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 (921) Uniprot 2013_05 PDB chains (SCOP 1.75)
Domains 4,167 5,414 38
Proteins 4,104 5,364 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 process4.594e-140Least InformativeDirect
Biological Process (BP)developmental process4.558e-090.0008701Least InformativeDirect
Biological Process (BP)single-organism cellular process4.767e-080Least InformativeDirect
Biological Process (BP)response to stimulus0.035459.196e-08Least InformativeInherited
Biological Process (BP)regulation of metabolic process0.78430.9286Least InformativeInherited
Biological Process (BP)regulation of cellular process1.396e-050.002675Least InformativeInherited
Biological Process (BP)response to abiotic stimulus0.00051115.838e-06Moderately InformativeDirect
Biological Process (BP)response to organic substance0.00046027.132e-06Moderately InformativeDirect
Biological Process (BP)cell differentiation3.365e-050.0005305Moderately InformativeDirect
Biological Process (BP)regulation of programmed cell death3.068e-140Moderately InformativeDirect
Biological Process (BP)regulation of catalytic activity0.00030322.78e-14Moderately InformativeDirect
Biological Process (BP)signal transduction0.03760.01075Moderately InformativeInherited
Biological Process (BP)positive regulation of cellular process0.0080547.361e-08Moderately InformativeInherited
Biological Process (BP)gene expression0.35920.911Moderately InformativeInherited
Biological Process (BP)proteolysis4.24e-120InformativeDirect
Biological Process (BP)cell death00InformativeDirect
Biological Process (BP)response to light stimulus0.8630.5629InformativeInherited
Biological Process (BP)response to UV1.763e-071.086e-14Highly InformativeDirect
Biological Process (BP)protein processing3.367e-100Highly InformativeDirect
Biological Process (BP)positive regulation of programmed cell death0.00047283.63e-09Highly InformativeDirect
Biological Process (BP)execution phase of apoptosis2.643e-140Highly InformativeDirect
Biological Process (BP)regulation of neuron apoptotic process0.014630.0158Highly InformativeInherited
Molecular Function (MF)hydrolase activity00Least InformativeDirect
Molecular Function (MF)peptidase activity00InformativeDirect
Molecular Function (MF)endopeptidase activity0.11951.754e-10Highly 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) developmental process 0.0008701 Least Informative Direct
Biological Process (BP) single-organism cellular process 0 Least Informative Direct
Biological Process (BP) response to stimulus 9.196e-08 Least Informative Direct
Biological Process (BP) regulation of metabolic process 0.9286 Least Informative Inherited
Biological Process (BP) multicellular organismal process 0.04755 Least Informative Inherited
Biological Process (BP) regulation of cellular process 0.002675 Least Informative Inherited
Biological Process (BP) immune system process 0.0002252 Moderately Informative Direct
Biological Process (BP) response to abiotic stimulus 5.838e-06 Moderately Informative Direct
Biological Process (BP) response to organic substance 7.132e-06 Moderately Informative Direct
Biological Process (BP) cell differentiation 0.0005305 Moderately Informative Direct
Biological Process (BP) regulation of programmed cell death 0 Moderately Informative Direct
Biological Process (BP) positive regulation of molecular function 0.0005026 Moderately Informative Direct
Biological Process (BP) positive regulation of cellular process 7.361e-08 Moderately Informative Direct
Biological Process (BP) regulation of catalytic activity 2.78e-14 Moderately Informative Direct
Biological Process (BP) regulation of multicellular organismal process 0.8657 Moderately Informative Inherited
Biological Process (BP) regulation of localization 1 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 0.8946 Moderately Informative Inherited
Biological Process (BP) positive regulation of response to stimulus 0.2716 Moderately Informative Inherited
Biological Process (BP) regulation of signal transduction 0.6542 Moderately Informative Inherited
Biological Process (BP) signal transduction 0.01075 Moderately Informative Inherited
Biological Process (BP) cellular response to stress 0.00128 Moderately Informative Inherited
Biological Process (BP) cellular response to chemical stimulus 0.2273 Moderately Informative Inherited
Biological Process (BP) reproduction 0.1333 Moderately Informative Inherited
Biological Process (BP) gene expression 0.911 Moderately Informative Inherited
Biological Process (BP) single-organism developmental process 0.5677 Moderately Informative Inherited
Biological Process (BP) multi-organism process 0.1404 Moderately Informative Inherited
Biological Process (BP) tissue development 0.02754 Moderately Informative Inherited
Biological Process (BP) proteolysis 0 Informative Direct
Biological Process (BP) cell death 0 Informative Direct
Biological Process (BP) response to bacterium 0.0002763 Informative Direct
Biological Process (BP) intracellular signal transduction 0.0005693 Informative Direct
Biological Process (BP) positive regulation of hydrolase activity 8.727e-07 Informative Direct
Biological Process (BP) regulation of peptidase activity 0 Informative Direct
Biological Process (BP) regulation of establishment of protein localization 0.0002581 Informative Direct
Biological Process (BP) positive regulation of transport 0.5503 Informative Inherited
Biological Process (BP) regulation of secretion 0.009676 Informative Inherited
Biological Process (BP) regulation of cytokine production 0.003799 Informative Inherited
Biological Process (BP) positive regulation of multicellular organismal process 0.347 Informative Inherited
Biological Process (BP) positive regulation of signal transduction 0.01025 Informative Inherited
