SUPERFAMILY 1.75 HMM library and genome assignments server


Saposin superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   Saposin-like [ 47861] (2)
Superfamily:   Saposin [ 47862] (4)
Families:   Saposin B [ 81806]
  NKL-like [ 47863] (3)
  Ameobapore A [ 101266]
  Swaposin [ 47866]


Superfamily statistics
Genomes (236) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 3,005 3,578 9
Proteins 1,726 1,926 9


Functional annotation
General category Processes_IC
Detailed category Protein modification

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)localization9.465e-058.693e-05Least 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) localization 8.693e-05 Least Informative Direct
Biological Process (BP) response to stimulus 3.752e-07 Least Informative Direct
Biological Process (BP) developmental process 0.0001692 Least Informative Direct
Biological Process (BP) single-organism metabolic process 0.0003055 Least Informative Direct
Biological Process (BP) multicellular organismal process 0.0003721 Least Informative Direct
Biological Process (BP) single-organism cellular process 1 Least Informative Inherited
Biological Process (BP) cellular macromolecule metabolic process 1 Least Informative Inherited
Biological Process (BP) nitrogen compound metabolic process 0.4145 Least Informative Inherited
Biological Process (BP) biosynthetic process 0.419 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 0.009274 Least Informative Inherited
Biological Process (BP) regulation of cellular process 1 Least Informative Inherited
Biological Process (BP) cellular lipid metabolic process 4.343e-13 Moderately Informative Direct
Biological Process (BP) reproduction 1.106e-11 Moderately Informative Direct
Biological Process (BP) tissue development 5.087e-09 Moderately Informative Direct
Biological Process (BP) cellular response to chemical stimulus 8.917e-09 Moderately Informative Direct
Biological Process (BP) cell differentiation 3.667e-08 Moderately Informative Direct
Biological Process (BP) organ development 6.631e-06 Moderately Informative Direct
Biological Process (BP) carbohydrate derivative metabolic process 6.364e-05 Moderately Informative Direct
Biological Process (BP) response to organic substance 9.225e-05 Moderately Informative Direct
Biological Process (BP) carbohydrate metabolic process 0.0003431 Moderately Informative Direct
Biological Process (BP) organic hydroxy compound metabolic process 0.0004739 Moderately Informative Direct
Biological Process (BP) organonitrogen compound biosynthetic process 0.0007249 Moderately Informative Direct
Biological Process (BP) single-organism developmental process 0.05335 Moderately Informative Inherited
Biological Process (BP) lipid biosynthetic process 0.007621 Moderately Informative Inherited
Biological Process (BP) organic substance catabolic process 0.07639 Moderately Informative Inherited
Biological Process (BP) cellular catabolic process 0.09233 Moderately Informative Inherited
Biological Process (BP) regulation of signal transduction 0.06967 Moderately Informative Inherited
Biological Process (BP) organophosphate metabolic process 0.01892 Moderately Informative Inherited
Biological Process (BP) phosphate-containing compound metabolic process 0.2188 Moderately Informative Inherited
Biological Process (BP) reproductive system development 0 Informative Direct
Biological Process (BP) cellular process involved in reproduction 0 Informative Direct
Biological Process (BP) regulation of intracellular protein kinase cascade 0 Informative Direct
Biological Process (BP) gland development 0 Informative Direct
Biological Process (BP) epithelium development 0 Informative Direct
Biological Process (BP) regulation of lipid metabolic process 0 Informative Direct
Biological Process (BP) growth 0 Informative Direct
Biological Process (BP) developmental process involved in reproduction 7.281e-15 Informative Direct
Biological Process (BP) cellular biogenic amine metabolic process 1.579e-07 Informative Direct
Biological Process (BP) polysaccharide metabolic process 4.442e-07 Informative Direct
Biological Process (BP) cellular amide metabolic process 9.818e-07 Informative Direct
Biological Process (BP) cellular carbohydrate metabolic process 8.977e-06 Informative Direct
Biological Process (BP) alcohol metabolic process 3.447e-05 Informative Direct
Biological Process (BP) membrane lipid metabolic process 0.0002264 Informative Direct
Biological Process (BP) lipid catabolic process 0.0004422 Informative Direct
Biological Process (BP) regulation of response to external stimulus 0.1008 Informative Inherited
Biological Process (BP) vesicle-mediated transport 0.1823 Informative Inherited
Biological Process (BP) negative regulation of response to stimulus 0.1273 Informative Inherited
Biological Process (BP) regulation of response to stress 0.9697 Informative Inherited
Biological Process (BP) phospholipid metabolic process 0.002104 Informative Inherited
Biological Process (BP) organophosphate catabolic process 0.002275 Informative Inherited
Biological Process (BP) developmental growth 0 Highly Informative Direct
Biological Process (BP) ethanolamine-containing compound metabolic process 1.366e-10 Highly Informative Direct
Biological Process (BP) lipopolysaccharide metabolic process 2.665e-10 Highly Informative Direct
Biological Process (BP) sphingolipid biosynthetic process 4.248e-10 Highly Informative Direct
Biological Process (BP) negative regulation of response to external stimulus 4.599e-08 Highly Informative Direct
Biological Process (BP) alcohol catabolic process 5.29e-06 Highly Informative Direct
Biological Process (BP) ceramide metabolic process 0.00541 Highly Informative Inherited
Molecular Function (MF) hydrolase activity 7.037e-05 Least Informative Direct
Molecular Function (MF) hydrolase activity, acting on ester bonds 1.846e-07 Moderately Informative Direct
Molecular Function (MF) phosphoric ester hydrolase activity 0.8073 Informative Inherited
Molecular Function (MF) phosphoric diester hydrolase activity 3.787e-09 Highly Informative Direct
Molecular Function (MF) carboxylic ester hydrolase activity 8.081e-05 Highly Informative Direct
Molecular Function (MF) lipase activity 0.0003916 Highly Informative Direct
Cellular Component (CC) cytoplasmic part 1.279e-06 Least Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 9.735e-05 Least Informative Direct
Cellular Component (CC) extracellular region part 0.0003675 Moderately Informative Direct

