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 process03.565e-05Least InformativeDirect
Biological Process (BP)protein metabolic process04.631e-05Least InformativeDirect
Biological Process (BP)organic cyclic compound metabolic process09.243e-05Least InformativeDirect
Biological Process (BP)single-organism metabolic process00.0001291Least InformativeDirect
Biological Process (BP)cellular macromolecule metabolic process00.0005146Least InformativeDirect
Biological Process (BP)localization00.0008768Least InformativeDirect
Biological Process (BP)regulation of metabolic process00.3966Least InformativeInherited
Biological Process (BP)single-organism cellular process00.02947Least InformativeInherited
Biological Process (BP)developmental process00.005716Least InformativeInherited
Biological Process (BP)multicellular organismal process00.01039Least InformativeInherited
Biological Process (BP)cellular component organization or biogenesis00.001578Least InformativeInherited
Biological Process (BP)response to stimulus00.003617Least InformativeInherited
Biological Process (BP)regulation of multicellular organismal process02.8e-13Moderately InformativeDirect
Biological Process (BP)organic hydroxy compound metabolic process06.516e-10Moderately InformativeDirect
Biological Process (BP)organic cyclic compound catabolic process06.285e-09Moderately InformativeDirect
Biological Process (BP)homeostatic process02.325e-08Moderately InformativeDirect
Biological Process (BP)organic substance transport07.547e-08Moderately InformativeDirect
Biological Process (BP)macromolecule localization09.474e-08Moderately InformativeDirect
Biological Process (BP)system process01.404e-07Moderately InformativeDirect
Biological Process (BP)cellular macromolecule biosynthetic process02.131e-07Moderately InformativeDirect
Biological Process (BP)cellular localization05.762e-07Moderately InformativeDirect
Biological Process (BP)nervous system development01.703e-06Moderately InformativeDirect
Biological Process (BP)anatomical structure morphogenesis01.203e-05Moderately InformativeDirect
Biological Process (BP)regulation of gene expression02.91e-05Moderately InformativeDirect
Biological Process (BP)cell differentiation03.045e-05Moderately InformativeDirect
Biological Process (BP)cellular response to stress00.0002753Moderately InformativeDirect
Biological Process (BP)lipid localization01.166e-13InformativeDirect
Biological Process (BP)lipid catabolic process03.338e-13InformativeDirect
Biological Process (BP)blood circulation04.367e-13InformativeDirect
Biological Process (BP)regulation of anatomical structure size07.088e-12InformativeDirect
Biological Process (BP)metal ion homeostasis01.344e-11InformativeDirect
Biological Process (BP)cellular cation homeostasis01.612e-11InformativeDirect
Biological Process (BP)alcohol metabolic process04.419e-11InformativeDirect
Biological Process (BP)protein catabolic process09.628e-11InformativeDirect
Biological Process (BP)cardiovascular system development01.468e-09InformativeDirect
Biological Process (BP)cell projection organization01.224e-08InformativeDirect
Biological Process (BP)generation of neurons01.233e-07InformativeDirect
Biological Process (BP)response to oxidative stress03.238e-06InformativeDirect
Biological Process (BP)regulation of growth04.04e-06InformativeDirect
Biological Process (BP)response to wounding01.634e-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 process09.182e-15Highly InformativeDirect
Biological Process (BP)maintenance of location01.091e-14Highly InformativeDirect
Biological Process (BP)cellular calcium ion homeostasis02.271e-13Highly InformativeDirect
Biological Process (BP)axon development01.737e-10Highly InformativeDirect
Biological Process (BP)regulation of multicellular organism growth04.76e-07Highly InformativeDirect
Molecular Function (MF)binding00.01821Least InformativeInherited
Molecular Function (MF)transporter activity02.284e-08Moderately InformativeDirect
Molecular Function (MF)lipid transporter activity00Highly InformativeDirect
Cellular Component (CC)extracellular region part05.425e-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 3.565e-05 Least Informative Direct
