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Cysteine proteinases superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a+b) [ 53931] (376)
Fold:   Cysteine proteinases [ 54000]
Superfamily:   Cysteine proteinases [ 54001] (22)
Families:   Papain-like [ 54002] (25)
  Avirulence protein Avrpph3 [ 102723]
  FMDV leader protease [ 54037]
  Calpain large subunit, catalytic domain (domain II) [ 54040]
  Transglutaminase core [ 54044] (2)
  Arylamine N-acetyltransferase [ 54047]
  Ubiquitin carboxyl-terminal hydrolase UCH-L [ 54050] (2)
  Ubiquitin carboxyl-terminal hydrolase, UCH [ 82568] (5)
  Adenain-like [ 54054] (5)
  Microbial transglutaminase [ 75336]
  Ubiquitin thiolesterase protein OTUB2 (Otubain-2) [ 110773]
  IgG-specific endopeptidase IdeS (Sib38) [ 117762]
  Lpg0564-like [ 142864]
  Phytochelatin synthase [ 142867]
  CHAP domain [ 142870]
  NlpC/P60 [ 142873]
  PMT C-terminal domain like [ 159843]
  MOA C-terminal domain-like [ 159846]
  Atu2299-like [ 159849]
  M48USP-like [ 159852]
  YiiX-like [ 159855]
  Autophagin-like [ 159858] (2)


Superfamily statistics
Genomes (3,041) Uniprot 2018_03 genome PDB chains (SCOP 1.75)
Domains 65,580 0 132
Proteins 64,550 0 132


Functional annotation
General category Processes_IC
Detailed category Proteases

Document:
Function annotation of SCOP domain superfamilies

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)Acting on ester bonds1Least InformativeInherited
Enzyme Commission (EC)Cysteine endopeptidases0Moderately InformativeDirect
Enzyme Commission (EC)Omega peptidases0Moderately InformativeDirect
Enzyme Commission (EC)In linear amides0.000001738Moderately InformativeDirect
Enzyme Commission (EC)Transferring groups other than amino-acyl groups1Moderately InformativeInherited
Enzyme Commission (EC)Aminoacyltransferases0InformativeDirect
Enzyme Commission (EC)Dipeptidyl-peptidases and tripeptidyl-peptidases1InformativeInherited
Enzyme Commission (EC)Protein-glutamine gamma-glutamyltransferase0Highly InformativeDirect
Enzyme Commission (EC)Poly(A)-specific ribonuclease0Highly InformativeDirect
Enzyme Commission (EC)Peptide-N(4)-(N-acetyl-beta-glucosaminyl)asparagin0Highly InformativeDirect
Enzyme Commission (EC)N-acetylmuramoyl-L-alanine amidase0.00000006359Highly InformativeDirect

Document: EC annotation of SCOP domains

Disease Ontology (DO)

(show details)
DO termFDR (all)SDDO levelAnnotation (direct or inherited)
Disease Ontology (DO)skin disease0.01265Moderately InformativeInherited
Disease Ontology (DO)hypersensitivity reaction type II disease0.5346Moderately InformativeInherited
Disease Ontology (DO)bullous skin disease0.01658InformativeInherited

Document: DO annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)nervous system phenotype1Least InformativeInherited

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)organism metabolism processing variant0.0000000002815Least InformativeDirect
Worm Phenotype (WP)cell development variant0.004197Least InformativeInherited
Worm Phenotype (WP)cell physiology variant0.3784Least InformativeInherited
Worm Phenotype (WP)organism environmental stimulus response variant0.7637Least InformativeInherited
Worm Phenotype (WP)protein protein interaction variant0Moderately InformativeDirect
Worm Phenotype (WP)pericellular component development variant0.0000000000009744Moderately InformativeDirect
Worm Phenotype (WP)pattern of transgene expression variant0.0000001906Moderately InformativeDirect
Worm Phenotype (WP)organism stress response variant0.1568Moderately InformativeInherited
Worm Phenotype (WP)cell homeostasis metabolism variant0.2772Moderately InformativeInherited
Worm Phenotype (WP)basement membrane remodeling variant0.00000000000001285InformativeDirect
Worm Phenotype (WP)neuron migration variant0.0000005452InformativeDirect
Worm Phenotype (WP)pesticide response variant0.03798InformativeInherited
Worm Phenotype (WP)cell stress response variant0.2343InformativeInherited
Worm Phenotype (WP)osmotic integrity variant0.000001673Highly InformativeDirect
Worm Phenotype (WP)paraquat hypersensitive0.0003819Highly InformativeDirect