Biological Process (BP) regulation of intracellular protein kinase cascade 0.09459 Informative Inherited
Biological Process (BP) cellular process involved in reproduction 0.03049 Informative Inherited
Biological Process (BP) response to inorganic substance 0.2377 Informative Inherited
Biological Process (BP) response to light stimulus 0.5629 Informative Inherited
Biological Process (BP) positive regulation of cytokine production 3.956e-06 Highly Informative Direct
Biological Process (BP) ER-nucleus signaling pathway 4.15e-07 Highly Informative Direct
Biological Process (BP) response to UV 1.086e-14 Highly Informative Direct
Biological Process (BP) positive regulation of peptidase activity 2.765e-12 Highly Informative Direct
Biological Process (BP) protein processing 0 Highly Informative Direct
Biological Process (BP) cellular process involved in reproduction in multicellular organism 1.142e-05 Highly Informative Direct
Biological Process (BP) regulation of interleukin-1 beta production 8.083e-09 Highly Informative Direct
Biological Process (BP) response to endoplasmic reticulum stress 2.128e-05 Highly Informative Direct
Biological Process (BP) response to topologically incorrect protein 0.0001237 Highly Informative Direct
Biological Process (BP) positive regulation of programmed cell death 3.63e-09 Highly Informative Direct
Biological Process (BP) regulation of protein secretion 0.0001594 Highly Informative Direct
Biological Process (BP) positive regulation of secretion 0.0001434 Highly Informative Direct
Biological Process (BP) positive regulation of protein transport 6.42e-05 Highly Informative Direct
Biological Process (BP) extrinsic apoptotic signaling pathway 7.346e-06 Highly Informative Direct
Biological Process (BP) intrinsic apoptotic signaling pathway 2.124e-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) post-embryonic development 0.2337 Highly Informative Inherited
Biological Process (BP) regulation of neuron apoptotic process 0.0158 Highly Informative Inherited
Molecular Function (MF) hydrolase activity 0 Least Informative Direct
Molecular Function (MF) binding 0.02659 Least Informative Inherited
Molecular Function (MF) peptidase activity 0 Informative Direct
Molecular Function (MF) endopeptidase activity 1.754e-10 Highly Informative Direct
Cellular Component (CC) protein complex 4.514e-12 Least Informative Direct
Cellular Component (CC) membrane 1 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 0.01858 Least Informative Inherited
Cellular Component (CC) cytosol 1.885e-06 Moderately Informative Direct
Cellular Component (CC) plasma membrane part 0.9129 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 cancer0.06849Moderately InformativeInherited
Disease Ontology (DO)melanoma0.0008679InformativeDirect

Document: DO annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)immune system phenotype0.004404Least InformativeInherited
Mammalian Phenotype (MP)cellular phenotype0.005083Least InformativeInherited
Mammalian Phenotype (MP)hematopoietic system phenotype0.01414Least InformativeInherited
Mammalian Phenotype (MP)nervous system phenotype0.02633Least InformativeInherited
Mammalian Phenotype (MP)mortality/aging0.1637Least InformativeInherited
Mammalian Phenotype (MP)abnormal homeostasis0.5255Least InformativeInherited
Mammalian Phenotype (MP)abnormal cell death9.396e-06Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal hematopoietic system physiology0.0006238Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal protein level0.03857Moderately InformativeInherited
Mammalian Phenotype (MP)altered susceptibility to infection0.04355Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal immune cell physiology0.07675Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal cell-mediated immunity0.08019Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal adaptive immunity0.08701Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal nervous system physiology0.2886Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal immune serum protein physiology0.3751Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal T cell physiology1.038e-06InformativeDirect
Mammalian Phenotype (MP)abnormal neuron physiology0.0001486InformativeDirect
Mammalian Phenotype (MP)abnormal interleukin secretion0.004263InformativeInherited
Mammalian Phenotype (MP)abnormal interleukin level0.005999InformativeInherited
Mammalian Phenotype (MP)abnormal circulating cytokine level0.07862InformativeInherited
Mammalian Phenotype (MP)abnormal macrophage physiology0.3208InformativeInherited
Mammalian Phenotype (MP)abnormal immune organ physiology3.888e-05Highly InformativeDirect
Mammalian Phenotype (MP)abnormal interleukin-1 beta secretion9.225e-05Highly InformativeDirect
Mammalian Phenotype (MP)abnormal macrophage apoptosis0.0002253Highly InformativeDirect
Mammalian Phenotype (MP)decreased susceptibility to bacterial infection0.0003417Highly InformativeDirect
Mammalian Phenotype (MP)decreased physiological sensitivity to xenobiotic0.0006289Highly InformativeDirect
Mammalian Phenotype (MP)decreased apoptosis0.0008881Highly InformativeDirect
Mammalian Phenotype (MP)altered susceptibility to infection induced morbidity/mortality0.01066Highly 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)visible0.0001392Moderately InformativeDirect
Fly Phenotype (FP)cell death defective1.07e-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)cell0.4552Least InformativeInherited
Fly Anatomy (FA)developing material anatomical entity0.3586Moderately InformativeInherited
Fly Anatomy (FA)gland0.0001892InformativeDirect
Fly Anatomy (FA)male germline cell0.0002613InformativeDirect

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 processVirulence5.055e-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 ]