SUPERFAMILY 1.75 HMM library and genome assignments server


Subtilisin-like superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a/b) [ 51349] (147)
Fold:   Subtilisin-like [ 52742]
Superfamily:   Subtilisin-like [ 52743] (2)
Families:   Subtilases [ 52744] (13)
  Serine-carboxyl proteinase, SCP [ 52764]


Superfamily statistics
Genomes (2,139) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 16,891 35,534 57
Proteins 16,667 35,124 57


Functional annotation
General category Processes_IC
Detailed category Proteases

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-coverage)

(show details)
GO term FDR (all) SDFO level Annotation (direct or inherited)
Biological Process (BP) protein metabolic process 0 Least Informative Direct
Biological Process (BP) multicellular organismal process 0.0002875 Least Informative Direct
Biological Process (BP) developmental process 5.886e-06 Least Informative Direct
Biological Process (BP) cellular macromolecule metabolic process 1 Least Informative Inherited
Biological Process (BP) nitrogen compound metabolic process 1 Least Informative Inherited
Biological Process (BP) biosynthetic process 1 Least Informative Inherited
Biological Process (BP) regulation of cellular process 1 Least Informative Inherited
Biological Process (BP) single-organism cellular process 1 Least Informative Inherited
Biological Process (BP) response to stimulus 1 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 1 Least Informative Inherited
Biological Process (BP) cellular catabolic process 2.551e-07 Moderately Informative Direct
Biological Process (BP) homeostatic process 0.4529 Moderately Informative Inherited
Biological Process (BP) multi-organism process 0.2496 Moderately Informative Inherited
Biological Process (BP) organonitrogen compound catabolic process 0.4977 Moderately Informative Inherited
Biological Process (BP) cellular nitrogen compound biosynthetic process 0.9044 Moderately Informative Inherited
Biological Process (BP) organonitrogen compound biosynthetic process 0.3166 Moderately Informative Inherited
Biological Process (BP) gene expression 0.03159 Moderately Informative Inherited
Biological Process (BP) cellular response to stress 0.238 Moderately Informative Inherited
Biological Process (BP) single-organism developmental process 0.04523 Moderately Informative Inherited
Biological Process (BP) organelle organization 1 Moderately Informative Inherited
Biological Process (BP) proteolysis 0 Informative Direct
Biological Process (BP) peptide metabolic process 2.037e-13 Informative Direct
Biological Process (BP) regulation of hormone levels 3.962e-12 Informative Direct
Biological Process (BP) protein catabolic process 0.0003271 Informative Direct
Biological Process (BP) regulation of apoptotic process 0.0001441 Informative Direct
Biological Process (BP) cellular macromolecule catabolic process 8.998e-10 Informative Direct
Biological Process (BP) amide biosynthetic process 0.001111 Informative Inherited
Biological Process (BP) response to nutrient levels 0.002735 Informative Inherited
Biological Process (BP) lysosome organization 0.0007027 Highly Informative Direct
Biological Process (BP) cellular response to starvation 0.0006003 Highly Informative Direct
Biological Process (BP) peptide biosynthetic process 8.843e-05 Highly Informative Direct
Biological Process (BP) regulation of neuron apoptotic process 9.136e-15 Highly Informative Direct
Biological Process (BP) multi-organism cellular process 0.0008086 Highly Informative Direct
Biological Process (BP) protein processing 0.04005 Highly Informative Inherited
Biological Process (BP) pattern specification process 0.1667 Highly Informative Inherited
Molecular Function (MF) hydrolase activity 0 Least Informative Direct
Molecular Function (MF) binding 1 Least Informative Inherited
Molecular Function (MF) peptidase activity 0 Informative Direct
Molecular Function (MF) amide binding 2.422e-05 Informative Direct
Molecular Function (MF) serine hydrolase activity 0 Highly Informative Direct
Molecular Function (MF) peptide binding 1.566e-05 Highly Informative Direct
Molecular Function (MF) exopeptidase activity 0.2665 Highly Informative Inherited
Molecular Function (MF) endopeptidase activity 0.005876 Highly Informative Inherited
Cellular Component (CC) intracellular organelle part 1 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0.1607 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 0.002089 Least Informative Inherited
Cellular Component (CC) endoplasmic reticulum 7.711e-11 Moderately Informative Direct
Cellular Component (CC) vesicle 0.001406 Moderately Informative Inherited
Cellular Component (CC) intracellular organelle lumen 0.6698 Moderately Informative Inherited
Cellular Component (CC) extracellular region part 0.01924 Moderately Informative Inherited
Cellular Component (CC) lytic vacuole 1.583e-05 Informative Direct
Cellular Component (CC) extracellular space 0.0008386 Informative Direct
Cellular Component (CC) endosome 1.961e-09 Informative Direct
Cellular Component (CC) Golgi apparatus 0 Informative Direct
Cellular Component (CC) cell surface 1.851e-11 Informative Direct
Cellular Component (CC) secretory granule 7.171e-05 Informative Direct
Cellular Component (CC) external encapsulating structure 8.599e-09 Informative Direct
Cellular Component (CC) late endosome 7.724e-10 Highly 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 peptide bonds (peptide hydrolases)0Least InformativeDirect
Enzyme Commission (EC)Serine endopeptidases0Moderately InformativeDirect
Enzyme Commission (EC)Dipeptidyl-peptidases and tripeptidyl-peptidases9.456e-11InformativeDirect
Enzyme Commission (EC)Furin1.063e-11Highly InformativeDirect
Enzyme Commission (EC)Proprotein convertase 22.004e-09Highly InformativeDirect
Enzyme Commission (EC)Proprotein convertase 12.702e-08Highly InformativeDirect

