SUPERFAMILY 1.75 HMM library and genome assignments server


Caspase-like superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a/b) [ 51349] (147)
Fold:   Caspase-like [ 52128]
Superfamily:   Caspase-like [ 52129] (2)
Families:   Caspase catalytic domain [ 52130] (7)
  Gingipain R (RgpB), N-terminal domain [ 52137]


Superfamily statistics
Genomes (967) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 4,444 8,765 38
Proteins 4,363 8,694 38


Functional annotation
General category Processes_IC
Detailed category Proteases

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)protein metabolic process4.21e-140Least InformativeDirect
Biological Process (BP)single-organism cellular process5.139e-080Least InformativeDirect
Biological Process (BP)response to stimulus0.039011.644e-07Least InformativeInherited
Biological Process (BP)regulation of metabolic process0.7610.8242Least InformativeInherited
Biological Process (BP)regulation of cellular process1.659e-050.002559Least InformativeInherited
Biological Process (BP)response to abiotic stimulus0.0005489.711e-06Moderately InformativeDirect
Biological Process (BP)response to organic substance0.00048628.406e-06Moderately InformativeDirect
Biological Process (BP)regulation of catalytic activity0.00026791.146e-13Moderately InformativeDirect
Biological Process (BP)signal transduction0.033490.007559Moderately InformativeInherited
Biological Process (BP)positive regulation of cellular process0.0091891.571e-07Moderately InformativeInherited
Biological Process (BP)gene expression0.38440.9271Moderately InformativeInherited
Biological Process (BP)proteolysis4.177e-120InformativeDirect
Biological Process (BP)apoptotic process0.41720.006963InformativeInherited
Biological Process (BP)response to light stimulus0.86350.5553InformativeInherited
Biological Process (BP)response to UV1.584e-079.148e-15Highly InformativeDirect
Biological Process (BP)protein processing4.152e-100Highly InformativeDirect
Biological Process (BP)positive regulation of programmed cell death0.00043645.468e-09Highly InformativeDirect
Biological Process (BP)execution phase of apoptosis7.978e-150Highly InformativeDirect
Biological Process (BP)regulation of neuron apoptotic process0.012720.01339Highly InformativeInherited
Molecular Function (MF)hydrolase activity00Least InformativeDirect
Molecular Function (MF)peptidase activity00InformativeDirect
Molecular Function (MF)endopeptidase activity0.057162.202e-11Highly InformativeInherited

