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Heme-dependent peroxidases superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   Heme-dependent peroxidases [ 48112]
Superfamily:   Heme-dependent peroxidases [ 48113] (3)
Families:   CCP-like [ 48114] (4)
  Catalase-peroxidase KatG [ 74753]
  Myeloperoxidase-like [ 48132] (2)


Superfamily statistics
Genomes (1,395) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 14,708 25,156 113
Proteins 13,158 18,595 104


Functional annotation
General category Metabolism
Detailed category Redox

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)multicellular organismal process0.00039810.0000003746Least InformativeDirect
Biological Process (BP)developmental process0.000013550.000007094Least InformativeDirect
Biological Process (BP)response to stimulus0.00000011980.00000000001562Least InformativeDirect
Biological Process (BP)localization0.026460.8491Least InformativeInherited
Biological Process (BP)single-organism cellular process0.025830.3178Least InformativeInherited
Biological Process (BP)cellular aromatic compound metabolic process0.26751Least InformativeInherited
Biological Process (BP)single-organism metabolic process0.39580.0000000005041Least InformativeInherited
Biological Process (BP)organic cyclic compound metabolic process0.15121Least InformativeInherited
Biological Process (BP)ion transport0.00000094130.0009118Moderately InformativeDirect
Biological Process (BP)multi-organism process0.0036620.0000001109Moderately InformativeInherited
Biological Process (BP)response to oxygen-containing compound0.045890.000000005456Moderately InformativeInherited
Biological Process (BP)cellular response to stress0.018530.003714Moderately InformativeInherited
Biological Process (BP)anatomical structure morphogenesis0.0011710.5109Moderately InformativeInherited
Biological Process (BP)cell differentiation0.89110.9141Moderately InformativeInherited
Biological Process (BP)organ development0.24851Moderately InformativeInherited
Biological Process (BP)response to endogenous stimulus0.12390.0007423Moderately InformativeInherited
Biological Process (BP)response to organic substance11Moderately InformativeInherited
Biological Process (BP)response to abiotic stimulus0.000450.1709Moderately InformativeInherited
Biological Process (BP)tissue development0.0010660.5355Moderately InformativeInherited
Biological Process (BP)response to inorganic substance0.00011480.000000154InformativeDirect
Biological Process (BP)metal ion transport0.0000000250.000256InformativeDirect
Biological Process (BP)response to nutrient levels0.000038340.00003862InformativeDirect
Biological Process (BP)nitrogen compound transport0.0000018120.00001677InformativeDirect
Biological Process (BP)defense response0.87360.06529InformativeInherited
Biological Process (BP)anion transport0.051660.001048InformativeInherited
Biological Process (BP)epithelium development0.069270.2909InformativeInherited
Biological Process (BP)response to hormone stimulus0.0097530.8309InformativeInherited
Biological Process (BP)secondary metabolic process0.00000068710.001499InformativeInherited
Biological Process (BP)response to salt stress0.00000063620.0001892Highly InformativeDirect
Biological Process (BP)phenylpropanoid metabolic process0.0000000074850.0000003931Highly InformativeDirect
Biological Process (BP)response to cytokinin stimulus0.000000000070340.000001305Highly InformativeDirect
Biological Process (BP)epidermal cell differentiation0.000050420.000005422Highly InformativeDirect
Biological Process (BP)inorganic anion transport0.00005290.00001822Highly InformativeDirect
Biological Process (BP)response to fungus0.0013980.0002367Highly InformativeInherited
Biological Process (BP)cellular response to starvation0.002910.052Highly InformativeInherited
Molecular Function (MF)oxidoreductase activity0.000000047780Moderately InformativeDirect
Molecular Function (MF)antioxidant activity00Highly InformativeDirect
Molecular Function (MF)oxidoreductase activity, acting on peroxide as acceptor00Highly InformativeDirect
Cellular Component (CC)intracellular organelle part0.52771Least InformativeInherited
