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 (251) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 307 0 11
Proteins 294 0 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 process00.0002029Least InformativeDirect
Biological Process (BP)protein metabolic process00.0002521Least InformativeDirect
Biological Process (BP)organic cyclic compound metabolic process00.0004499Least InformativeDirect
Biological Process (BP)single-organism metabolic process00.0005972Least InformativeDirect
Biological Process (BP)regulation of metabolic process00.5225Least InformativeInherited
Biological Process (BP)single-organism cellular process00.05777Least InformativeInherited
Biological Process (BP)developmental process00.0146Least InformativeInherited
Biological Process (BP)cellular macromolecule metabolic process00.001937Least InformativeInherited
Biological Process (BP)multicellular organismal process00.0242Least InformativeInherited
Biological Process (BP)cellular component organization or biogenesis00.004819Least InformativeInherited
Biological Process (BP)response to stimulus00.008254Least InformativeInherited
Biological Process (BP)localization00.00306Least InformativeInherited
Biological Process (BP)regulation of multicellular organismal process03.295e-12Moderately InformativeDirect
Biological Process (BP)organic hydroxy compound metabolic process01.865e-08Moderately InformativeDirect
Biological Process (BP)homeostatic process03.83e-07Moderately InformativeDirect
Biological Process (BP)organic substance transport01.088e-06Moderately InformativeDirect
Biological Process (BP)macromolecule localization01.27e-06Moderately InformativeDirect
Biological Process (BP)system process01.768e-06Moderately InformativeDirect
Biological Process (BP)cellular macromolecule biosynthetic process02.679e-06Moderately InformativeDirect
Biological Process (BP)cellular localization05.982e-06Moderately InformativeDirect
Biological Process (BP)organic substance catabolic process01.393e-05Moderately InformativeDirect
Biological Process (BP)nervous system development01.486e-05Moderately InformativeDirect
Biological Process (BP)anatomical structure morphogenesis07.754e-05Moderately InformativeDirect
Biological Process (BP)regulation of gene expression00.0001659Moderately InformativeDirect
Biological Process (BP)cell differentiation00.0001695Moderately InformativeDirect
Biological Process (BP)cellular response to stress00.0009673Moderately InformativeDirect
Biological Process (BP)single-organism developmental process00.001509Moderately InformativeInherited
Biological Process (BP)lipid localization01.22e-11InformativeDirect
Biological Process (BP)lipid catabolic process02.93e-11InformativeDirect
Biological Process (BP)blood circulation03.711e-11InformativeDirect
Biological Process (BP)regulation of anatomical structure size03.875e-10InformativeDirect
Biological Process (BP)metal ion homeostasis06.684e-10InformativeDirect
Biological Process (BP)cellular cation homeostasis07.749e-10InformativeDirect
Biological Process (BP)alcohol metabolic process01.88e-09InformativeDirect
Biological Process (BP)protein catabolic process03.58e-09InformativeDirect
Biological Process (BP)cardiovascular system development03.756e-08InformativeDirect
Biological Process (BP)cell projection organization02.218e-07InformativeDirect
Biological Process (BP)generation of neurons01.589e-06InformativeDirect
Biological Process (BP)response to oxidative stress02.06e-05InformativeDirect
Biological Process (BP)regulation of growth03.397e-05InformativeDirect
Biological Process (BP)response to wounding08.496e-05InformativeDirect
Biological Process (BP)steroid catabolic process00Highly InformativeDirect
Biological Process (BP)artery morphogenesis01.922e-15Highly InformativeDirect
Biological Process (BP)response to axon injury03.722e-15Highly InformativeDirect
Biological Process (BP)alcohol catabolic process02.099e-14Highly InformativeDirect
Biological Process (BP)vascular process in circulatory system02.434e-14Highly InformativeDirect
Biological Process (BP)lipoprotein metabolic process01.382e-13Highly InformativeDirect
Biological Process (BP)organic hydroxy compound transport02.066e-13Highly InformativeDirect
Biological Process (BP)maintenance of location01.164e-12Highly InformativeDirect
Biological Process (BP)sterol metabolic process01.385e-12Highly InformativeDirect
Biological Process (BP)cellular calcium ion homeostasis02.11e-11Highly InformativeDirect
Biological Process (BP)axon development06.065e-09Highly InformativeDirect
Biological Process (BP)regulation of multicellular organism growth05.594e-06Highly InformativeDirect
Molecular Function (MF)binding00.03811Least InformativeInherited
Molecular Function (MF)transporter activity03.826e-07Moderately InformativeDirect
Molecular Function (MF)lipid transporter activity08.97e-15Highly InformativeDirect
Cellular Component (CC)extracellular region part05.216e-13Moderately InformativeDirect

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 0.0002029 Least Informative Direct