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Acting on ester bonds3.905e-06Least InformativeDirect
Enzyme Commission (EC)Phosphoric diester hydrolases1.042e-07Moderately InformativeDirect

Document: EC annotation of SCOP domains

Disease Ontology (DO)

(show details) Document: DO annotation of SCOP domains

Human Phenotype (HP)

(show details)
HP termFDR (all)SDHP levelAnnotation (direct or inherited)
Phenotypic Abnormality (PA)Abnormality of metabolism/homeostasis0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of skeletal morphology0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormal respiratory system morphology0Moderately InformativeDirect
Phenotypic Abnormality (PA)Functional respiratory abnormality0InformativeDirect

Document: HP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)organism metabolism processing variant0.01246Least InformativeInherited
Worm Phenotype (WP)organism environmental stimulus response variant0.0556Least InformativeInherited
Worm Phenotype (WP)cell physiology variant0.9342Least InformativeInherited
Worm Phenotype (WP)cell death variant0.1155Moderately InformativeInherited
Worm Phenotype (WP)cell homeostasis metabolism variant0.1958Moderately InformativeInherited
Worm Phenotype (WP)transgene expression reduced5.116e-13InformativeDirect
Worm Phenotype (WP)organism pathogen response variant0.0002468InformativeDirect
Worm Phenotype (WP)cell stress response variant0.005831InformativeInherited
Worm Phenotype (WP)egg laying variant0.01396InformativeInherited
Worm Phenotype (WP)genotoxic induced apoptosis variant3.127e-07Highly InformativeDirect
Worm Phenotype (WP)germ cell ionizing radiation response variant2.426e-05Highly InformativeDirect
Worm Phenotype (WP)cell ionizing radiation response variant3.089e-05Highly InformativeDirect

Document: WP annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)guard cell0Least InformativeDirect
Plant ANatomical entity (PAN)flower0Least InformativeDirect
Plant ANatomical entity (PAN)collective phyllome structure0Least InformativeDirect
Plant ANatomical entity (PAN)shoot axis0Least InformativeDirect
Plant ANatomical entity (PAN)leaf0Least InformativeDirect
Plant ANatomical entity (PAN)cardinal part of multi-tissue plant structure0Least InformativeDirect

Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Hydrolases0Least InformativeDirect
Enzyme Commission (EC)Phosphoric diester hydrolases1.144e-07InformativeDirect
Enzyme Commission (EC)Carboxylic ester hydrolases0.1526InformativeInherited

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processLipid metabolism2.909e-08Moderately InformativeDirect
Biological processSphingolipid metabolism0Highly InformativeDirect
Cellular componentSecreted0Moderately InformativeDirect
Cellular componentVacuole2.588e-13InformativeDirect
Cellular componentLysosome2.031e-10InformativeDirect
DomainSignal0Least InformativeDirect
Post-translational modificationHydrolase6.663e-08Least InformativeDirect
Post-translational modificationProtease0.0003139Moderately InformativeDirect
Post-translational modificationAntimicrobial5.375e-11InformativeDirect
Post-translational modificationGlycosidase1.864e-05InformativeDirect
Post-translational modificationAspartyl protease0Highly InformativeDirect
Post-translational modificationAntibiotic1.607e-12Highly InformativeDirect
Post-translational modificationDisulfide bond0Least InformativeDirect
Post-translational modificationGlycoprotein1.54e-13Least InformativeDirect
Post-translational modificationZymogen3.918e-09InformativeDirect

Document: KW annotation of SCOP domains

UniProtKB UniPathway (UP)

(show details)
UP termFDR (all)SDUP levelAnnotation (direct or inherited)
UniPathway (UP)lipid metabolism0Least InformativeDirect
UniPathway (UP)membrane lipid metabolism0Moderately InformativeDirect
UniPathway (UP)sphingolipid metabolism0Highly InformativeDirect

Document: UP annotation of SCOP domains

InterPro annotation
Cross references IPR011001 SSF47862 Protein matches
Abstract

The lysosomal degradation of several sphingolipids requires the presence of four small glycoproteins called saposins, generated by proteolytic processing of a common precursor, prosaposin [PubMed9972880]. Saposins have three conserved disulphide bridges, and display a 5-helical, closed, folded leaf topology. Other proteins have been shown to have structures that closely resemble saposin, such as the antimicrobial peptides NK-lysin and granulysin [PubMed8988855, PubMed14499265]. Some proteins contain saposin-like domains, such as prophytepsin, an acid protease from plants, and J3-crystallin, an eye-lens protein from jellyfish, both of which contain circularly permuted saposin motifs called swaposin [PubMed10406799, PubMed11675486]. In some saposins and saposin-like domains, lipid-binding can promote conformational changes and oligomerization.


InterPro database


PDBeMotif information about ligands, sequence and structure motifs
Cross references PDB entries
Ligand binding statistics
Nucleic-acid binding statistics
Occurrence of secondary structure elements
Occurrence of small 3D structural motifs

PDBeMotif resource

Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Disease Ontology (DO) · Human Phenotype (HP) · Worm Phenotype (WP) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) ]

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 6 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 Saposin 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 6 hidden Markov models representing the Saposin 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 · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Disease Ontology (DO) · Human Phenotype (HP) · Worm Phenotype (WP) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) · Internal database links ]