SUPERFAMILY 1.75 HMM library and genome assignments server

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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 process0.000000000000039080Least InformativeDirect
Biological Process (BP)single-organism cellular process0.000000050640Least InformativeDirect
Biological Process (BP)response to stimulus0.038340.0000001516Least InformativeInherited
Biological Process (BP)regulation of metabolic process0.76340.9088Least InformativeInherited
Biological Process (BP)regulation of cellular process0.000015210.00249Least InformativeInherited
Biological Process (BP)response to abiotic stimulus0.00054470.000009481Moderately InformativeDirect
Biological Process (BP)response to organic substance0.00046650.000007926Moderately InformativeDirect
Biological Process (BP)regulation of catalytic activity0.00028180.00000000000002447Moderately InformativeDirect
Biological Process (BP)signal transduction0.03480.008181Moderately InformativeInherited
Biological Process (BP)positive regulation of cellular process0.0084630.0000001229Moderately InformativeInherited
Biological Process (BP)gene expression0.38490.9267Moderately InformativeInherited
Biological Process (BP)proteolysis0.0000000000039960InformativeDirect
Biological Process (BP)apoptotic process0.41710.007525InformativeInherited
Biological Process (BP)regulation of apoptotic process0.0000000000000094660.4264InformativeInherited
Biological Process (BP)response to light stimulus0.8710.5598InformativeInherited
Biological Process (BP)response to UV0.00000015870.000000000000009109Highly InformativeDirect
Biological Process (BP)protein processing0.0000000003660Highly InformativeDirect
Biological Process (BP)positive regulation of programmed cell death0.00045670.000000005406Highly InformativeDirect
Biological Process (BP)execution phase of apoptosis0.0000000000000079590Highly InformativeDirect
Biological Process (BP)regulation of neuron apoptotic process0.013260.01396Highly InformativeInherited
Molecular Function (MF)hydrolase activity00Least InformativeDirect
Molecular Function (MF)peptidase activity00InformativeDirect
Molecular Function (MF)endopeptidase activity0.10820.00000000008976Highly 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 0.0000001516 Least Informative Direct
Biological Process (BP) regulation of metabolic process 0.9088 Least Informative Inherited
Biological Process (BP) multicellular organismal process 0.07697 Least Informative Inherited
Biological Process (BP) developmental process 0.001838 Least Informative Inherited
Biological Process (BP) regulation of cellular process 0.00249 Least Informative Inherited
Biological Process (BP) immune system process 0.0004548 Moderately Informative Direct
Biological Process (BP) response to abiotic stimulus 0.000009481 Moderately Informative Direct
Biological Process (BP) response to organic substance 0.000007926 Moderately Informative Direct
Biological Process (BP) positive regulation of cellular process 0.0000001229 Moderately Informative Direct
Biological Process (BP) regulation of catalytic activity 0.00000000000002447 Moderately Informative Direct
Biological Process (BP) regulation of multicellular organismal process 0.8789 Moderately Informative Inherited
Biological Process (BP) regulation of localization 1 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 0.9032 Moderately Informative Inherited
Biological Process (BP) positive regulation of response to stimulus 0.2752 Moderately Informative Inherited
Biological Process (BP) regulation of signal transduction 0.6537 Moderately Informative Inherited
Biological Process (BP) signal transduction 0.008181 Moderately Informative Inherited
Biological Process (BP) cellular response to stress 0.001764 Moderately Informative Inherited
Biological Process (BP) cellular response to chemical stimulus 0.2338 Moderately Informative Inherited
Biological Process (BP) reproduction 0.1558 Moderately Informative Inherited
Biological Process (BP) gene expression 0.9267 Moderately Informative Inherited
Biological Process (BP) positive regulation of molecular function 0.005303 Moderately Informative Inherited
Biological Process (BP) cell differentiation 0.001013 Moderately Informative Inherited
Biological Process (BP) single-organism developmental process 0.6931 Moderately Informative Inherited
Biological Process (BP) multi-organism process 0.1816 Moderately Informative Inherited
Biological Process (BP) tissue development 0.02988 Moderately Informative Inherited
Biological Process (BP) proteolysis 0 Informative Direct
Biological Process (BP) intracellular signal transduction 0.0004153 Informative Direct
Biological Process (BP) positive regulation of hydrolase activity 0.0002049 Informative Direct
Biological Process (BP) regulation of peptidase activity 0 Informative Direct
Biological Process (BP) regulation of establishment of protein localization 0.0003718 Informative Direct
Biological Process (BP) apoptotic process 0.007525 Informative Inherited
Biological Process (BP) positive regulation of transport 0.5768 Informative Inherited
Biological Process (BP) regulation of secretion 0.00971 Informative Inherited
Biological Process (BP) regulation of cytokine production 0.00388 Informative Inherited
Biological Process (BP) positive regulation of multicellular organismal process 0.3369 Informative Inherited
Biological Process (BP) regulation of apoptotic process 0.4264 Informative Inherited
Biological Process (BP) positive regulation of signal transduction 0.01027 Informative Inherited
Biological Process (BP) regulation of intracellular protein kinase cascade 0.0958 Informative Inherited
