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PP2C-like superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a+b) [ 53931] (376)
Fold:   PP2C-like [ 81607]
Superfamily:   PP2C-like [ 81606]
Families:   PP2C-like [ 81605] (2)


Superfamily statistics
Genomes (2,447) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 20,804 42,742 2
Proteins 20,489 42,534 2


Functional annotation
General category Regulation
Detailed category Kinases/phosphatases

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)macromolecule metabolic process0.14430.000000000000003692Least InformativeInherited
Biological Process (BP)primary metabolic process10.2047Least InformativeInherited
Biological Process (BP)cellular protein modification process0.0010140Moderately InformativeInherited
Biological Process (BP)protein dephosphorylation0.00014430Highly InformativeDirect
Molecular Function (MF)hydrolase activity0.00000012430Least InformativeDirect
Molecular Function (MF)hydrolase activity, acting on ester bonds0.000000000000027770Moderately InformativeDirect
Molecular Function (MF)phosphoric ester hydrolase activity00InformativeDirect
Molecular Function (MF)phosphoprotein phosphatase activity00Highly InformativeDirect

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) macromolecule metabolic process 0.000000000000003692 Least Informative Direct
Biological Process (BP) biological regulation 0.00002688 Least Informative Direct
Biological Process (BP) biosynthetic process 1 Least Informative Inherited
Biological Process (BP) primary metabolic process 0.2047 Least Informative Inherited
Biological Process (BP) response to stimulus 0.07968 Least Informative Inherited
Biological Process (BP) single-organism cellular process 1 Least Informative Inherited
Biological Process (BP) cellular protein modification process 0 Moderately Informative Direct
Biological Process (BP) negative regulation of cellular process 0.00000003411 Moderately Informative Direct
Biological Process (BP) regulation of molecular function 0.000000000005574 Moderately Informative Direct
Biological Process (BP) regulation of protein metabolic process 0.0000000001209 Moderately Informative Direct
Biological Process (BP) regulation of response to stimulus 0.00000003722 Moderately Informative Direct
Biological Process (BP) regulation of localization 0.0006281 Moderately Informative Direct
Biological Process (BP) cell communication 0.0006929 Moderately Informative Direct
Biological Process (BP) regulation of biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of nitrogen compound metabolic process 1 Moderately Informative Inherited
Biological Process (BP) negative regulation of metabolic process 0.001533 Moderately Informative Inherited
Biological Process (BP) signaling 0.00107 Moderately Informative Inherited
Biological Process (BP) regulation of cellular component organization 0.04239 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 0.8287 Moderately Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 0.03739 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 1 Moderately Informative Inherited
Biological Process (BP) regulation of cell communication 0.004013 Moderately Informative Inherited
Biological Process (BP) regulation of signaling 0.005581 Moderately Informative Inherited
Biological Process (BP) cellular response to chemical stimulus 0.001007 Moderately Informative Inherited
Biological Process (BP) regulation of cellular metabolic process 0.07456 Moderately Informative Inherited
Biological Process (BP) positive regulation of metabolic process 0.2239 Moderately Informative Inherited
Biological Process (BP) response to organic substance 1 Moderately Informative Inherited
Biological Process (BP) response to oxygen-containing compound 1 Moderately Informative Inherited
Biological Process (BP) response to abiotic stimulus 0.2289 Moderately Informative Inherited
Biological Process (BP) response to stress 1 Moderately Informative Inherited
Biological Process (BP) cellular macromolecule biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of phosphorylation 0 Informative Direct
Biological Process (BP) negative regulation of cellular protein metabolic process 0.00000000000007247 Informative Direct
Biological Process (BP) positive regulation of cell death 0.0000000008044 Informative Direct
Biological Process (BP) regulation of apoptotic process 0.000000003674 Informative Direct
Biological Process (BP) cell death 0.000000004427 Informative Direct
Biological Process (BP) negative regulation of molecular function 0.0000000187 Informative Direct
Biological Process (BP) regulation of transferase activity 0.00000007034 Informative Direct
Biological Process (BP) positive regulation of cellular component organization 0.00000008763 Informative Direct
Biological Process (BP) regulation of cellular component biogenesis 0.000000135 Informative Direct
Biological Process (BP) negative regulation of cell communication 0.0000005356 Informative Direct
Biological Process (BP) negative regulation of signaling 0.000000538 Informative Direct
Biological Process (BP) regulation of protein modification process 0.000002046 Informative Direct
Biological Process (BP) positive regulation of multicellular organismal process 0.000002186 Informative Direct
Biological Process (BP) negative regulation of response to stimulus 0.000005106 Informative Direct
Biological Process (BP) regulation of cellular component movement 0.000005512 Informative Direct
Biological Process (BP) regulation of growth 0.0000109 Informative Direct
Biological Process (BP) regulation of locomotion 0.00001969 Informative Direct