Biological Process (BP) protein metabolic process 0.0002521 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 0.0004499 Least Informative Direct
Biological Process (BP) single-organism metabolic process 0.0005972 Least Informative Direct
Biological Process (BP) regulation of metabolic process 0.5225 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.05777 Least Informative Inherited
Biological Process (BP) developmental process 0.0146 Least Informative Inherited
Biological Process (BP) cellular macromolecule metabolic process 0.001937 Least Informative Inherited
Biological Process (BP) multicellular organismal process 0.0242 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.004819 Least Informative Inherited
Biological Process (BP) response to stimulus 0.008254 Least Informative Inherited
Biological Process (BP) localization 0.00306 Least Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 3.295e-12 Moderately Informative Direct
Biological Process (BP) organic hydroxy compound metabolic process 1.865e-08 Moderately Informative Direct
Biological Process (BP) homeostatic process 3.83e-07 Moderately Informative Direct
Biological Process (BP) organic substance transport 1.088e-06 Moderately Informative Direct
Biological Process (BP) macromolecule localization 1.27e-06 Moderately Informative Direct
Biological Process (BP) system process 1.768e-06 Moderately Informative Direct
Biological Process (BP) cellular macromolecule biosynthetic process 2.679e-06 Moderately Informative Direct
Biological Process (BP) cellular localization 5.982e-06 Moderately Informative Direct
Biological Process (BP) organic substance catabolic process 1.393e-05 Moderately Informative Direct
Biological Process (BP) nervous system development 1.486e-05 Moderately Informative Direct
Biological Process (BP) anatomical structure morphogenesis 7.754e-05 Moderately Informative Direct
Biological Process (BP) regulation of gene expression 0.0001659 Moderately Informative Direct
Biological Process (BP) cell differentiation 0.0001695 Moderately Informative Direct
Biological Process (BP) cellular response to stress 0.0009673 Moderately Informative Direct
Biological Process (BP) single-organism developmental process 0.001509 Moderately Informative Inherited
Biological Process (BP) lipid localization 1.22e-11 Informative Direct
Biological Process (BP) lipid catabolic process 2.93e-11 Informative Direct
Biological Process (BP) blood circulation 3.711e-11 Informative Direct
Biological Process (BP) regulation of anatomical structure size 3.875e-10 Informative Direct
Biological Process (BP) metal ion homeostasis 6.684e-10 Informative Direct
Biological Process (BP) cellular cation homeostasis 7.749e-10 Informative Direct
Biological Process (BP) alcohol metabolic process 1.88e-09 Informative Direct
Biological Process (BP) protein catabolic process 3.58e-09 Informative Direct
Biological Process (BP) cardiovascular system development 3.756e-08 Informative Direct
Biological Process (BP) cell projection organization 2.218e-07 Informative Direct
Biological Process (BP) generation of neurons 1.589e-06 Informative Direct
Biological Process (BP) response to oxidative stress 2.06e-05 Informative Direct
Biological Process (BP) regulation of growth 3.397e-05 Informative Direct
Biological Process (BP) response to wounding 8.496e-05 Informative Direct
Biological Process (BP) steroid catabolic process 0 Highly Informative Direct
Biological Process (BP) artery morphogenesis 1.922e-15 Highly Informative Direct
Biological Process (BP) response to axon injury 3.722e-15 Highly Informative Direct
Biological Process (BP) alcohol catabolic process 2.099e-14 Highly Informative Direct
Biological Process (BP) vascular process in circulatory system 2.434e-14 Highly Informative Direct
Biological Process (BP) lipoprotein metabolic process 1.382e-13 Highly Informative Direct
Biological Process (BP) organic hydroxy compound transport 2.066e-13 Highly Informative Direct
Biological Process (BP) maintenance of location 1.164e-12 Highly Informative Direct
Biological Process (BP) sterol metabolic process 1.385e-12 Highly Informative Direct
Biological Process (BP) cellular calcium ion homeostasis 2.11e-11 Highly Informative Direct
Biological Process (BP) axon development 6.065e-09 Highly Informative Direct
Biological Process (BP) regulation of multicellular organism growth 5.594e-06 Highly Informative Direct
Molecular Function (MF) binding 0.03811 Least Informative Inherited
Molecular Function (MF) transporter activity 3.826e-07 Moderately Informative Direct
Molecular Function (MF) lipid transporter activity 8.97e-15 Highly Informative Direct
Cellular Component (CC) extracellular region part 5.216e-13 Moderately Informative Direct

Document: GO annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTransport9.585e-10Least InformativeDirect
Biological processLipid transport2.315e-15InformativeDirect
Cellular componentSecreted2.623e-08Moderately InformativeDirect
Post-translational modificationOxidation1.785e-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 ]