Document: EC 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

Document: HP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)growth variant0Least InformativeDirect
Worm Phenotype (WP)larval development variant0Least InformativeDirect
Worm Phenotype (WP)pericellular component development variant0Moderately InformativeDirect
Worm Phenotype (WP)organism segment morphology variant0.0002007Moderately InformativeDirect
Worm Phenotype (WP)locomotion variant0.0009551Moderately InformativeDirect
Worm Phenotype (WP)basement membrane remodeling variant0InformativeDirect
Worm Phenotype (WP)body length variant3.986e-05InformativeDirect
Worm Phenotype (WP)body width variant4.883e-05InformativeDirect

Document: WP annotation of SCOP domains

Yeast Phenotype (YP)

(show details)
YP termFDR (all)SDYP levelAnnotation (direct or inherited)
Yeast Phenotype (YP)metabolism and growth0Least InformativeDirect
Yeast Phenotype (YP)resistance to chemicals0.7971Least InformativeInherited
Yeast Phenotype (YP)acid pH resistance8.013e-05Highly InformativeDirect

Document: YP annotation of SCOP domains

Fly Phenotype (FP)

(show details)
FP termFDR (all)SDFP levelAnnotation (direct or inherited)
Fly Phenotype (FP)increased mortality0Least InformativeDirect

Document: FP annotation of SCOP domains

Xenopus Anatomy (XA)