Document: WP annotation of SCOP domains

Fly Phenotype (FP)

(show details)
FP termFDR (all)SDFP levelAnnotation (direct or inherited)
Fly Phenotype (FP)behavior defective0.0001851Moderately InformativeDirect

Document: FP annotation of SCOP domains

Fly Anatomy (FA)

(show details) Document: FA annotation of SCOP domains

Zebrafish Anatomy (ZA)

(show details)
ZA termFDR (all)SDZA levelAnnotation (direct or inherited)
Zebrafish Anatomy (ZA)organism subdivision0.007316Least InformativeInherited
Zebrafish Anatomy (ZA)multi-tissue structure0.2431Least InformativeInherited
Zebrafish Anatomy (ZA)compound organ0.9568Least InformativeInherited
Zebrafish Anatomy (ZA)cell1Least InformativeInherited
Zebrafish Anatomy (ZA)cardiovascular system0.02869Moderately InformativeInherited
Zebrafish Anatomy (ZA)anatomical cluster0.3151Moderately InformativeInherited
Zebrafish Anatomy (ZA)head0.3579Moderately InformativeInherited
Zebrafish Anatomy (ZA)trunk0.4244Moderately InformativeInherited
Zebrafish Anatomy (ZA)portion of tissue0.4543Moderately InformativeInherited
Zebrafish Anatomy (ZA)post-vent region0.0000005536InformativeDirect
Zebrafish Anatomy (ZA)skeletal element0.00002346InformativeDirect
Zebrafish Anatomy (ZA)pharyngeal arch0.00139InformativeInherited
Zebrafish Anatomy (ZA)cranium0.002782InformativeInherited
Zebrafish Anatomy (ZA)surface structure0.1751InformativeInherited
Zebrafish Anatomy (ZA)digestive system0.2612InformativeInherited
Zebrafish Anatomy (ZA)ethmoid cartilage0.0000000001679Highly InformativeDirect
Zebrafish Anatomy (ZA)pharyngeal arch cartilage0.0000001034Highly InformativeDirect
Zebrafish Anatomy (ZA)mandibular arch skeleton0.000005379Highly InformativeDirect
Zebrafish Anatomy (ZA)oral region0.00005344Highly InformativeDirect
Zebrafish Anatomy (ZA)extension0.0008174Highly InformativeDirect

Document: ZA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details) Document: XA 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)Transferring phosphorus-containing groups1Least InformativeInherited
Enzyme Commission (EC)Acting on peptide bonds (peptidases)0Moderately InformativeDirect
Enzyme Commission (EC)Acyltransferases0.00001718Moderately InformativeDirect
Enzyme Commission (EC)Nucleotidyltransferases1Moderately InformativeInherited
Enzyme Commission (EC)Acting on carbon-nitrogen bonds, other than peptide bonds1Moderately InformativeInherited
Enzyme Commission (EC)Acting on acid anhydrides1Moderately InformativeInherited
Enzyme Commission (EC)Exoribonucleases producing 5'-phosphomonoesters0InformativeDirect
Enzyme Commission (EC)Omega peptidases0InformativeDirect
Enzyme Commission (EC)Cysteine endopeptidases0InformativeDirect
Enzyme Commission (EC)RNA-directed RNA polymerase0.000002001InformativeDirect
Enzyme Commission (EC)In linear amides0.00008468InformativeDirect
Enzyme Commission (EC)In phosphorus-containing anhydrides0.8071InformativeInherited
Enzyme Commission (EC)Poly(A)-specific ribonuclease0Highly InformativeDirect
Enzyme Commission (EC)N-acetylmuramoyl-L-alanine amidase0.000000009603Highly InformativeDirect
Enzyme Commission (EC)Nucleoside-triphosphate phosphatase0.000005863Highly InformativeDirect
Enzyme Commission (EC)Dipeptidyl-peptidases and tripeptidyl-peptidases1Highly InformativeInherited

