SUPERFAMILY 1.75 HMM library and genome assignments server

Please note: Superfamily is currently under maintenance and some functionality may be limited. Please bear with us as we fix these problems.


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 process00.00004066Least InformativeDirect
Biological Process (BP)protein metabolic process00.00004907Least InformativeDirect
Biological Process (BP)organic cyclic compound metabolic process00.000102Least InformativeDirect
Biological Process (BP)single-organism metabolic process00.0001492Least InformativeDirect
Biological Process (BP)cellular macromolecule metabolic process00.0005505Least InformativeDirect
Biological Process (BP)localization00.0009289Least InformativeDirect
Biological Process (BP)regulation of metabolic process00.3965Least InformativeInherited
Biological Process (BP)single-organism cellular process00.03145Least InformativeInherited
Biological Process (BP)developmental process00.005985Least InformativeInherited
Biological Process (BP)multicellular organismal process00.01088Least InformativeInherited
Biological Process (BP)cellular component organization or biogenesis00.00168Least InformativeInherited
Biological Process (BP)response to stimulus00.003962Least InformativeInherited
Biological Process (BP)regulation of multicellular organismal process00.0000000000003144Moderately InformativeDirect
Biological Process (BP)organic hydroxy compound metabolic process00.0000000007857Moderately InformativeDirect
Biological Process (BP)organic cyclic compound catabolic process00.000000007141Moderately InformativeDirect
Biological Process (BP)organic substance transport00.000000081Moderately InformativeDirect
Biological Process (BP)macromolecule localization00.0000001017Moderately InformativeDirect
Biological Process (BP)system process00.0000001489Moderately InformativeDirect
Biological Process (BP)cellular macromolecule biosynthetic process00.0000002329Moderately InformativeDirect
Biological Process (BP)cellular localization00.0000006266Moderately InformativeDirect
Biological Process (BP)nervous system development00.000001816Moderately InformativeDirect
Biological Process (BP)anatomical structure morphogenesis00.00001263Moderately InformativeDirect
Biological Process (BP)regulation of gene expression00.0000311Moderately InformativeDirect
Biological Process (BP)cell differentiation00.00003193Moderately InformativeDirect
Biological Process (BP)cellular response to stress00.0002807Moderately InformativeDirect
Biological Process (BP)single-organism developmental process00.0004189Moderately InformativeDirect
Biological Process (BP)regulation of biological quality00.01096Moderately InformativeInherited
Biological Process (BP)lipid localization00.00000000000013InformativeDirect
Biological Process (BP)lipid catabolic process00.000000000000378InformativeDirect
Biological Process (BP)blood circulation00.0000000000004733InformativeDirect
Biological Process (BP)cellular chemical homeostasis00.00000000004851InformativeDirect
Biological Process (BP)alcohol metabolic process00.00000000005023InformativeDirect
Biological Process (BP)cation homeostasis00.0000000000653InformativeDirect
Biological Process (BP)protein catabolic process00.0000000001072InformativeDirect
Biological Process (BP)cardiovascular system development00.000000001569InformativeDirect
Biological Process (BP)cell projection organization00.00000001281InformativeDirect
Biological Process (BP)generation of neurons00.000000129InformativeDirect
Biological Process (BP)response to oxidative stress00.00000328InformativeDirect
Biological Process (BP)regulation of growth00.000004088InformativeDirect
Biological Process (BP)response to wounding00.00001567InformativeDirect
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 process00.00000000000001083Highly InformativeDirect
Biological Process (BP)maintenance of location00.00000000000001083Highly InformativeDirect
Biological Process (BP)cellular calcium ion homeostasis00.0000000000002456Highly InformativeDirect
Biological Process (BP)neuron projection development00.000000001698Highly InformativeDirect
Biological Process (BP)regulation of multicellular organism growth00.000000463Highly InformativeDirect
Molecular Function (MF)binding00.01976Least InformativeInherited
Molecular Function (MF)transporter activity00.00000002372Moderately InformativeDirect
Molecular Function (MF)lipid transporter activity00Highly InformativeDirect
Cellular Component (CC)extracellular region part00.00000000000006967Moderately 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 0.00004066 Least Informative Direct
