SUPERFAMILY 1.75 HMM library and genome assignments server

Superfamily is undergoing a server migration - you are now browsing on the new server. Please contact us if you experience any problems.


ClpP/crotonase superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a/b) [ 51349] (147)
Fold:   ClpP/crotonase [ 52095]
Superfamily:   ClpP/crotonase [ 52096] (4)
Families:   Clp protease, ClpP subunit [ 52097]
  Tail specific protease, catalytic domain [ 52100] (3)
  Crotonase-like [ 52103] (13)
  Biotin dependent carboxylase carboxyltransferase domain [ 89572] (6)


Superfamily statistics
Genomes (3,178) Uniprot 2018_03 genome PDB chains (SCOP 1.75)
Domains 51,793 443,182 57
Proteins 45,853 391,778 47


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)Ligases0Least InformativeDirect
Enzyme Commission (EC)Isomerases0.000000000008328Least InformativeDirect
Enzyme Commission (EC)Lyases0.000000003872Least InformativeDirect
Enzyme Commission (EC)Acting on ester bonds1Least InformativeInherited
Enzyme Commission (EC)Oxidoreductases1Least InformativeInherited
Enzyme Commission (EC)Serine endopeptidases0Moderately InformativeDirect
Enzyme Commission (EC)Racemases and epimerases0Moderately InformativeDirect
Enzyme Commission (EC)Hydro-lyases0Moderately InformativeDirect
Enzyme Commission (EC)With NAD(+) or NADP(+) as acceptor0Moderately InformativeDirect
Enzyme Commission (EC)Intramolecular oxidoreductases0.00000000000001918Moderately InformativeDirect
Enzyme Commission (EC)Forming carbon-nitrogen bonds1Moderately InformativeInherited
Enzyme Commission (EC)Carboxy-lyases1Moderately InformativeInherited
Enzyme Commission (EC)Transposing C==C bonds0InformativeDirect
Enzyme Commission (EC)Thiolester hydrolases0.00001714InformativeDirect
Enzyme Commission (EC)Oxo-acid-lyases0.00008764InformativeDirect
Enzyme Commission (EC)Ligases that form carbon-carbon bonds1InformativeInherited
Enzyme Commission (EC)Other carbon--nitrogen ligases1InformativeInherited
Enzyme Commission (EC)3-hydroxybutyryl-CoA epimerase0Highly InformativeDirect
Enzyme Commission (EC)Biotin carboxylase0Highly InformativeDirect
Enzyme Commission (EC)3-hydroxyacyl-CoA dehydrogenase0Highly InformativeDirect
Enzyme Commission (EC)Dodecenoyl-CoA isomerase0Highly InformativeDirect
Enzyme Commission (EC)Enoyl-CoA hydratase0Highly InformativeDirect

Document: EC annotation of SCOP domains

Human Phenotype (HP)

(show details)
HP termFDR (all)SDHP levelAnnotation (direct or inherited)
Phenotypic Abnormality (PA)Abnormality of the genitourinary system0.01938Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of metabolism/homeostasis0.1595Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of nervous system physiology0.6247Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of acid-base homeostasis0.0004437Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the urinary system physiology0.03165Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of higher mental function0.3489Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal circulating metabolite concentration0.7251Moderately InformativeInherited
Phenotypic Abnormality (PA)Acidosis0.00000635InformativeDirect
Phenotypic Abnormality (PA)Abnormality of mitochondrial metabolism0.0001987InformativeDirect
Phenotypic Abnormality (PA)Azotemia0.003015InformativeInherited
Phenotypic Abnormality (PA)Reduced consciousness/confusion0.01027InformativeInherited
Phenotypic Abnormality (PA)Aciduria0.01202InformativeInherited
Phenotypic Abnormality (PA)Aminoaciduria0.00002807Highly InformativeDirect
Phenotypic Abnormality (PA)Coma0.0001116Highly InformativeDirect

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)abnormal homeostasis0.132Least InformativeInherited
Mammalian Phenotype (MP)abnormal lipid homeostasis0.00612Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal hormone level0.1282Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal glucose homeostasis0.05167InformativeInherited
Mammalian Phenotype (MP)abnormal fatty acid level0.00000254Highly InformativeDirect
Mammalian Phenotype (MP)increased circulating insulin level0.00079Highly InformativeDirect