Biological Process (BP) regulation of response to external stimulus 0.00003691 Informative Direct
Biological Process (BP) intracellular signal transduction 0.0001299 Informative Direct
Biological Process (BP) regulation of proteolysis 0.0001438 Informative Direct
Biological Process (BP) positive regulation of cellular protein metabolic process 0.0007035 Informative Direct
Biological Process (BP) negative regulation of biosynthetic process 0.02417 Informative Inherited
Biological Process (BP) negative regulation of nitrogen compound metabolic process 0.01214 Informative Inherited
Biological Process (BP) negative regulation of transport 0.001728 Informative Inherited
Biological Process (BP) regulation of transcription, DNA-templated 0.01426 Informative Inherited
Biological Process (BP) negative regulation of gene expression 0.02164 Informative Inherited
Biological Process (BP) regulation of hydrolase activity 0.6521 Informative Inherited
Biological Process (BP) regulation of intracellular signal transduction 0.003548 Informative Inherited
Biological Process (BP) regulation of protein localization 0.5671 Informative Inherited
Biological Process (BP) regulation of cellular localization 0.5204 Informative Inherited
Biological Process (BP) positive regulation of catalytic activity 0.05659 Informative Inherited
Biological Process (BP) response to inorganic substance 0.5758 Informative Inherited
Biological Process (BP) response to acid chemical 0.009822 Informative Inherited
Biological Process (BP) protein dephosphorylation 0 Highly Informative Direct
Biological Process (BP) negative regulation of transferase activity 0 Highly Informative Direct
Biological Process (BP) regulation of cysteine-type endopeptidase activity 0 Highly Informative Direct
Biological Process (BP) positive regulation of cellular component biogenesis 0.000000000000003692 Highly Informative Direct
Biological Process (BP) regulation of epithelial cell migration 0.000000000000003692 Highly Informative Direct
Biological Process (BP) negative regulation of protein modification process 0.000000000000007239 Highly Informative Direct
Biological Process (BP) positive regulation of cell adhesion 0.00000000000008346 Highly Informative Direct
Biological Process (BP) positive regulation of growth 0.000000000000213 Highly Informative Direct
Biological Process (BP) positive regulation of cell migration 0.0000000000002579 Highly Informative Direct
Biological Process (BP) negative regulation of phosphate metabolic process 0.000000000008309 Highly Informative Direct
Biological Process (BP) positive regulation of proteolysis 0.00000000001588 Highly Informative Direct
Biological Process (BP) apoptotic process 0.00000000002569 Highly Informative Direct
Biological Process (BP) response to drug 0.0000000001331 Highly Informative Direct
Biological Process (BP) positive regulation of response to external stimulus 0.000000003308 Highly Informative Direct
Biological Process (BP) negative regulation of intracellular signal transduction 0.000000008629 Highly Informative Direct
Biological Process (BP) regulation of protein import into nucleus 0.00000002726 Highly Informative Direct
Biological Process (BP) lipoprotein metabolic process 0.00000006884 Highly Informative Direct
Biological Process (BP) negative regulation of cellular protein localization 0.000002388 Highly Informative Direct
Biological Process (BP) negative regulation of establishment of protein localization 0.00002979 Highly Informative Direct
Biological Process (BP) response to alcohol 0.00003095 Highly Informative Direct
Biological Process (BP) response to water deprivation 0.00003945 Highly Informative Direct
Biological Process (BP) positive regulation of apoptotic process 0.00004805 Highly Informative Direct
Biological Process (BP) regulation of cellular response to stress 0.0001764 Highly Informative Direct
Biological Process (BP) negative regulation of RNA metabolic process 0.002006 Highly Informative Inherited
Biological Process (BP) regulation of protein serine/threonine kinase activity 1 Highly Informative Inherited
Molecular Function (MF) hydrolase activity 0 Least Informative Direct
Molecular Function (MF) binding 1 Least Informative Inherited
Molecular Function (MF) hydrolase activity, acting on ester bonds 0 Moderately Informative Direct
Molecular Function (MF) protein binding 0.7263 Moderately Informative Inherited
Molecular Function (MF) metal ion binding 0.07178 Moderately Informative Inherited
Molecular Function (MF) phosphoric ester hydrolase activity 0 Informative Direct
Molecular Function (MF) phosphoprotein phosphatase activity 0 Highly Informative Direct
Molecular Function (MF) manganese ion binding 0.00000929 Highly Informative Direct
Cellular Component (CC) cytoplasmic part 0.01162 Least Informative Inherited
Cellular Component (CC) intracellular organelle part 1 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0.007925 Least Informative Inherited
Cellular Component (CC) mitochondrial part 0.09331 Moderately Informative Inherited
Cellular Component (CC) intracellular organelle lumen 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 ester bonds0Least InformativeDirect
Enzyme Commission (EC)Lyases1Least InformativeInherited
Enzyme Commission (EC)Phosphoric monoester hydrolases0Moderately InformativeDirect
Enzyme Commission (EC)Phosphoprotein phosphatase0InformativeDirect
Enzyme Commission (EC)Phosphorus-oxygen lyases1InformativeInherited
Enzyme Commission (EC)Adenylate cyclase0.0000000001315Highly InformativeDirect

Document: EC annotation of SCOP domains

Disease Ontology (DO)

(show details) Document: DO annotation of SCOP domains

Human Phenotype (HP)

