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 (968) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 4,466 8,765 38
Proteins 4,385 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 process0.000000000000053510Least InformativeDirect
Biological Process (BP)single-organism cellular process0.0000053920.000000000004093Least InformativeDirect
Biological Process (BP)regulation of metabolic process0.80770.9135Least InformativeInherited
Biological Process (BP)positive regulation of biological process0.0087070.0000000007218Least InformativeInherited
Biological Process (BP)regulation of cellular process0.000021240.003867Least InformativeInherited
Biological Process (BP)developmental process0.0000000052070.001834Least InformativeInherited
Biological Process (BP)response to stimulus0.038150.0000001634Least InformativeInherited
Biological Process (BP)response to abiotic stimulus0.00054560.00001011Moderately InformativeDirect
Biological Process (BP)response to organic substance0.00049580.000009177Moderately InformativeDirect
Biological Process (BP)cell differentiation0.00004510.0005238Moderately InformativeDirect
Biological Process (BP)regulation of catalytic activity0.00026860.0000000000000615Moderately InformativeDirect
Biological Process (BP)signal transduction0.029570.007495Moderately InformativeInherited
Biological Process (BP)gene expression0.11020.000202Moderately InformativeInherited
Biological Process (BP)positive regulation of cellular process0.0027150.0000000009297Moderately InformativeInherited
Biological Process (BP)proteolysis0.0000000000034480InformativeDirect
Biological Process (BP)positive regulation of cell death0.00000050210InformativeDirect
Biological Process (BP)protein maturation0.0000020120InformativeDirect
Biological Process (BP)apoptotic process0.36880.001662InformativeInherited
Biological Process (BP)regulation of apoptotic process0.000000000000010990.4099InformativeInherited
Biological Process (BP)response to light stimulus0.8640.5481InformativeInherited
Biological Process (BP)response to UV0.00000017490.00000000000001246Highly InformativeDirect
Biological Process (BP)execution phase of apoptosis00Highly InformativeDirect
Biological Process (BP)positive regulation of neuron death0.000063040.000007673Highly InformativeDirect
Biological Process (BP)regulation of neuron apoptotic process0.012660.01407Highly InformativeInherited
Molecular Function (MF)hydrolase activity00Least InformativeDirect
Molecular Function (MF)peptidase activity00InformativeDirect
Molecular Function (MF)endopeptidase activity0.057350.00000000001953Highly 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 0.000000000004093 Least Informative Direct
Biological Process (BP) positive regulation of biological process 0.0000000007218 Least Informative Direct
Biological Process (BP) response to stimulus 0.0000001634 Least Informative Direct
Biological Process (BP) developmental process 0.001834 Least Informative Inherited
Biological Process (BP) regulation of cellular process 0.003867 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 0.9135 Least Informative Inherited
Biological Process (BP) multicellular organismal process 0.04683 Least Informative Inherited
Biological Process (BP) immune system process 0.0004491 Moderately Informative Direct
Biological Process (BP) response to abiotic stimulus 0.00001011 Moderately Informative Direct
Biological Process (BP) response to organic substance 0.000009177 Moderately Informative Direct
Biological Process (BP) gene expression 0.000202 Moderately Informative Direct
Biological Process (BP) cell differentiation 0.0005238 Moderately Informative Direct
Biological Process (BP) positive regulation of cellular process 0.0000000009297 Moderately Informative Direct
Biological Process (BP) regulation of catalytic activity 0.0000000000000615 Moderately Informative Direct
Biological Process (BP) regulation of protein metabolic process 0.00000000002721 Moderately Informative Direct
Biological Process (BP) signal transduction 0.007495 Moderately Informative Inherited
Biological Process (BP) regulation of localization 1 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 0.9055 Moderately Informative Inherited
Biological Process (BP) positive regulation of response to stimulus 0.5571 Moderately Informative Inherited
Biological Process (BP) regulation of signal transduction 0.6692 Moderately Informative Inherited
Biological Process (BP) positive regulation of metabolic process 0.174 Moderately Informative Inherited
Biological Process (BP) reproductive process 0.03834 Moderately Informative Inherited
Biological Process (BP) cellular response to stress 0.002144 Moderately Informative Inherited
Biological Process (BP) cellular response to chemical stimulus 0.2429 Moderately Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 1 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 0.3816 Moderately Informative Inherited
Biological Process (BP) positive regulation of molecular function 0.004857 Moderately Informative Inherited
