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 (955) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 4,307 8,765 38
Proteins 4,229 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 process3.069e-140Least InformativeDirect
Biological Process (BP)single-organism cellular process3.207e-080Least InformativeDirect
Biological Process (BP)response to stimulus0.031722.061e-07Least InformativeInherited
Biological Process (BP)regulation of metabolic process0.77130.9191Least InformativeInherited
Biological Process (BP)developmental process3.717e-090.001444Least InformativeInherited
Biological Process (BP)regulation of cellular process1.12e-050.002712Least InformativeInherited
Biological Process (BP)response to abiotic stimulus0.00053845.798e-06Moderately InformativeDirect
Biological Process (BP)response to organic substance0.0003746.171e-06Moderately InformativeDirect
Biological Process (BP)cell differentiation3.349e-050.0007581Moderately InformativeDirect
Biological Process (BP)regulation of catalytic activity0.00026232.434e-14Moderately InformativeDirect
Biological Process (BP)signal transduction0.035110.00843Moderately InformativeInherited
Biological Process (BP)positive regulation of cellular process0.0083371.033e-07Moderately InformativeInherited
Biological Process (BP)gene expression0.37870.9245Moderately InformativeInherited
Biological Process (BP)proteolysis4.09e-120InformativeDirect
Biological Process (BP)programmed cell death00InformativeDirect
Biological Process (BP)regulation of apoptotic process6.477e-150.4189InformativeInherited
Biological Process (BP)response to light stimulus0.87120.5576InformativeInherited
Biological Process (BP)response to UV1.428e-077.281e-15Highly InformativeDirect
Biological Process (BP)protein processing2.6e-100Highly InformativeDirect
Biological Process (BP)positive regulation of programmed cell death0.00051535.08e-09Highly InformativeDirect
Biological Process (BP)execution phase of apoptosis2.174e-140Highly InformativeDirect
Biological Process (BP)regulation of neuron apoptotic process0.013540.01314Highly InformativeInherited
Molecular Function (MF)hydrolase activity00Least InformativeDirect
Molecular Function (MF)peptidase activity00InformativeDirect
Molecular Function (MF)endopeptidase activity0.11658.25e-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 2.061e-07 Least Informative Direct
Biological Process (BP) regulation of metabolic process 0.9191 Least Informative Inherited
Biological Process (BP) multicellular organismal process 0.06595 Least Informative Inherited
Biological Process (BP) developmental process 0.001444 Least Informative Inherited
Biological Process (BP) regulation of cellular process 0.002712 Least Informative Inherited
Biological Process (BP) immune system process 0.0003897 Moderately Informative Direct
Biological Process (BP) response to abiotic stimulus 5.798e-06 Moderately Informative Direct
Biological Process (BP) response to organic substance 6.171e-06 Moderately Informative Direct
Biological Process (BP) cell differentiation 0.0007581 Moderately Informative Direct
Biological Process (BP) positive regulation of cellular process 1.033e-07 Moderately Informative Direct
Biological Process (BP) regulation of catalytic activity 2.434e-14 Moderately Informative Direct
Biological Process (BP) regulation of multicellular organismal process 0.8809 Moderately Informative Inherited
Biological Process (BP) regulation of localization 1 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 0.9027 Moderately Informative Inherited
Biological Process (BP) positive regulation of response to stimulus 0.2651 Moderately Informative Inherited
Biological Process (BP) regulation of signal transduction 0.6628 Moderately Informative Inherited
Biological Process (BP) signal transduction 0.00843 Moderately Informative Inherited
Biological Process (BP) cellular response to stress 0.001338 Moderately Informative Inherited
Biological Process (BP) cellular response to chemical stimulus 0.2306 Moderately Informative Inherited
Biological Process (BP) reproduction 0.1449 Moderately Informative Inherited
Biological Process (BP) gene expression 0.9245 Moderately Informative Inherited
Biological Process (BP) positive regulation of molecular function 0.004473 Moderately Informative Inherited
Biological Process (BP) single-organism developmental process 0.69 Moderately Informative Inherited
Biological Process (BP) multi-organism process 0.1524 Moderately Informative Inherited
Biological Process (BP) tissue development 0.02914 Moderately Informative Inherited
Biological Process (BP) proteolysis 0 Informative Direct
Biological Process (BP) programmed cell death 0 Informative Direct
Biological Process (BP) intracellular signal transduction 0.0005928 Informative Direct
Biological Process (BP) positive regulation of hydrolase activity 0.0001615 Informative Direct
Biological Process (BP) regulation of peptidase activity 0 Informative Direct
Biological Process (BP) regulation of establishment of protein localization 0.0002811 Informative Direct
Biological Process (BP) positive regulation of transport 0.5764 Informative Inherited
Biological Process (BP) regulation of secretion 0.009403 Informative Inherited
Biological Process (BP) regulation of cytokine production 0.003882 Informative Inherited
Biological Process (BP) positive regulation of multicellular organismal process 0.3455 Informative Inherited
Biological Process (BP) regulation of apoptotic process 0.4189 Informative Inherited
Biological Process (BP) positive regulation of signal transduction 0.01029 Informative Inherited
Biological Process (BP) regulation of intracellular protein kinase cascade 0.09178 Informative Inherited
Biological Process (BP) developmental process involved in reproduction 0.1953 Informative Inherited
Biological Process (BP) cellular process involved in reproduction 0.03607 Informative Inherited
Biological Process (BP) response to inorganic substance 0.2386 Informative Inherited
Biological Process (BP) response to other organism 0.01469 Informative Inherited
Biological Process (BP) response to light stimulus 0.5576 Informative Inherited
Biological Process (BP) positive regulation of cytokine production 4.467e-06 Highly Informative Direct
Biological Process (BP) ER-nucleus signaling pathway 3.809e-07 Highly Informative Direct
Biological Process (BP) response to UV 7.281e-15 Highly Informative Direct
Biological Process (BP) positive regulation of peptidase activity 1.422e-14 Highly Informative Direct
Biological Process (BP) protein processing 0 Highly Informative Direct
Biological Process (BP) cellular process involved in reproduction in multicellular organism 1.323e-05 Highly Informative Direct
Biological Process (BP) regulation of interleukin-1 beta production 7.252e-09 Highly Informative Direct
Biological Process (BP) response to endoplasmic reticulum stress 1.724e-05 Highly Informative Direct
Biological Process (BP) response to topologically incorrect protein 0.0001089 Highly Informative Direct
Biological Process (BP) positive regulation of programmed cell death 5.08e-09 Highly Informative Direct
Biological Process (BP) regulation of cytokine secretion 0.000302 Highly Informative Direct
Biological Process (BP) extrinsic apoptotic signaling pathway 7.29e-06 Highly Informative Direct
Biological Process (BP) intrinsic apoptotic signaling pathway 2.303e-09 Highly Informative Direct
Biological Process (BP) execution phase of apoptosis 0 Highly Informative Direct
Biological Process (BP) regulation of cysteine-type endopeptidase activity 0 Highly Informative Direct
Biological Process (BP) positive regulation of protein secretion 0.002302 Highly Informative Inherited
Biological Process (BP) post-embryonic development 0.2457 Highly Informative Inherited
Biological Process (BP) regulation of neuron apoptotic process 0.01314 Highly Informative Inherited
Molecular Function (MF) hydrolase activity 0 Least Informative Direct
Molecular Function (MF) binding 0.0458 Least Informative Inherited
Molecular Function (MF) peptidase activity 0 Informative Direct
Molecular Function (MF) enzyme binding 0.00926 Informative Inherited
Molecular Function (MF) endopeptidase activity 8.25e-11 Highly Informative Direct
Cellular Component (CC) protein complex 5.683e-14 Least Informative Direct
Cellular Component (CC) membrane 1 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 0.00809 Least Informative Inherited
Cellular Component (CC) cytosol 5.786e-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 cancer0.06792Moderately InformativeInherited
Disease Ontology (DO)melanoma0.0008683InformativeDirect