Cellular Component (CC)intracellular membrane-bounded organelle0.059980.7124Least InformativeInherited
Cellular Component (CC)cytoplasmic part0.013380.2729Least InformativeInherited
Cellular Component (CC)external encapsulating structure00.000000000000001589InformativeDirect
Cellular Component (CC)plastid0.00025850.01683InformativeInherited
Cellular Component (CC)cell junction0.000014310.1119InformativeInherited
Cellular Component (CC)symplast0.000000027380.00006637Highly 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) biosynthetic process 0.0000618 Least Informative Direct
Biological Process (BP) multicellular organismal process 0.0000003746 Least Informative Direct
Biological Process (BP) developmental process 0.000007094 Least Informative Direct
Biological Process (BP) single-organism metabolic process 0.0000000005041 Least Informative Direct
Biological Process (BP) response to stimulus 0.00000000001562 Least Informative Direct
Biological Process (BP) nitrogen compound metabolic process 1 Least Informative Inherited
Biological Process (BP) regulation of cellular process 1 Least Informative Inherited
Biological Process (BP) localization 0.8491 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.3178 Least Informative Inherited
Biological Process (BP) cellular aromatic compound metabolic process 1 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 1 Least Informative Inherited
Biological Process (BP) lipid metabolic process 0.0000000001007 Moderately Informative Direct
Biological Process (BP) ion transport 0.0009118 Moderately Informative Direct
Biological Process (BP) response to endogenous stimulus 0.0007423 Moderately Informative Direct
Biological Process (BP) single-organism biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) multi-organism process 0.0000001109 Moderately Informative Direct
Biological Process (BP) cellular response to chemical stimulus 0.000000003457 Moderately Informative Direct
Biological Process (BP) response to oxygen-containing compound 0.000000005456 Moderately Informative Direct
Biological Process (BP) cellular catabolic process 0.3023 Moderately Informative Inherited
Biological Process (BP) regulation of biological quality 0.002161 Moderately Informative Inherited
Biological Process (BP) organic hydroxy compound metabolic process 0.02799 Moderately Informative Inherited
Biological Process (BP) cellular amino acid metabolic process 0.001459 Moderately Informative Inherited
Biological Process (BP) cellular response to stress 0.003714 Moderately Informative Inherited
Biological Process (BP) positive regulation of response to stimulus 0.7608 Moderately Informative Inherited
Biological Process (BP) response to organic substance 1 Moderately Informative Inherited
Biological Process (BP) signal transduction 0.909 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 0.5109 Moderately Informative Inherited
Biological Process (BP) cell differentiation 0.9141 Moderately Informative Inherited
Biological Process (BP) organ development 1 Moderately Informative Inherited
Biological Process (BP) response to abiotic stimulus 0.1709 Moderately Informative Inherited
Biological Process (BP) tissue development 0.5355 Moderately Informative Inherited
Biological Process (BP) system process 0.1352 Moderately Informative Inherited
Biological Process (BP) monocarboxylic acid metabolic process 0.00128 Moderately Informative Inherited
Biological Process (BP) immune system process 0.003291 Moderately Informative Inherited
Biological Process (BP) cellular modified amino acid metabolic process 0.00000757 Informative Direct
Biological Process (BP) fatty acid metabolic process 0.000000000002077 Informative Direct
Biological Process (BP) response to oxidative stress 0.00000000158 Informative Direct
Biological Process (BP) blood circulation 0.000000000000005594 Informative Direct
Biological Process (BP) response to inorganic substance 0.000000154 Informative Direct
Biological Process (BP) response to organic cyclic compound 0.00001056 Informative Direct
Biological Process (BP) metal ion transport 0.000256 Informative Direct
Biological Process (BP) response to nutrient levels 0.00003862 Informative Direct