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) protein metabolic process 0 Least Informative Direct
Biological Process (BP) single-organism cellular process 0 Least Informative Direct
Biological Process (BP) response to stimulus 1.644e-07 Least Informative Direct
Biological Process (BP) regulation of metabolic process 0.8242 Least Informative Inherited
Biological Process (BP) multicellular organismal process 0.07767 Least Informative Inherited
Biological Process (BP) developmental process 0.001848 Least Informative Inherited
Biological Process (BP) regulation of cellular process 0.002559 Least Informative Inherited
Biological Process (BP) immune system process 0.0004562 Moderately Informative Direct
Biological Process (BP) response to abiotic stimulus 9.711e-06 Moderately Informative Direct
Biological Process (BP) response to organic substance 8.406e-06 Moderately Informative Direct
Biological Process (BP) positive regulation of cellular process 1.571e-07 Moderately Informative Direct
Biological Process (BP) regulation of catalytic activity 1.146e-13 Moderately Informative Direct
Biological Process (BP) regulation of multicellular organismal process 0.8879 Moderately Informative Inherited
Biological Process (BP) regulation of localization 1 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 0.9054 Moderately Informative Inherited
Biological Process (BP) positive regulation of response to stimulus 0.2722 Moderately Informative Inherited
Biological Process (BP) regulation of signal transduction 0.6454 Moderately Informative Inherited
Biological Process (BP) signal transduction 0.007559 Moderately Informative Inherited
Biological Process (BP) cellular response to stress 0.001913 Moderately Informative Inherited
Biological Process (BP) cellular response to chemical stimulus 0.243 Moderately Informative Inherited
Biological Process (BP) reproduction 0.1571 Moderately Informative Inherited
Biological Process (BP) gene expression 0.9271 Moderately Informative Inherited
Biological Process (BP) positive regulation of molecular function 0.004199 Moderately Informative Inherited
Biological Process (BP) cell differentiation 0.00103 Moderately Informative Inherited
Biological Process (BP) multi-organism process 0.1908 Moderately Informative Inherited
Biological Process (BP) tissue development 0.03028 Moderately Informative Inherited
Biological Process (BP) proteolysis 0 Informative Direct
Biological Process (BP) response to bacterium 0.0003573 Informative Direct
Biological Process (BP) intracellular signal transduction 0.0004378 Informative Direct
Biological Process (BP) positive regulation of hydrolase activity 0.0001293 Informative Direct
Biological Process (BP) regulation of peptidase activity 0 Informative Direct
Biological Process (BP) apoptotic process 0.006963 Informative Inherited
Biological Process (BP) regulation of protein localization 0.001337 Informative Inherited
Biological Process (BP) positive regulation of transport 0.579 Informative Inherited
Biological Process (BP) regulation of secretion 0.01026 Informative Inherited
Biological Process (BP) regulation of cytokine production 0.003797 Informative Inherited
Biological Process (BP) positive regulation of multicellular organismal process 0.3285 Informative Inherited
Biological Process (BP) positive regulation of signal transduction 0.01017 Informative Inherited
Biological Process (BP) regulation of intracellular protein kinase cascade 0.09893 Informative Inherited
Biological Process (BP) developmental process involved in reproduction 0.2034 Informative Inherited
Biological Process (BP) cellular process involved in reproduction 0.03456 Informative Inherited
Biological Process (BP) response to inorganic substance 0.2394 Informative Inherited
Biological Process (BP) response to light stimulus 0.5553 Informative Inherited
Biological Process (BP) positive regulation of cytokine production 4.855e-06 Highly Informative Direct
Biological Process (BP) ER-nucleus signaling pathway 3.544e-07 Highly Informative Direct
Biological Process (BP) response to UV 9.148e-15 Highly Informative Direct
Biological Process (BP) positive regulation of endopeptidase activity 6.976e-06 Highly Informative Direct
Biological Process (BP) protein processing 0 Highly Informative Direct
Biological Process (BP) cellular process involved in reproduction in multicellular organism 1.57e-05 Highly Informative Direct
Biological Process (BP) regulation of interleukin-1 beta production 8.168e-09 Highly Informative Direct
Biological Process (BP) response to endoplasmic reticulum stress 2.168e-05 Highly Informative Direct
Biological Process (BP) response to topologically incorrect protein 0.0001078 Highly Informative Direct
Biological Process (BP) positive regulation of programmed cell death 5.468e-09 Highly Informative Direct
Biological Process (BP) regulation of cysteine-type endopeptidase activity involved in apoptotic process 7.04e-05 Highly Informative Direct
Biological Process (BP) regulation of cytokine secretion 0.000365 Highly Informative Direct
Biological Process (BP) extrinsic apoptotic signaling pathway 6.684e-06 Highly Informative Direct
Biological Process (BP) intrinsic apoptotic signaling pathway 2.744e-09 Highly Informative Direct
Biological Process (BP) execution phase of apoptosis 0 Highly Informative Direct
Biological Process (BP) positive regulation of protein secretion 0.002464 Highly Informative Inherited
Biological Process (BP) post-embryonic development 0.2539 Highly Informative Inherited
Biological Process (BP) regulation of neuron apoptotic process 0.01339 Highly Informative Inherited
Molecular Function (MF) hydrolase activity 0 Least Informative Direct
Molecular Function (MF) binding 0.0571 Least Informative Inherited
Molecular Function (MF) peptidase activity 0 Informative Direct
Molecular Function (MF) enzyme binding 0.01155 Informative Inherited
Molecular Function (MF) endopeptidase activity 2.202e-11 Highly Informative Direct
Cellular Component (CC) protein complex 2.039e-14 Least Informative Direct
Cellular Component (CC) membrane 1 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 0.01485 Least Informative Inherited
Cellular Component (CC) cytosol 1.995e-07 Moderately Informative Direct
Cellular Component (CC) plasma membrane 1 Moderately Informative Inherited

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)Cysteine endopeptidases0Moderately InformativeDirect

Document: EC annotation of SCOP domains

Disease Ontology (DO)

(show details)
DO termFDR (all)SDDO levelAnnotation (direct or inherited)
Disease Ontology (DO)cell type cancer0.06309Moderately InformativeInherited
Disease Ontology (DO)melanoma0.0009642Highly InformativeDirect