Biological Process (BP) response to external stimulus 1 Moderately Informative Inherited
Biological Process (BP) multi-organism process 0.1543 Moderately Informative Inherited
Biological Process (BP) tissue development 0.1198 Moderately Informative Inherited
Biological Process (BP) regulation of cytokine production 0.0009069 Informative Direct
Biological Process (BP) proteolysis 0 Informative Direct
Biological Process (BP) response to bacterium 0.0003678 Informative Direct
Biological Process (BP) positive regulation of gene expression 0.000000574 Informative Direct
Biological Process (BP) positive regulation of cell death 0 Informative Direct
Biological Process (BP) positive regulation of cellular protein metabolic process 0.00000000001335 Informative Direct
Biological Process (BP) positive regulation of hydrolase activity 0.0001567 Informative Direct
Biological Process (BP) protein maturation 0 Informative Direct
Biological Process (BP) regulation of peptidase activity 0 Informative Direct
Biological Process (BP) intracellular signal transduction 0.001012 Informative Inherited
Biological Process (BP) apoptotic process 0.001662 Informative Inherited
Biological Process (BP) regulation of protein localization 0.001526 Informative Inherited
Biological Process (BP) regulation of secretion 0.01021 Informative Inherited
Biological Process (BP) positive regulation of transport 0.4889 Informative Inherited
Biological Process (BP) positive regulation of intracellular signal transduction 0.1257 Informative Inherited
Biological Process (BP) regulation of apoptotic process 0.4099 Informative Inherited
Biological Process (BP) cellular process involved in reproduction in multicellular organism 0.003442 Informative Inherited
Biological Process (BP) single organism reproductive process 0.2116 Informative Inherited
Biological Process (BP) positive regulation of multicellular organismal process 0.513 Informative Inherited
Biological Process (BP) response to inorganic substance 0.241 Informative Inherited
Biological Process (BP) response to light stimulus 0.5481 Informative Inherited
Biological Process (BP) ER-nucleus signaling pathway 0.0000003449 Highly Informative Direct
Biological Process (BP) response to UV 0.00000000000001246 Highly Informative Direct
Biological Process (BP) positive regulation of endopeptidase activity 0.000007082 Highly Informative Direct
Biological Process (BP) regulation of interleukin-1 beta production 0.000000008067 Highly Informative Direct
Biological Process (BP) response to endoplasmic reticulum stress 0.0000224 Highly Informative Direct
Biological Process (BP) response to topologically incorrect protein 0.0001166 Highly Informative Direct
Biological Process (BP) regulation of cysteine-type endopeptidase activity involved in apoptotic process 0.00006976 Highly Informative Direct
Biological Process (BP) regulation of cytokine secretion 0.0003828 Highly Informative Direct
Biological Process (BP) positive regulation of protein secretion 0.000003529 Highly Informative Direct
Biological Process (BP) extrinsic apoptotic signaling pathway 0.000007024 Highly Informative Direct
Biological Process (BP) intrinsic apoptotic signaling pathway 0.000000001049 Highly Informative Direct
Biological Process (BP) execution phase of apoptosis 0 Highly Informative Direct
Biological Process (BP) positive regulation of neuron death 0.000007673 Highly Informative Direct
Biological Process (BP) zymogen activation 0.02553 Highly Informative Inherited
Biological Process (BP) post-embryonic development 0.2894 Highly Informative Inherited
Biological Process (BP) regulation of neuron apoptotic process 0.01407 Highly Informative Inherited
Biological Process (BP) positive regulation of cytokine production 0.00451 Highly Informative Inherited
Molecular Function (MF) hydrolase activity 0 Least Informative Direct
Molecular Function (MF) binding 0.06266 Least Informative Inherited
Molecular Function (MF) enzyme regulator activity 0.0002948 Moderately Informative Direct
Molecular Function (MF) peptidase activity 0 Informative Direct
Molecular Function (MF) enzyme binding 0.01195 Informative Inherited
Molecular Function (MF) endopeptidase activity 0.00000000001953 Highly Informative Direct
Cellular Component (CC) protein complex 0.00000000000001745 Least Informative Direct
Cellular Component (CC) cytoplasmic part 0.00003493 Least Informative Direct
Cellular Component (CC) membrane 1 Least Informative Inherited
Cellular Component (CC) cytosol 0.00000000000000158 Moderately Informative Direct
Cellular Component (CC) plasma membrane part 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 death0.00001064Moderately 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 physiology0.0000009165InformativeDirect
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 physiology0.00003834Highly 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 processVirulence0.00005804InformativeDirect
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 ]