Biological Process (BP) response to cytokine stimulus 0.00002526 Informative Direct
Biological Process (BP) nitrogen compound transport 0.00001677 Informative Direct
Biological Process (BP) monocarboxylic acid biosynthetic process 0.0000000007915 Informative Direct
Biological Process (BP) cellular response to oxygen-containing compound 0.2751 Informative Inherited
Biological Process (BP) response to organonitrogen compound 0.008125 Informative Inherited
Biological Process (BP) regulation of growth 0.01698 Informative Inherited
Biological Process (BP) regulation of hormone levels 0.002299 Informative Inherited
Biological Process (BP) regulation of defense response 0.03485 Informative Inherited
Biological Process (BP) anion transport 0.001048 Informative Inherited
Biological Process (BP) epithelium development 0.2909 Informative Inherited
Biological Process (BP) response to hormone stimulus 0.8309 Informative Inherited
Biological Process (BP) secondary metabolic process 0.001499 Informative Inherited
Biological Process (BP) defense response 0.06529 Informative Inherited
Biological Process (BP) immune effector process 0.09252 Informative Inherited
Biological Process (BP) transition metal ion transport 0.00001116 Highly Informative Direct
Biological Process (BP) icosanoid metabolic process 0 Highly Informative Direct
Biological Process (BP) regulation of blood pressure 0 Highly Informative Direct
Biological Process (BP) response to fungus 0.0002367 Highly Informative Direct
Biological Process (BP) response to salt stress 0.0001892 Highly Informative Direct
Biological Process (BP) phenylpropanoid metabolic process 0.0000003931 Highly Informative Direct
Biological Process (BP) response to cytokinin stimulus 0.000001305 Highly Informative Direct
Biological Process (BP) epidermal cell differentiation 0.000005422 Highly Informative Direct
Biological Process (BP) response to purine-containing compound 0.00000000006088 Highly Informative Direct
Biological Process (BP) inorganic anion transport 0.00001822 Highly Informative Direct
Biological Process (BP) phenol-containing compound metabolic process 0.000003822 Highly Informative Direct
Biological Process (BP) cytokine-mediated signaling pathway 0.0000000000002146 Highly Informative Direct
Biological Process (BP) positive regulation of defense response 0.0007 Highly Informative Direct
Biological Process (BP) unsaturated fatty acid metabolic process 0.000000000264 Highly Informative Direct
Biological Process (BP) cellular response to reactive oxygen species 0.000000000004938 Highly Informative Direct
Biological Process (BP) response to hydrogen peroxide 0.00005113 Highly Informative Direct
Biological Process (BP) fatty acid derivative biosynthetic process 0 Highly Informative Direct
Biological Process (BP) regulation of multi-organism process 0.007461 Highly Informative Inherited
Biological Process (BP) hydrogen peroxide metabolic process 0.005426 Highly Informative Inherited
Biological Process (BP) cellular response to starvation 0.052 Highly Informative Inherited
Molecular Function (MF) binding 1 Least Informative Inherited
Molecular Function (MF) oxidoreductase activity 0 Moderately Informative Direct
Molecular Function (MF) tetrapyrrole binding 0 Informative Direct
Molecular Function (MF) antioxidant activity 0 Highly Informative Direct
Molecular Function (MF) oxidoreductase activity, acting on peroxide as acceptor 0 Highly Informative Direct
Molecular Function (MF) heme binding 0 Highly Informative Direct
Molecular Function (MF) oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxyge 0.1287 Highly Informative Inherited
Cellular Component (CC) intracellular organelle part 1 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0.7124 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 0.2729 Least Informative Inherited
Cellular Component (CC) external encapsulating structure 0.000000000000001589 Informative Direct
Cellular Component (CC) plastid 0.01683 Informative Inherited
Cellular Component (CC) cell junction 0.1119 Informative Inherited
Cellular Component (CC) symplast 0.00006637 Highly Informative Direct