Document: DO annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)immune system phenotype0.0045Least InformativeInherited
Mammalian Phenotype (MP)cellular phenotype0.007603Least InformativeInherited
Mammalian Phenotype (MP)hematopoietic system phenotype0.01459Least InformativeInherited
Mammalian Phenotype (MP)nervous system phenotype0.0281Least InformativeInherited
Mammalian Phenotype (MP)mortality/aging0.1667Least InformativeInherited
Mammalian Phenotype (MP)abnormal homeostasis0.471Least InformativeInherited
Mammalian Phenotype (MP)abnormal cell death1.064e-05Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal blood cell physiology0.0003905Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal protein level0.04082Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal immune cell physiology0.0761Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal cell-mediated immunity0.07917Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal adaptive immunity0.08626Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal nervous system physiology0.2121Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal immune serum protein physiology0.3895Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal T cell physiology9.165e-07InformativeDirect
Mammalian Phenotype (MP)abnormal neuron physiology0.0001619InformativeDirect
Mammalian Phenotype (MP)abnormal interleukin secretion0.004368InformativeInherited
Mammalian Phenotype (MP)abnormal interleukin level0.006246InformativeInherited
Mammalian Phenotype (MP)abnormal circulating cytokine level0.08073InformativeInherited
Mammalian Phenotype (MP)abnormal macrophage physiology0.3284InformativeInherited
Mammalian Phenotype (MP)abnormal sensitivity to induced morbidity/mortality0.5556InformativeInherited
Mammalian Phenotype (MP)abnormal immune organ physiology3.834e-05Highly InformativeDirect
Mammalian Phenotype (MP)abnormal interleukin-1 beta secretion0.0001035Highly InformativeDirect
Mammalian Phenotype (MP)decreased apoptosis0.0006363Highly InformativeDirect
Mammalian Phenotype (MP)decreased physiological sensitivity to xenobiotic0.0006385Highly InformativeDirect
Mammalian Phenotype (MP)decreased susceptibility to infection0.00212Highly InformativeInherited
Mammalian Phenotype (MP)abnormal gland physiology0.004958Highly InformativeInherited
Mammalian Phenotype (MP)altered susceptibility to infection induced morbidity/mortality0.01084Highly InformativeInherited
Mammalian Phenotype (MP)altered susceptibility to bacterial infection0.01525Highly InformativeInherited

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)cell physiology variant0.01783Least InformativeInherited
Worm Phenotype (WP)cell death variant0.0001827Moderately InformativeDirect

Document: WP annotation of SCOP domains

Fly Phenotype (FP)

(show details)
FP termFDR (all)SDFP levelAnnotation (direct or inherited)
Fly Phenotype (FP)visible0InformativeDirect
Fly Phenotype (FP)cell death defective0InformativeDirect

Document: FP annotation of SCOP domains

Fly Anatomy (FA)

(show details)
FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)adult0Least InformativeDirect
Fly Anatomy (FA)organ system0Least InformativeDirect
Fly Anatomy (FA)anatomical group0Least InformativeDirect
Fly Anatomy (FA)anterior-posterior subdivision of organism1Least InformativeInherited
Fly Anatomy (FA)external sensory organ0Moderately InformativeDirect
Fly Anatomy (FA)sensillum0Moderately InformativeDirect

Document: FA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)head0Least InformativeDirect

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 plant0Least InformativeDirect
Plant ANatomical entity (PAN)microsporophyll0Least InformativeDirect
Plant ANatomical entity (PAN)root system0Least InformativeDirect
Plant ANatomical entity (PAN)shoot axis0Least InformativeDirect
Plant ANatomical entity (PAN)sporangium0Least InformativeDirect
Plant ANatomical entity (PAN)cardinal part of multi-tissue plant structure0Least InformativeDirect
Plant structure DEvelopment stage (PDE)C globular stage0Least 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)Cysteine endopeptidases0InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processApoptosis0Moderately InformativeDirect
Biological processVirulence5.804e-05InformativeDirect
Post-translational modificationHydrolase0Least InformativeDirect
Post-translational modificationProtease0Moderately InformativeDirect
Post-translational modificationThiol protease0InformativeDirect
Post-translational modificationS-nitrosylation0InformativeDirect
Post-translational modificationZymogen0InformativeDirect

Document: KW annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Disease Ontology (DO) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Fly Phenotype (FP) · Fly Anatomy (FA) · 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 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 Caspase-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 8 hidden Markov models representing the Caspase-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 · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Disease Ontology (DO) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · Internal database links ]