(show details) Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)whole plant0.1503Least InformativeInherited
Plant ANatomical entity (PAN)collective phyllome structure0.6013Least InformativeInherited
Plant ANatomical entity (PAN)flower0.7982Least InformativeInherited
Plant ANatomical entity (PAN)cardinal part of multi-tissue plant structure0.9532Least InformativeInherited
Plant ANatomical entity (PAN)megasporophyll1Least InformativeInherited
Plant ANatomical entity (PAN)root system1Least InformativeInherited
Plant ANatomical entity (PAN)leaf1Least InformativeInherited
Plant ANatomical entity (PAN)vascular system0.000158InformativeDirect
Plant ANatomical entity (PAN)leaf vascular system1.055e-05Highly InformativeDirect
Plant ANatomical entity (PAN)style1.615e-05Highly InformativeDirect
Plant ANatomical entity (PAN)root stele7.814e-05Highly InformativeDirect
Plant ANatomical entity (PAN)embryo sac cell0.0007171Highly 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)Acting on peptide bonds (peptide hydrolases)0Moderately InformativeDirect
Enzyme Commission (EC)Serine endopeptidases0InformativeDirect
Enzyme Commission (EC)Dipeptidyl-peptidases and tripeptidyl-peptidases1.139e-12Highly InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processApoptosis5.861e-13Moderately InformativeDirect
Biological processLipid metabolism3.106e-05Moderately InformativeDirect
Biological processSporulation0InformativeDirect
Biological processSteroid metabolism0InformativeDirect
Biological processVirulence0InformativeDirect
Biological processCholesterol metabolism0Highly InformativeDirect
Cellular componentGolgi apparatus0Moderately InformativeDirect
Cellular componentSecreted0Moderately InformativeDirect
Cellular componentEndosome1.48e-11Moderately InformativeDirect
Cellular componentEndoplasmic reticulum8.714e-09Moderately InformativeDirect
Cellular componentCytoplasmic vesicle2.041e-06Moderately InformativeDirect
Cellular componentLysosome0InformativeDirect
DiseaseAllergen0.0002293Moderately InformativeDirect
DomainSignal0Least InformativeDirect
Molecular functionCalcium0Moderately InformativeDirect
Post-translational modificationHydrolase0Least InformativeDirect
Post-translational modificationProtease0Moderately InformativeDirect
Post-translational modificationSerine protease0InformativeDirect
Post-translational modificationGlycoprotein0Least InformativeDirect
Post-translational modificationCleavage on pair of basic residues0Moderately InformativeDirect
Post-translational modificationAutocatalytic cleavage0InformativeDirect
Post-translational modificationSulfation0InformativeDirect
Post-translational modificationZymogen0InformativeDirect
Post-translational modificationPeptidoglycan-anchor1.13e-11Highly InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR000209 SSF52743 Protein matches
Abstract

This group of serine peptidases belong to the MEROPS peptidase families S8 (subfamilies S8A (subtilisin) and S8B (kexin)) and S53 (sedolisin) both of which are members of clan SB.

The subtilisin family is the second largest serine protease family characterised to date. Over 200 subtilises are presently known, more than 170 of which with their complete amino acid sequence [PubMed9070434]. It is widespread, being found in eubacteria, archaebacteria, eukaryotes and viruses [PubMed7845208]. The vast majority of the family are endopeptidases, although there is an exopeptidase, tripeptidyl peptidase [PubMed7845208, PubMed8439290]. Structures have been determined for several members of the subtilisin family: they exploit the same catalytic triad as the chymotrypsins, although the residues occur in a different order (HDS in chymotrypsin and DHS in subtilisin), but the structures show no other similarity [PubMed7845208, PubMed8439290]. Some subtilisins are mosaic proteins, and others contain N- and C-terminal extensions that show no sequence similarity to any other known protein [PubMed7845208]. Based on sequence homology, a subdivision into six families has been proposed [PubMed9070434].

The proprotein-processing endopeptidases kexin, furin and related enzymes form a distinct subfamily known as the kexin subfamily (S8B). These preferentially cleave C-terminally to paired basic amino acids. Members of this subfamily can be identified by subtly different motifs around the active site [PubMed7845208, PubMed8439290]. Members of the kexin family, along with endopeptidases R, T and K from the yeast Tritirachium and cuticle-degrading peptidase from Metarhizium, require thiol activation. This can be attributed to the presence of Cys-173 near to the active histidine [PubMed8439290].Only 1 viral member of the subtilisin family is known, a 56-kDa protease from herpes virus 1, which infects the channel catfish [PubMed7845208].

Sedolisins (serine-carboxyl peptidases) are proteolytic enzymes whose fold resembles that of subtilisin; however, they are considerably larger, with the mature catalytic domains containing approximately 375 amino acids. The defining features of these enzymes are a unique catalytic triad, Ser-Glu-Asp, as well as the presence of an aspartic acid residue in the oxyanion hole. High-resolution crystal structures have now been solved for sedolisin from Pseudomonas sp. 101, as well as for kumamolisin from a thermophilic bacterium, Bacillus novo sp. MN-32. Mutations in the human gene leads to a fatal neurodegenerative disease [PubMed12673349].


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-coverage) · Enzyme Commission (EC) · Human Phenotype (HP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Phenotype (FP) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · 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 17 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 Subtilisin-like 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 17 hidden Markov models representing the Subtilisin-like 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-coverage) · Enzyme Commission (EC) · Human Phenotype (HP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Phenotype (FP) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · Internal database links ]