(show details)
HP termFDR (all)SDHP levelAnnotation (direct or inherited)
Phenotypic Abnormality (PA)Abnormality of metabolism/homeostasis0.182Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of acid-base homeostasis0.0005784Moderately InformativeDirect
Phenotypic Abnormality (PA)Acidosis0.0004446InformativeDirect
Phenotypic Abnormality (PA)Lactic acidosis0.00005384Highly InformativeDirect

Document: HP annotation of SCOP domains

Worm Phenotype (WP)

(show details) Document: WP annotation of SCOP domains

Yeast Phenotype (YP)

(show details)
YP termFDR (all)SDYP levelAnnotation (direct or inherited)
Yeast Phenotype (YP)resistance to chemicals0Least InformativeDirect
Yeast Phenotype (YP)morphology0.1473Moderately InformativeInherited
Yeast Phenotype (YP)subcellular morphology0.05537InformativeInherited
Yeast Phenotype (YP)lipid particle morphology0.00005546Highly InformativeDirect

Document: YP annotation of SCOP domains

Zebrafish Anatomy (ZA)

(show details)
ZA termFDR (all)SDZA levelAnnotation (direct or inherited)
Zebrafish Anatomy (ZA)nervous system0Least InformativeDirect
Zebrafish Anatomy (ZA)compound organ0Least InformativeDirect
Zebrafish Anatomy (ZA)multi-tissue structure0Least InformativeDirect
Zebrafish Anatomy (ZA)central nervous system0Moderately InformativeDirect

Document: ZA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details) Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)sporangium0.0001939Least InformativeDirect
Plant ANatomical entity (PAN)whole plant0.04958Least InformativeInherited
Plant ANatomical entity (PAN)microsporophyll0.2488Least InformativeInherited

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)Lyases1Least InformativeInherited
Enzyme Commission (EC)Phosphoric monoester hydrolases0Moderately InformativeDirect
Enzyme Commission (EC)Phosphorus-oxygen lyases1InformativeInherited
Enzyme Commission (EC)Protein-serine/threonine phosphatase0Highly InformativeDirect
Enzyme Commission (EC)Adenylate cyclase0.000000000108Highly InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processApoptosis0.00004767Moderately InformativeDirect
Coding sequence diversityAlternative splicing0.000005152Least InformativeDirect
DomainTransit peptide0.000426Moderately InformativeDirect
DomainLeucine-rich repeat0.000000000418InformativeDirect
Molecular functionMetal-binding0Least InformativeDirect
Molecular functionMagnesium0Moderately InformativeDirect
Molecular functionManganese0Moderately InformativeDirect
Post-translational modificationHydrolase0Least InformativeDirect
Post-translational modificationProtein phosphatase0InformativeDirect
Post-translational modificationPhosphoprotein0.00001162Least InformativeDirect
Post-translational modificationMyristate0.0000000000004886InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR001932 SSF81606 Protein matches
Abstract

This domain is found in protein phosphatase 2C, as well as other proteins eg. pyruvate dehydrogenase (lipoamide)]-phosphatase and adenylate cyclase .

Protein phosphatase 2C (PP2C) is one of the four major classes of mammalian serine/threonine specific protein phosphatases . PP2C [PubMed1312947] is a monomeric enzyme of about 42 Kd which shows broad substrate specificity and is dependent on divalent cations (mainly manganese and magnesium) for its activity. Its exact physiological role is still unclear. Three isozymes are currently known in mammals: PP2C-alpha, -beta and -gamma. In yeast, there are at least four PP2C homologs: phosphatase PTC1 [PubMed8395005], which has weak tyrosine phosphatase activity in addition to its activity on serines, phosphatases PTC2 and PTC3, and hypothetical protein YBR125c. Isozymes of PP2C are also known from Arabidopsis thaliana (ABI1, PPH1), Caenorhabditis elegans (FEM-2, F42G9.1, T23F11.1), Leishmania chagasi and Paramecium tetraurelia. In A. thaliana, the kinase associated protein phosphatase (KAPP) [PubMed7973632] is an enzyme that dephosphorylates the Ser/Thr receptor-like kinase RLK5 and which contains a C-terminal PP2C domain.

PP2C does not seem to be evolutionary related to the main family of serine/ threonine phosphatases: PP1, PP2A and PP2B. However, it is significantly similar to the catalytic subunit of pyruvate dehydrogenase phosphatase (PDPC) [PubMed8396421], which catalyzes dephosphorylation and concomitant reactivation of the alpha subunit of the E1 component of the pyruvate dehydrogenase complex. PDPC is a mitochondrial enzyme and, like PP2C, is magnesium-dependent.


InterPro database


PDBeMotif information about ligands, sequence and structure motifs
Cross references PDB entries
Ligand binding statistics
Nucleic-acid binding statistics
Occurrence of secondary structure elements
Occurrence of small 3D structural motifs

PDBeMotif resource

Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Disease Ontology (DO) · Human Phenotype (HP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Zebrafish Anatomy (ZA) · 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 2 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 PP2C-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 2 hidden Markov models representing the PP2C-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 · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Disease Ontology (DO) · Human Phenotype (HP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · Internal database links ]