SUPERFAMILY 1.75 HMM library and genome assignments server

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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 (253) Uniprot 2018_03 genome PDB chains (SCOP 1.75)
Domains 3,342 9,114 9
Proteins 1,871 4,987 9


Functional annotation
General category Processes_IC
Detailed category Protein modification

Document:
Function annotation of SCOP domain superfamilies

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 the cardiovascular system0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of metabolism/homeostasis0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of skeletal morphology0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the respiratory system0Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the vasculature0Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormal lung morphology0InformativeDirect
Phenotypic Abnormality (PA)Functional respiratory abnormality0InformativeDirect
Phenotypic Abnormality (PA)Respiratory insufficiency0Highly InformativeDirect

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 variant0.04769Least InformativeInherited
Worm Phenotype (WP)organism environmental stimulus response variant0.2147Least InformativeInherited
Worm Phenotype (WP)organism behavior variant0.8801Least InformativeInherited
Worm Phenotype (WP)cell physiology variant1Least InformativeInherited
Worm Phenotype (WP)blast cell physiology variant1Least InformativeInherited
Worm Phenotype (WP)level of transgene expression variant0.000005834Moderately InformativeDirect
Worm Phenotype (WP)apoptosis variant0.1674Moderately InformativeInherited
Worm Phenotype (WP)cell homeostasis metabolism variant0.4206Moderately InformativeInherited
Worm Phenotype (WP)transgene expression reduced0.0009604InformativeDirect
Worm Phenotype (WP)organism pathogen response variant0.00591InformativeInherited
Worm Phenotype (WP)egg laying variant0.02565InformativeInherited
Worm Phenotype (WP)cell stress response variant0.03665InformativeInherited
Worm Phenotype (WP)fewer eggs laid0.000000001477Highly InformativeDirect
Worm Phenotype (WP)mutagen induced apoptosis variant0.00001282Highly InformativeDirect
Worm Phenotype (WP)germ cell ionizing radiation response variant0.0007524Highly 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 hydrolases0.0000001378InformativeDirect
Enzyme Commission (EC)Carboxylic ester hydrolases0.2339InformativeInherited

Document: EC 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 · Enzyme Commission (EC) · Disease Ontology (DO) · Human Phenotype (HP) · Worm Phenotype (WP) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) ]

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 8 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 8 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 · Enzyme Commission (EC) · Disease Ontology (DO) · Human Phenotype (HP) · Worm Phenotype (WP) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · Internal database links ]