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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 (2,451) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 20,873 42,742 2
Proteins 20,554 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 process0.19830.000000000000003764Least InformativeInherited
Biological Process (BP)organonitrogen compound metabolic process0.4090Least InformativeInherited
Biological Process (BP)primary metabolic process10.3173Least InformativeInherited
Biological Process (BP)cellular protein modification process0.0017770Moderately InformativeInherited
Biological Process (BP)dephosphorylation00InformativeDirect
Biological Process (BP)protein dephosphorylation0.00010310Highly InformativeDirect
Molecular Function (MF)hydrolase activity0.000000068750Least InformativeDirect
Molecular Function (MF)hydrolase activity, acting on ester bonds0.0000000000000060780Moderately InformativeDirect
Molecular Function (MF)phosphatase 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 0.000000000000003764 Least Informative Direct
Biological Process (BP) organonitrogen compound metabolic process 0 Least Informative Direct
Biological Process (BP) biological regulation 0.00002017 Least Informative Direct
Biological Process (BP) primary metabolic process 0.3173 Least Informative Inherited
Biological Process (BP) response to stimulus 0.1177 Least Informative Inherited
Biological Process (BP) single-organism cellular process 1 Least Informative Inherited
Biological Process (BP) biosynthetic process 1 Least Informative Inherited
Biological Process (BP) cellular protein modification process 0 Moderately Informative Direct
Biological Process (BP) negative regulation of cellular process 0.0000001783 Moderately Informative Direct
Biological Process (BP) regulation of molecular function 0.000000000007391 Moderately Informative Direct
Biological Process (BP) regulation of protein metabolic process 0.00000000009056 Moderately Informative Direct
Biological Process (BP) regulation of response to stimulus 0.00000005826 Moderately Informative Direct
Biological Process (BP) single organism signaling 0.000368 Moderately Informative Direct
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of cellular component organization 0.1612 Moderately Informative Inherited
Biological Process (BP) regulation of cellular biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of macromolecule biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) cell communication 0.05109 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 0.8191 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 1 Moderately Informative Inherited
Biological Process (BP) negative regulation of metabolic process 0.02101 Moderately Informative Inherited
Biological Process (BP) regulation of signaling 0.01237 Moderately Informative Inherited
Biological Process (BP) regulation of localization 0.001959 Moderately Informative Inherited
Biological Process (BP) cellular response to chemical stimulus 0.006479 Moderately Informative Inherited
Biological Process (BP) positive regulation of metabolic process 0.1097 Moderately Informative Inherited
Biological Process (BP) regulation of cell communication 0.005219 Moderately Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 0.1099 Moderately Informative Inherited
Biological Process (BP) response to organic substance 1 Moderately Informative Inherited
Biological Process (BP) response to oxygen-containing compound 0.9095 Moderately Informative Inherited
Biological Process (BP) response to abiotic stimulus 0.06751 Moderately Informative Inherited
Biological Process (BP) cellular macromolecule biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) dephosphorylation 0 Informative Direct
Biological Process (BP) regulation of phosphorylation 0 Informative Direct
Biological Process (BP) negative regulation of protein metabolic process 0.00000000000002124 Informative Direct
Biological Process (BP) positive regulation of cell death 0.000000001359 Informative Direct
Biological Process (BP) regulation of apoptotic process 0.000000007696 Informative Direct
Biological Process (BP) cell death 0.00000001295 Informative Direct
Biological Process (BP) regulation of transferase activity 0.0000000388 Informative Direct
Biological Process (BP) negative regulation of molecular function 0.00000004893 Informative Direct
Biological Process (BP) positive regulation of cellular component organization 0.00000008775 Informative Direct
Biological Process (BP) regulation of growth 0.0000004691 Informative Direct
Biological Process (BP) regulation of cellular component biogenesis 0.0000008207 Informative Direct
Biological Process (BP) regulation of protein modification process 0.000001153 Informative Direct
Biological Process (BP) negative regulation of signaling 0.00000119 Informative Direct
Biological Process (BP) negative regulation of cell communication 0.000001534 Informative Direct
Biological Process (BP) regulation of cellular component movement 0.000005048 Informative Direct
Biological Process (BP) positive regulation of multicellular organismal process 0.00001618 Informative Direct
Biological Process (BP) negative regulation of response to stimulus 0.00003829 Informative Direct
Biological Process (BP) intracellular signal transduction 0.00003978 Informative Direct
Biological Process (BP) regulation of locomotion 0.00004835 Informative Direct
Biological Process (BP) regulation of response to external stimulus 0.00007552 Informative Direct
Biological Process (BP) regulation of proteolysis 0.000257 Informative Direct
Biological Process (BP) positive regulation of cellular protein metabolic process 0.0007704 Informative Direct
Biological Process (BP) regulation of peptide transport 0.0008754 Informative Direct