Biological Process (BP) protein metabolic process 4.631e-05 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 9.243e-05 Least Informative Direct
Biological Process (BP) single-organism metabolic process 0.0001291 Least Informative Direct
Biological Process (BP) cellular macromolecule metabolic process 0.0005146 Least Informative Direct
Biological Process (BP) localization 0.0008768 Least Informative Direct
Biological Process (BP) regulation of metabolic process 0.3966 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.02947 Least Informative Inherited
Biological Process (BP) developmental process 0.005716 Least Informative Inherited
Biological Process (BP) multicellular organismal process 0.01039 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.001578 Least Informative Inherited
Biological Process (BP) response to stimulus 0.003617 Least Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 2.8e-13 Moderately Informative Direct
Biological Process (BP) organic hydroxy compound metabolic process 6.516e-10 Moderately Informative Direct
Biological Process (BP) organic cyclic compound catabolic process 6.285e-09 Moderately Informative Direct
Biological Process (BP) homeostatic process 2.325e-08 Moderately Informative Direct
Biological Process (BP) organic substance transport 7.547e-08 Moderately Informative Direct
Biological Process (BP) macromolecule localization 9.474e-08 Moderately Informative Direct
Biological Process (BP) system process 1.404e-07 Moderately Informative Direct
Biological Process (BP) cellular macromolecule biosynthetic process 2.131e-07 Moderately Informative Direct
Biological Process (BP) cellular localization 5.762e-07 Moderately Informative Direct
Biological Process (BP) nervous system development 1.703e-06 Moderately Informative Direct
Biological Process (BP) anatomical structure morphogenesis 1.203e-05 Moderately Informative Direct
Biological Process (BP) regulation of gene expression 2.91e-05 Moderately Informative Direct
Biological Process (BP) cell differentiation 3.045e-05 Moderately Informative Direct
Biological Process (BP) cellular response to stress 0.0002753 Moderately Informative Direct
Biological Process (BP) lipid localization 1.166e-13 Informative Direct
Biological Process (BP) lipid catabolic process 3.338e-13 Informative Direct
Biological Process (BP) blood circulation 4.367e-13 Informative Direct
Biological Process (BP) regulation of anatomical structure size 7.088e-12 Informative Direct
Biological Process (BP) metal ion homeostasis 1.344e-11 Informative Direct
Biological Process (BP) cellular cation homeostasis 1.612e-11 Informative Direct
Biological Process (BP) alcohol metabolic process 4.419e-11 Informative Direct
Biological Process (BP) protein catabolic process 9.628e-11 Informative Direct
Biological Process (BP) cardiovascular system development 1.468e-09 Informative Direct
Biological Process (BP) cell projection organization 1.224e-08 Informative Direct
Biological Process (BP) generation of neurons 1.233e-07 Informative Direct
Biological Process (BP) response to oxidative stress 3.238e-06 Informative Direct
Biological Process (BP) regulation of growth 4.04e-06 Informative Direct
Biological Process (BP) response to wounding 1.634e-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 9.182e-15 Highly Informative Direct
Biological Process (BP) maintenance of location 1.091e-14 Highly Informative Direct
Biological Process (BP) cellular calcium ion homeostasis 2.271e-13 Highly Informative Direct
Biological Process (BP) axon development 1.737e-10 Highly Informative Direct
Biological Process (BP) regulation of multicellular organism growth 4.76e-07 Highly Informative Direct
Molecular Function (MF) binding 0.01821 Least Informative Inherited
Molecular Function (MF) transporter activity 2.284e-08 Moderately Informative Direct
Molecular Function (MF) lipid transporter activity 0 Highly Informative Direct
Cellular Component (CC) extracellular region part 5.425e-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 processTransport9.635e-10Least InformativeDirect
Biological processLipid transport2.318e-15InformativeDirect
Cellular componentSecreted2.645e-08Moderately InformativeDirect
Post-translational modificationOxidation1.761e-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 ]