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTransport1Least InformativeInherited
Biological processProtein transport0Moderately InformativeDirect
Biological processUbl conjugation pathway0Moderately InformativeDirect
Biological processVirulence0Moderately InformativeDirect
Biological processHost-virus interaction0.000000005898Moderately InformativeDirect
Biological processCell cycle0.000001587Moderately InformativeDirect
Biological processAutophagy0InformativeDirect
Biological processmRNA processing0.000000000001274InformativeDirect
Biological processMitosis0.00000000001644InformativeDirect
Biological processViral RNA replication0.00000005131InformativeDirect
Biological processEndocytosis0.0000001044InformativeDirect
Biological processWnt signaling pathway0.0000008336InformativeDirect
Biological processVirus entry into host cell0.05686InformativeInherited
Biological processModulation of host ubiquitin pathway by viral deubiquitinase0Highly InformativeDirect
Biological processUnfolded protein response0.00000009317Highly InformativeDirect
Biological processClathrin-mediated endocytosis of virus by host0.000001732Highly InformativeDirect
Cellular componentNucleus0Least InformativeDirect
Cellular componentMembrane1Least InformativeInherited
Cellular componentCytoplasm1Least InformativeInherited
Cellular componentVirion0Moderately InformativeDirect
Cellular componentEndoplasmic reticulum0.0000000004836Moderately InformativeDirect
Cellular componentSecreted0.000000004594Moderately InformativeDirect
Cellular componentCytoskeleton0.0000001342Moderately InformativeDirect
Cellular componentEndosome0.000007786Moderately InformativeDirect
Cellular componentCell projection0.05205Moderately InformativeInherited
Cellular componentLysosome0InformativeDirect
Cellular componentHost cytoplasm0InformativeDirect
Cellular componentHost nucleus0InformativeDirect
Cellular componentVacuole0.00000000001257InformativeDirect
Cellular componentHost membrane0.0007229InformativeDirect
Cellular componentCilium0.00403InformativeInherited
Cellular componentHost cytoplasmic vesicle0.000000000007795Highly InformativeDirect
Cellular componentFlagellum0.00000000104Highly InformativeDirect
Cellular componentProteasome0.0000007267Highly InformativeDirect
Developmental stageLate protein0Least InformativeDirect
DomainSignal0Least InformativeDirect
DomainZinc-finger0.000004094Moderately InformativeDirect
DomainWD repeat0.00004393InformativeDirect
Molecular functionZinc0.00000002789Least InformativeDirect
Molecular functionCalcium0Moderately InformativeDirect
Molecular functionChloride0.0001762InformativeDirect
Molecular functionCadmium0.000000001841Highly InformativeDirect
Post-translational modificationHydrolase0Least InformativeDirect
Post-translational modificationTransferase1Least InformativeInherited
Post-translational modificationProtease0Moderately InformativeDirect
Post-translational modificationNuclease1Moderately InformativeInherited
Post-translational modificationNucleotidyltransferase1Moderately InformativeInherited
Post-translational modificationChromatin regulator0InformativeDirect
Post-translational modificationThiol protease0InformativeDirect
Post-translational modificationAcyltransferase0.00000000000000724InformativeDirect
Post-translational modificationExonuclease0.00000000000003323InformativeDirect
Post-translational modificationAntimicrobial0.04177InformativeInherited
Post-translational modificationIon channel0.1614InformativeInherited
Post-translational modificationViral ion channel0.00000000009148Highly InformativeDirect
Post-translational modificationRNA-directed RNA polymerase0.0000000192Highly InformativeDirect
Post-translational modificationDisulfide bond0.000009742Least InformativeDirect
Post-translational modificationZymogen0InformativeDirect
Post-translational modificationAutocatalytic cleavage0.0000000000005646InformativeDirect
Post-translational modificationMyristate0.0002831InformativeDirect
Post-translational modificationCovalent protein-RNA linkage0.000001326Highly InformativeDirect

Document: KW annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · Enzyme Commission (EC) · Disease Ontology (DO) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · 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 75 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 Cysteine proteinases 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 75 hidden Markov models representing the Cysteine proteinases 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 · Enzyme Commission (EC) · Disease Ontology (DO) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · Internal database links ]