Biological Process (BP) protein metabolic process 0.00004907 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 0.000102 Least Informative Direct
Biological Process (BP) single-organism metabolic process 0.0001492 Least Informative Direct
Biological Process (BP) cellular macromolecule metabolic process 0.0005505 Least Informative Direct
Biological Process (BP) localization 0.0009289 Least Informative Direct
Biological Process (BP) regulation of metabolic process 0.3965 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.03145 Least Informative Inherited
Biological Process (BP) developmental process 0.005985 Least Informative Inherited
Biological Process (BP) multicellular organismal process 0.01088 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.00168 Least Informative Inherited
Biological Process (BP) response to stimulus 0.003962 Least Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 0.0000000000003144 Moderately Informative Direct
Biological Process (BP) organic hydroxy compound metabolic process 0.0000000007857 Moderately Informative Direct
Biological Process (BP) organic cyclic compound catabolic process 0.000000007141 Moderately Informative Direct
Biological Process (BP) organic substance transport 0.000000081 Moderately Informative Direct
Biological Process (BP) macromolecule localization 0.0000001017 Moderately Informative Direct
Biological Process (BP) system process 0.0000001489 Moderately Informative Direct
Biological Process (BP) cellular macromolecule biosynthetic process 0.0000002329 Moderately Informative Direct
Biological Process (BP) cellular localization 0.0000006266 Moderately Informative Direct
Biological Process (BP) nervous system development 0.000001816 Moderately Informative Direct
Biological Process (BP) anatomical structure morphogenesis 0.00001263 Moderately Informative Direct
Biological Process (BP) regulation of gene expression 0.0000311 Moderately Informative Direct
Biological Process (BP) cell differentiation 0.00003193 Moderately Informative Direct
Biological Process (BP) cellular response to stress 0.0002807 Moderately Informative Direct
Biological Process (BP) single-organism developmental process 0.0004189 Moderately Informative Direct
Biological Process (BP) regulation of biological quality 0.01096 Moderately Informative Inherited
Biological Process (BP) lipid localization 0.00000000000013 Informative Direct
Biological Process (BP) lipid catabolic process 0.000000000000378 Informative Direct
Biological Process (BP) blood circulation 0.0000000000004733 Informative Direct
Biological Process (BP) cellular chemical homeostasis 0.00000000004851 Informative Direct
Biological Process (BP) alcohol metabolic process 0.00000000005023 Informative Direct
Biological Process (BP) cation homeostasis 0.0000000000653 Informative Direct
Biological Process (BP) protein catabolic process 0.0000000001072 Informative Direct
Biological Process (BP) cardiovascular system development 0.000000001569 Informative Direct
Biological Process (BP) cell projection organization 0.00000001281 Informative Direct
Biological Process (BP) generation of neurons 0.000000129 Informative Direct
Biological Process (BP) response to oxidative stress 0.00000328 Informative Direct
Biological Process (BP) regulation of growth 0.000004088 Informative Direct
Biological Process (BP) response to wounding 0.00001567 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 0.00000000000001083 Highly Informative Direct
Biological Process (BP) maintenance of location 0.00000000000001083 Highly Informative Direct
Biological Process (BP) cellular calcium ion homeostasis 0.0000000000002456 Highly Informative Direct
Biological Process (BP) neuron projection development 0.000000001698 Highly Informative Direct
Biological Process (BP) regulation of multicellular organism growth 0.000000463 Highly Informative Direct
Molecular Function (MF) binding 0.01976 Least Informative Inherited
Molecular Function (MF) transporter activity 0.00000002372 Moderately Informative Direct
Molecular Function (MF) lipid transporter activity 0 Highly Informative Direct
Cellular Component (CC) extracellular region part 0.00000000000006967 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 processTransport0.0000000009635Least InformativeDirect
Biological processLipid transport0.000000000000002318InformativeDirect
Cellular componentSecreted0.00000002645Moderately InformativeDirect
Post-translational modificationOxidation0.0000000000001761Highly 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 ]