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Oxidoreductases0Least InformativeDirect
Enzyme Commission (EC)Acting on NADH or NADPH1Moderately InformativeInherited
Enzyme Commission (EC)Acting on paired donors, with incorporation or red1Moderately InformativeInherited
Enzyme Commission (EC)Miscellaneous (requires further characterization)0InformativeDirect
Enzyme Commission (EC)Peroxidases0.1679InformativeInherited
Enzyme Commission (EC)With a oxygen as acceptor0Highly InformativeDirect
Enzyme Commission (EC)Peroxidase0.000000000000001867Highly InformativeDirect

Document: EC annotation of SCOP domains

Disease Ontology (DO)

(show details)
DO termFDR (all)SDDO levelAnnotation (direct or inherited)
Disease Ontology (DO)obstructive lung disease0.00004915Moderately InformativeDirect
Disease Ontology (DO)endocrine system disease0.0003049Moderately InformativeDirect
Disease Ontology (DO)benign neoplasm0.001411Moderately InformativeInherited
Disease Ontology (DO)genetic disease0.03832Moderately InformativeInherited
Disease Ontology (DO)urinary system disease0.04417Moderately InformativeInherited
Disease Ontology (DO)bacterial infectious disease0.05895Moderately InformativeInherited
Disease Ontology (DO)primary bacterial infectious disease0.0008687InformativeDirect
Disease Ontology (DO)cell type benign neoplasm0.0008838InformativeDirect
Disease Ontology (DO)autosomal recessive disease0.003294InformativeInherited
Disease Ontology (DO)stomach disease0.00001775Highly InformativeDirect
Disease Ontology (DO)cystic fibrosis0.0001786Highly InformativeDirect

Document: DO annotation of SCOP domains

Human Phenotype (HP)

(show details) Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)abnormal homeostasis0.5887Least InformativeInherited
Mammalian Phenotype (MP)abnormal hormone level0.003691Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal pituitary hormone level0.02206InformativeInherited
Mammalian Phenotype (MP)increased circulating pituitary hormone level0.00004285Highly InformativeDirect
Mammalian Phenotype (MP)increased physiological sensitivity to xenobiotic0.0007712Highly InformativeDirect

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)growth variant0Least InformativeDirect
Worm Phenotype (WP)larval development variant0Least InformativeDirect
Worm Phenotype (WP)larval lethal0Moderately InformativeDirect
Worm Phenotype (WP)molt variant0.0006612Highly InformativeDirect

Document: WP annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)root system0.1433Least InformativeInherited
Plant ANatomical entity (PAN)root epidermis0.004184InformativeInherited
Plant ANatomical entity (PAN)root hair cell0.0003844Highly InformativeDirect

Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Oxidoreductases0Least InformativeDirect
Enzyme Commission (EC)Isomerases1Moderately InformativeInherited
Enzyme Commission (EC)Acting on a peroxide as acceptor0InformativeDirect
Enzyme Commission (EC)Acting on single donors with incorporation of molecular oxygen1InformativeInherited
Enzyme Commission (EC)Acting on paired donors, with incorporation or reduction of molecular oxygen1InformativeInherited
Enzyme Commission (EC)Acting on NADH or NADPH1InformativeInherited
Enzyme Commission (EC)Intramolecular transferases (mutases)1InformativeInherited
Enzyme Commission (EC)Miscellaneous (requires further characterization)0Highly InformativeDirect
Enzyme Commission (EC)With a oxygen as acceptor0Highly InformativeDirect
Enzyme Commission (EC)Transferring hydroxy groups0.00000002275Highly InformativeDirect
Enzyme Commission (EC)With incorporation of two atoms of oxygen0.01233Highly InformativeInherited
Enzyme Commission (EC)Peroxidases0.1717Highly InformativeInherited

