system development 0.00000004391 Informative Direct
Biological Process (BP) cell projection organization 0.0000002853 Informative Direct
Biological Process (BP) generation of neurons 0.000001963 Informative Direct
Biological Process (BP) response to oxidative stress 0.00002431 Informative Direct
Biological Process (BP) steroid catabolic process 0 Highly Informative Direct
Biological Process (BP) sterol transport 0.000000000000001913 Highly Informative Direct
Biological Process (BP) artery morphogenesis 0.000000000000003707 Highly Informative Direct
Biological Process (BP) response to axon injury 0.000000000000007248 Highly Informative Direct
Biological Process (BP) vascular process in circulatory system 0.00000000000003082 Highly Informative Direct
Biological Process (BP) alcohol catabolic process 0.00000000000003735 Highly Informative Direct
Biological Process (BP) lipoprotein metabolic process 0.0000000000001622 Highly Informative Direct
Biological Process (BP) sterol metabolic process 0.000000000001722 Highly Informative Direct
Biological Process (BP) maintenance of location 0.000000000008897 Highly Informative Direct
Biological Process (BP) cellular calcium ion homeostasis 0.00000000002484 Highly Informative Direct
Biological Process (BP) neuron projection development 0.00000004853 Highly Informative Direct
Molecular Function (MF) binding 0.04796 Least Informative Inherited
Molecular Function (MF) transporter activity 0.0000004479 Moderately Informative Direct
Molecular Function (MF) lipid transporter activity 0.00000000000001212 Highly Informative Direct
Cellular Component (CC) extracellular region part 0.000000000001255 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 ]