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 (246) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 3,132 3,578 9
Proteins 1,804 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)localization0.000550.0002451Least 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 0.0002451 Least Informative Direct
Biological Process (BP) response to stimulus 0.0000004817 Least Informative Direct
Biological Process (BP) developmental process 0.0003746 Least Informative Direct
Biological Process (BP) multicellular organismal process 0.0004301 Least Informative Direct
Biological Process (BP) single-organism cellular process 0.008661 Least Informative Inherited
Biological Process (BP) biosynthetic process 0.469 Least Informative Inherited
Biological Process (BP) nitrogen compound metabolic process 0.4963 Least Informative Inherited
Biological Process (BP) regulation of cellular process 1 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 0.01391 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 0.2631 Least Informative Inherited
Biological Process (BP) cellular macromolecule metabolic process 1 Least Informative Inherited
Biological Process (BP) regulation of phosphorus metabolic process 0 Moderately Informative Direct
Biological Process (BP) reproductive process 0.00000000000205 Moderately Informative Direct
Biological Process (BP) lipid metabolic process 0.000000000005439 Moderately Informative Direct
Biological Process (BP) tissue development 0.000000005569 Moderately Informative Direct
Biological Process (BP) cellular response to chemical stimulus 0.00000001047 Moderately Informative Direct
Biological Process (BP) cell differentiation 0.0000001477 Moderately Informative Direct
Biological Process (BP) organ development 0.000005186 Moderately Informative Direct
Biological Process (BP) response to organic substance 0.000009177 Moderately Informative Direct
Biological Process (BP) carbohydrate derivative metabolic process 0.0001584 Moderately Informative Direct
Biological Process (BP) carbohydrate metabolic process 0.000541 Moderately Informative Direct
Biological Process (BP) organic hydroxy compound metabolic process 0.0007735 Moderately Informative Direct
Biological Process (BP) organonitrogen compound biosynthetic process 0.001215 Moderately Informative Inherited
Biological Process (BP) regulation of signal transduction 0.07177 Moderately Informative Inherited
Biological Process (BP) single-organism catabolic process 0.06352 Moderately Informative Inherited
Biological Process (BP) organic substance catabolic process 0.07771 Moderately Informative Inherited
Biological Process (BP) organophosphate metabolic process 0.02379 Moderately Informative Inherited
Biological Process (BP) phosphate-containing compound metabolic process 0.3134 Moderately Informative Inherited
Biological Process (BP) cellular catabolic process 0.1012 Moderately Informative Inherited
Biological Process (BP) epithelium development 0 Informative Direct
Biological Process (BP) reproductive structure development 0 Informative Direct
Biological Process (BP) growth 0 Informative Direct
Biological Process (BP) gland development 0 Informative Direct
Biological Process (BP) regulation of lipid metabolic process 0 Informative Direct
Biological Process (BP) regulation of MAPK cascade 0 Informative Direct
Biological Process (BP) single organism reproductive process 0.0000000001235 Informative Direct
Biological Process (BP) liposaccharide metabolic process 0.000000002097 Informative Direct
Biological Process (BP) cellular biogenic amine metabolic process 0.0000002232 Informative Direct
Biological Process (BP) polysaccharide metabolic process 0.0000006975 Informative Direct
Biological Process (BP) cellular carbohydrate metabolic process 0.00001419 Informative Direct
Biological Process (BP) alcohol metabolic process 0.00007246 Informative Direct
Biological Process (BP) regulation of response to wounding 0.0001015 Informative Direct
Biological Process (BP) membrane lipid metabolic process 0.000215 Informative Direct
Biological Process (BP) lipid catabolic process 0.000355 Informative Direct
Biological Process (BP) regulation of response to external stimulus 0.241 Informative Inherited
Biological Process (BP) regulation of defense response 0.01805 Informative Inherited
Biological Process (BP) negative regulation of response to stimulus 0.08208 Informative Inherited
Biological Process (BP) vesicle-mediated transport 0.1601 Informative Inherited
Biological Process (BP) organonitrogen compound catabolic process 0.05362 Informative Inherited
Biological Process (BP) organophosphate catabolic process 0.002029 Informative Inherited
Biological Process (BP) phospholipid metabolic process 0.00167 Informative Inherited
Biological Process (BP) developmental growth 0 Highly Informative Direct
Biological Process (BP) sphingolipid biosynthetic process 0.000000000338 Highly Informative Direct
Biological Process (BP) lipopolysaccharide metabolic process 0.000000002723 Highly Informative Direct
Biological Process (BP) ethanolamine-containing compound metabolic process 0.000000008132 Highly Informative Direct
Biological Process (BP) negative regulation of response to wounding 0.0000001976 Highly Informative Direct
Biological Process (BP) negative regulation of response to external stimulus 0.000006144 Highly Informative Direct
Biological Process (BP) alcohol catabolic process 0.000006384 Highly Informative Direct
Biological Process (BP) negative regulation of defense response 0.000006812 Highly Informative Direct
Biological Process (BP) ceramide metabolic process 0.005631 Highly Informative Inherited
Molecular Function (MF) hydrolase activity 0.0001504 Least Informative Direct
Molecular Function (MF) hydrolase activity, acting on ester bonds 0.0000002405 Moderately Informative Direct
Molecular Function (MF) phosphoric diester hydrolase activity 0.000000006257 Highly Informative Direct
Molecular Function (MF) carboxylic ester hydrolase activity 0.00007979 Highly Informative Direct
Molecular Function (MF) lipase activity 0.0003204 Highly Informative Direct
Cellular Component (CC) cytoplasmic part 0.000008893 Least Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 0.0001822 Least Informative Direct
Cellular Component (CC) extracellular region part 0.0008068 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 bonds0.000003905Least InformativeDirect
Enzyme Commission (EC)Phosphoric diester hydrolases0.0000001042Moderately 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 reduced0.0000000000005116InformativeDirect
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 variant0.0000003127Highly InformativeDirect
Worm Phenotype (WP)germ cell ionizing radiation response variant0.00002426Highly InformativeDirect
Worm Phenotype (WP)cell ionizing radiation response variant0.00003089Highly 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 hydrolases0.0000001148InformativeDirect
Enzyme Commission (EC)Carboxylic ester hydrolases0.1532InformativeInherited

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processLipid metabolism0.00000002991Moderately InformativeDirect
Biological processSphingolipid metabolism0Highly InformativeDirect
Cellular componentSecreted0Moderately InformativeDirect
Cellular componentVacuole0.0000000000002575InformativeDirect
Cellular componentLysosome0.0000000002043InformativeDirect
DomainSignal0Least InformativeDirect
Post-translational modificationHydrolase0.00000007102Least InformativeDirect
Post-translational modificationProtease0.0003015Moderately InformativeDirect
Post-translational modificationAntimicrobial0.00000000005288InformativeDirect
Post-translational modificationGlycosidase0.00001808InformativeDirect
Post-translational modificationAspartyl protease0Highly InformativeDirect
Post-translational modificationAntibiotic0.00000000000158Highly InformativeDirect
Post-translational modificationDisulfide bond0Least InformativeDirect
Post-translational modificationGlycoprotein0.0000000000001499Least InformativeDirect
Post-translational modificationZymogen0.000000003734InformativeDirect

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 ]