Document: DO annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)immune system phenotype0.004425Least InformativeInherited
Mammalian Phenotype (MP)cellular phenotype0.006576Least InformativeInherited
Mammalian Phenotype (MP)hematopoietic system phenotype0.01412Least InformativeInherited
Mammalian Phenotype (MP)nervous system phenotype0.02733Least InformativeInherited
Mammalian Phenotype (MP)mortality/aging0.1647Least InformativeInherited
Mammalian Phenotype (MP)abnormal homeostasis0.4994Least InformativeInherited
Mammalian Phenotype (MP)abnormal cell death8.909e-06Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal blood cell physiology0.0004104Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal protein level0.04027Moderately InformativeInherited
Mammalian Phenotype (MP)altered susceptibility to infection0.04419Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal immune cell physiology0.07653Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal cell-mediated immunity0.07968Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal adaptive immunity0.08641Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal nervous system physiology0.2125Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal immune serum protein physiology0.382Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal T cell physiology9.83e-07InformativeDirect
Mammalian Phenotype (MP)abnormal neuron physiology0.0001669InformativeDirect
Mammalian Phenotype (MP)abnormal interleukin secretion0.004372InformativeInherited
Mammalian Phenotype (MP)abnormal interleukin level0.006244InformativeInherited
Mammalian Phenotype (MP)abnormal circulating cytokine level0.08046InformativeInherited
Mammalian Phenotype (MP)abnormal macrophage physiology0.3245InformativeInherited
Mammalian Phenotype (MP)abnormal sensitivity to induced morbidity/mortality0.5449InformativeInherited
Mammalian Phenotype (MP)abnormal immune organ physiology3.714e-05Highly InformativeDirect
Mammalian Phenotype (MP)abnormal interleukin-1 beta secretion0.0001001Highly InformativeDirect
Mammalian Phenotype (MP)decreased physiological sensitivity to xenobiotic0.0006429Highly InformativeDirect
Mammalian Phenotype (MP)decreased apoptosis0.0008425Highly InformativeDirect
Mammalian Phenotype (MP)decreased susceptibility to infection0.002182Highly InformativeInherited
Mammalian Phenotype (MP)altered susceptibility to infection induced morbidity/mortality0.01126Highly InformativeInherited
Mammalian Phenotype (MP)altered susceptibility to bacterial infection0.0156Highly 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)cell death defective8.882e-07InformativeDirect

Document: FP annotation of SCOP domains

Fly Anatomy (FA)

(show details)
FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)organ system0Least InformativeDirect
Fly Anatomy (FA)cell0.4679Least InformativeInherited
Fly Anatomy (FA)neuron0.02184Moderately InformativeInherited
Fly Anatomy (FA)developing material anatomical entity0.3598Moderately InformativeInherited
Fly Anatomy (FA)gland0.0002033InformativeDirect
Fly Anatomy (FA)male germline cell0.0002625InformativeDirect
Fly Anatomy (FA)peptidergic neuron2.013e-06Highly 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 processVirulence5.337e-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 ]