Biological Process (BP) developmental process involved in reproduction 0.1998 Informative Inherited
Biological Process (BP) cellular process involved in reproduction 0.03436 Informative Inherited
Biological Process (BP) response to inorganic substance 0.2373 Informative Inherited
Biological Process (BP) response to other organism 0.01641 Informative Inherited
Biological Process (BP) response to light stimulus 0.5598 Informative Inherited
Biological Process (BP) positive regulation of cytokine production 0.000004851 Highly Informative Direct
Biological Process (BP) ER-nucleus signaling pathway 0.000000357 Highly Informative Direct
Biological Process (BP) response to UV 0.000000000000009109 Highly Informative Direct
Biological Process (BP) positive regulation of endopeptidase activity 0.0000083 Highly Informative Direct
Biological Process (BP) protein processing 0 Highly Informative Direct
Biological Process (BP) cellular process involved in reproduction in multicellular organism 0.00001354 Highly Informative Direct
Biological Process (BP) regulation of interleukin-1 beta production 0.000000008234 Highly Informative Direct
Biological Process (BP) response to endoplasmic reticulum stress 0.0000164 Highly Informative Direct
Biological Process (BP) response to topologically incorrect protein 0.0001128 Highly Informative Direct
Biological Process (BP) positive regulation of programmed cell death 0.000000005406 Highly Informative Direct
Biological Process (BP) regulation of cysteine-type endopeptidase activity involved in apoptotic process 0.00006548 Highly Informative Direct
Biological Process (BP) regulation of cytokine secretion 0.0003459 Highly Informative Direct
Biological Process (BP) extrinsic apoptotic signaling pathway 0.000006711 Highly Informative Direct
Biological Process (BP) intrinsic apoptotic signaling pathway 0.000000003017 Highly Informative Direct
Biological Process (BP) execution phase of apoptosis 0 Highly Informative Direct
Biological Process (BP) positive regulation of protein secretion 0.002508 Highly Informative Inherited
Biological Process (BP) post-embryonic development 0.2549 Highly Informative Inherited
Biological Process (BP) regulation of neuron apoptotic process 0.01396 Highly Informative Inherited
Molecular Function (MF) hydrolase activity 0 Least Informative Direct
Molecular Function (MF) binding 0.05375 Least Informative Inherited
Molecular Function (MF) peptidase activity 0 Informative Direct
Molecular Function (MF) enzyme binding 0.01135 Informative Inherited
Molecular Function (MF) endopeptidase activity 0.00000000008976 Highly Informative Direct
Cellular Component (CC) protein complex 0.0000000000001083 Least Informative Direct
Cellular Component (CC) membrane 1 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 0.009413 Least Informative Inherited
Cellular Component (CC) cytosol 0.000000872 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 cancer0.06798Moderately InformativeInherited
Disease Ontology (DO)melanoma0.0008853Highly 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 phenotype0.004395Least InformativeInherited
Mammalian Phenotype (MP)cellular phenotype0.007081Least InformativeInherited
Mammalian Phenotype (MP)hematopoietic system phenotype0.0143Least InformativeInherited
Mammalian Phenotype (MP)nervous system phenotype0.02704Least InformativeInherited
Mammalian Phenotype (MP)mortality/aging0.1646Least InformativeInherited
Mammalian Phenotype (MP)abnormal homeostasis0.4994Least InformativeInherited
Mammalian Phenotype (MP)abnormal cell death0.00001041Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal blood cell physiology0.0003982Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal protein level0.04094Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal immune cell physiology0.07611Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal cell-mediated immunity0.07916Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal adaptive immunity0.08638Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal nervous system physiology0.2143Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal immune serum protein physiology0.3867Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal T cell physiology0.0000009532InformativeDirect
Mammalian Phenotype (MP)abnormal neuron physiology0.0001665InformativeDirect
Mammalian Phenotype (MP)abnormal interleukin secretion0.004419InformativeInherited
Mammalian Phenotype (MP)abnormal interleukin level0.006353InformativeInherited
Mammalian Phenotype (MP)abnormal circulating cytokine level0.0806InformativeInherited
Mammalian Phenotype (MP)abnormal macrophage physiology0.3273InformativeInherited
Mammalian Phenotype (MP)abnormal sensitivity to induced morbidity/mortality0.5468InformativeInherited
Mammalian Phenotype (MP)abnormal immune organ physiology0.00003625Highly InformativeDirect
Mammalian Phenotype (MP)abnormal interleukin-1 beta secretion0.0001031Highly InformativeDirect
Mammalian Phenotype (MP)decreased physiological sensitivity to xenobiotic0.0006241Highly InformativeDirect
Mammalian Phenotype (MP)decreased apoptosis0.0006583Highly InformativeDirect
Mammalian Phenotype (MP)decreased susceptibility to infection0.002103Highly InformativeInherited
Mammalian Phenotype (MP)altered susceptibility to infection induced morbidity/mortality0.01112Highly InformativeInherited
Mammalian Phenotype (MP)altered susceptibility to bacterial infection0.01549Highly 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 processVirulence0.000058InformativeDirect
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 ]