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 variant0.001111Least InformativeInherited
Worm Phenotype (WP)level of transgene expression variant0.0001849Moderately InformativeDirect
Worm Phenotype (WP)body region morphology variant0.06172Moderately InformativeInherited
Worm Phenotype (WP)organism segment morphology variant0.06172Moderately InformativeInherited
Worm Phenotype (WP)developmental morphology variant0.0619Moderately InformativeInherited
Worm Phenotype (WP)adult body morphology variant0.06208Moderately InformativeInherited
Worm Phenotype (WP)body morphology variant0.0665Moderately InformativeInherited
Worm Phenotype (WP)fat content variant0.0000006758InformativeDirect
Worm Phenotype (WP)pigmentation variant0.006841InformativeInherited
Worm Phenotype (WP)clear0.00048Highly InformativeDirect

Document: WP annotation of SCOP domains

Yeast Phenotype (YP)

(show details) Document: YP annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)cavitated compound organ0Least 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)flower0Least InformativeDirect
Plant ANatomical entity (PAN)collective phyllome structure0Least InformativeDirect
Plant ANatomical entity (PAN)shoot axis0Least InformativeDirect
Plant ANatomical entity (PAN)portion of meristem tissue0.00006349Least InformativeDirect
Plant ANatomical entity (PAN)seed0.0002576Least InformativeDirect
Plant ANatomical entity (PAN)cardinal part of multi-tissue plant structure0.000454Least InformativeDirect
Plant ANatomical entity (PAN)whole plant0.004132Least InformativeInherited
Plant ANatomical entity (PAN)inflorescence0.01702Least InformativeInherited
Plant ANatomical entity (PAN)megasporophyll0.04456Least InformativeInherited
Plant ANatomical entity (PAN)leaf0.1774Least InformativeInherited
Plant ANatomical entity (PAN)microsporophyll0.8767Least InformativeInherited
Plant structure DEvelopment stage (PDE)F mature embryo stage0.0001654Least 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)Lyases0.000000004272Least InformativeDirect
Enzyme Commission (EC)Oxidoreductases1Least InformativeInherited
Enzyme Commission (EC)Acting on the CH-OH group of donors0Moderately InformativeDirect
Enzyme Commission (EC)Transferring one-carbon groups0Moderately InformativeDirect
Enzyme Commission (EC)Acting on peptide bonds (peptidases)0Moderately InformativeDirect
Enzyme Commission (EC)Carbon-oxygen lyases0Moderately InformativeDirect
Enzyme Commission (EC)Isomerases0.00000000000009847Moderately InformativeDirect
Enzyme Commission (EC)Carbon-carbon lyases1Moderately InformativeInherited
Enzyme Commission (EC)Ligases1Moderately InformativeInherited
Enzyme Commission (EC)With NAD(+) or NADP(+) as acceptor0InformativeDirect
Enzyme Commission (EC)Serine endopeptidases0InformativeDirect
Enzyme Commission (EC)Racemases and epimerases0InformativeDirect
Enzyme Commission (EC)Intramolecular oxidoreductases0InformativeDirect
Enzyme Commission (EC)Thiolester hydrolases0.00004179InformativeDirect
Enzyme Commission (EC)Catalysing the translocation of inorganic cations0.006406InformativeInherited
Enzyme Commission (EC)Carboxy-lyases1InformativeInherited
Enzyme Commission (EC)Other carbon--nitrogen ligases1InformativeInherited
Enzyme Commission (EC)Carboxy- and carbamoyltransferases0Highly InformativeDirect
Enzyme Commission (EC)Transposing C=C bonds0Highly InformativeDirect
Enzyme Commission (EC)Forming carbon-carbon bonds0Highly InformativeDirect
Enzyme Commission (EC)Oxo-acid-lyases0.0003883Highly InformativeDirect
Enzyme Commission (EC)In ketonic substances1Highly InformativeInherited

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Post-translational modificationLyase0Least InformativeDirect

Document: KW annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · Enzyme Commission (EC) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · 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 135 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 ClpP/crotonase 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 135 hidden Markov models representing the ClpP/crotonase 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) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · Internal database links ]