Biological Process (BP) regulation of establishment of protein localization 0.000879 Informative Direct
Biological Process (BP) positive regulation of catalytic activity 0.05903 Informative Inherited
Biological Process (BP) negative regulation of macromolecule biosynthetic process 0.0118 Informative Inherited
Biological Process (BP) negative regulation of cellular biosynthetic process 0.04647 Informative Inherited
Biological Process (BP) negative regulation of transport 0.002639 Informative Inherited
Biological Process (BP) regulation of hydrolase activity 0.6428 Informative Inherited
Biological Process (BP) regulation of transcription, DNA-templated 0.02763 Informative Inherited
Biological Process (BP) negative regulation of gene expression 0.04075 Informative Inherited
Biological Process (BP) regulation of intracellular signal transduction 0.002783 Informative Inherited
Biological Process (BP) regulation of cellular localization 0.5467 Informative Inherited
Biological Process (BP) response to acid chemical 0.001312 Informative Inherited
Biological Process (BP) protein dephosphorylation 0 Highly Informative Direct
Biological Process (BP) regulation of epithelial cell migration 0 Highly Informative Direct
Biological Process (BP) regulation of cysteine-type endopeptidase activity 0 Highly Informative Direct
Biological Process (BP) negative regulation of transferase activity 0 Highly Informative Direct
Biological Process (BP) negative regulation of protein modification process 0.000000000000003764 Highly Informative Direct
Biological Process (BP) positive regulation of cellular component biogenesis 0.0000000000001747 Highly Informative Direct
Biological Process (BP) positive regulation of cell migration 0.0000000000005099 Highly Informative Direct
Biological Process (BP) positive regulation of cell adhesion 0.0000000000009752 Highly Informative Direct
Biological Process (BP) negative regulation of phosphate metabolic process 0.000000000007585 Highly Informative Direct
Biological Process (BP) positive regulation of proteolysis 0.00000000001046 Highly Informative Direct
Biological Process (BP) positive regulation of growth 0.00000000001124 Highly Informative Direct
Biological Process (BP) apoptotic process 0.00000000003922 Highly Informative Direct
Biological Process (BP) response to drug 0.0000000001276 Highly Informative Direct
Biological Process (BP) negative regulation of intracellular signal transduction 0.000000005826 Highly Informative Direct
Biological Process (BP) positive regulation of response to external stimulus 0.00000002357 Highly Informative Direct
Biological Process (BP) regulation of protein import into nucleus 0.00000003623 Highly Informative Direct
Biological Process (BP) response to water deprivation 0.0000004919 Highly Informative Direct
Biological Process (BP) negative regulation of intracellular transport 0.0000009156 Highly Informative Direct
Biological Process (BP) negative regulation of transcription, DNA-templated 0.000003663 Highly Informative Direct
Biological Process (BP) positive regulation of apoptotic process 0.00004468 Highly Informative Direct
Biological Process (BP) negative regulation of establishment of protein localization 0.00004486 Highly Informative Direct
Biological Process (BP) response to alcohol 0.00006387 Highly Informative Direct
Biological Process (BP) protein lipidation 0.00008224 Highly Informative Direct
Biological Process (BP) positive regulation of hydrolase activity 0.0003033 Highly Informative Direct
Biological Process (BP) regulation of MAP kinase activity 0.0003927 Highly Informative Direct
Biological Process (BP) regulation of cellular response to stress 0.000712 Highly Informative Direct
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) metal ion binding 0.09817 Moderately Informative Inherited
Molecular Function (MF) phosphatase activity 0 Informative Direct
Molecular Function (MF) phosphoprotein phosphatase activity 0 Highly Informative Direct
Molecular Function (MF) manganese ion binding 0.00001484 Highly Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 0.02762 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 0.04845 Least Informative Inherited
Cellular Component (CC) intracellular organelle part 1 Least Informative Inherited
Cellular Component (CC) mitochondrial part 0.09151 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/homeostasis0.1806Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of acid-base homeostasis0.0005886Moderately InformativeDirect
Phenotypic Abnormality (PA)Lactic acidosis0.00005564Highly 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 morphology0.05541InformativeInherited
Yeast Phenotype (YP)lipid particle morphology0.00005494Highly 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 cyclase0.000000000101Highly InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processApoptosis0.00004813Moderately InformativeDirect
Biological processAbscisic acid signaling pathway0.000000006011Highly InformativeDirect
Coding sequence diversityAlternative splicing0.000005263Least InformativeDirect
DomainTransit peptide0.0002749Moderately InformativeDirect
DomainLeucine-rich repeat0.0000000004617InformativeDirect
Molecular functionMagnesium0Least InformativeDirect
Molecular functionMetal-binding0Least InformativeDirect
Molecular functionManganese0Moderately InformativeDirect
Post-translational modificationHydrolase0Least InformativeDirect
Post-translational modificationProtein phosphatase0InformativeDirect
Post-translational modificationPhosphoprotein0.00001137Least InformativeDirect
Post-translational modificationMyristate0.000000000000502InformativeDirect

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 ]