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processLipid metabolism0.5678Moderately InformativeInherited
Biological processFatty acid metabolism0.0000002677InformativeDirect
Biological processBiological rhythms0.0008947InformativeDirect
Biological processLipid biosynthesis0.002619InformativeInherited
Biological processProstaglandin biosynthesis0Highly InformativeDirect
Cellular componentSecreted0Moderately InformativeDirect
Cellular componentEndoplasmic reticulum0.0005397Moderately InformativeDirect
Cellular componentVacuole0.00000000000121InformativeDirect
Cellular componentMicrosome0.000000000000001914Highly InformativeDirect
DomainSignal0Least InformativeDirect
DomainEGF-like domain0.000006488InformativeDirect
DomainSushi0.00009889Highly InformativeDirect
Molecular functionMetal-binding0Least InformativeDirect
Molecular functionCalcium0Moderately InformativeDirect
Molecular functionIron0Moderately InformativeDirect
Molecular functionHeme0InformativeDirect
Molecular functionPotassium0.00002917InformativeDirect
Post-translational modificationOxidoreductase0Moderately InformativeDirect
Post-translational modificationPeroxidase0Highly InformativeDirect
Post-translational modificationGlycoprotein0Least InformativeDirect
Post-translational modificationDisulfide bond0Least InformativeDirect
Post-translational modificationPyrrolidone carboxylic acid0InformativeDirect
Post-translational modificationS-nitrosylation0.0000002129InformativeDirect

Document: KW annotation of SCOP domains

UniProtKB UniPathway (UP)

(show details)
UP termFDR (all)SDUP levelAnnotation (direct or inherited)
UniPathway (UP)lipid metabolism0.00000006095Least InformativeDirect
UniPathway (UP)aromatic compound metabolism0.04791Least InformativeInherited
UniPathway (UP)fatty acid metabolism0Moderately InformativeDirect
UniPathway (UP)secondary metabolite metabolism0.0000000000002732Moderately InformativeDirect
UniPathway (UP)lipid biosynthesis0.0000000006875Moderately InformativeDirect
UniPathway (UP)fatty acid biosynthesis0InformativeDirect
UniPathway (UP)hormone biosynthesis0InformativeDirect
UniPathway (UP)thyroid hormone biosynthesis0Highly InformativeDirect
UniPathway (UP)prostaglandin biosynthesis0Highly InformativeDirect

Document: UP annotation of SCOP domains

InterPro annotation
Cross references IPR010255 SSF48113 Protein matches
Abstract Peroxidases are haem-containing enzymes that use hydrogen peroxide as the electron acceptor to catalyse a number of oxidative reactions. Most haem peroxidases follow the reaction scheme: Fe3+ + H2O2 --> [Fe4+=O]R' (Compound I) + H2O [Fe4+=O]R' + substrate --> [Fe4+=O]R (Compound II) + oxidised substrate [Fe4+=O]R + substrate --> Fe3+ + H2O + oxidised substrate

In this mechanism, the enzyme reacts with one equivalent of H2O2 to give [Fe4+=O]R' (compound I). This is a two-electron oxidation/reduction reaction where H2O2 is reduced to water and the enzyme is oxidised. One oxidising equivalent resides on iron, giving the oxyferryl [PubMed8062820] intermediate, while in many peroxidases the porphyrin (R) is oxidised to the porphyrin pi-cation radical (R'). Compound I then oxidises an organic substrate to give a substrate radical [PubMed7922023].

Haem peroxidases include two superfamilies: one found in bacteria, fungi, plants and the second found in animals. The animal peroxidases comprise a group of homologous proteins that differ markedly from the plant/fungal/bacterial peroxidases in primary, secondary and tertiary structure, but which share with them a common function. Animal peroxidases probably arose independently of the plant/fungal/bacterial peroxidase superfamily and most likely belong to a different gene family. The crystal structures of a number of these proteins show that the active sites of animal peroxidase and plant/fungal/bacterial peroxidases are remarkably similar [PubMed10403190].


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) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) ]

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 27 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 Heme-dependent peroxidases 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 27 hidden Markov models representing the Heme-dependent peroxidases 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) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) · Internal database links ]