2PCB

CRYSTAL STRUCTURE OF A COMPLEX BETWEEN ELECTRON TRANSFER PARTNERS, CYTOCHROME C PEROXIDASE AND CYTOCHROME C

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
C	d2pcbc_	All alpha proteins	Heme-dependent peroxidases	Heme-dependent peroxidases	CCP-like	Cytochrome c peroxidase, CCP	baker's yeast (Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)
A	d2pcba_	All alpha proteins	Heme-dependent peroxidases	Heme-dependent peroxidases	CCP-like	Cytochrome c peroxidase, CCP	baker's yeast (Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)
B	d2pcbb_	All alpha proteins	Cytochrome c	Cytochrome c	monodomain cytochrome c	Mitochondrial cytochrome c	horse (Equus caballus ) [TaxId: 9796 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
C	SCOP2B Superfamily	Heme-dependent peroxidases	8035554	3000844	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Heme-dependent peroxidases	8035554	3000844	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Cytochrome c	8036431	3000815	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
C	peroxidase	e2pcbC1	A: alpha complex topology	X: Heme-dependent peroxidases (From Topology)	H: Heme-dependent peroxidases (From Topology)	T: Heme-dependent peroxidases	F: peroxidase	ECOD (1.6)
A	peroxidase	e2pcbA1	A: alpha complex topology	X: Heme-dependent peroxidases (From Topology)	H: Heme-dependent peroxidases (From Topology)	T: Heme-dependent peroxidases	F: peroxidase	ECOD (1.6)
B	Cytochrom_C_1	e2pcbB1	A: alpha arrays	X: Cytochrome c-like	H: Cytochrome c (From Topology)	T: Cytochrome c	F: Cytochrom_C_1	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
C	1.10.520.10	Mainly Alpha	Orthogonal Bundle	Peroxidase	domain 1	CATH (4.3.0)
C	1.10.420.10	Mainly Alpha	Orthogonal Bundle	Peroxidase	domain 2	CATH (4.3.0)
A	1.10.520.10	Mainly Alpha	Orthogonal Bundle	Peroxidase	domain 1	CATH (4.3.0)
A	1.10.420.10	Mainly Alpha	Orthogonal Bundle	Peroxidase	domain 2	CATH (4.3.0)
B	1.10.760.10	Mainly Alpha	Orthogonal Bundle	Cytochrome Bc1 Complex	Chain D, domain 2	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, C	PF00141	Peroxidase (peroxidase)	Peroxidase	-	Domain
B	PF00034	Cytochrome c (Cytochrom_C)	Cytochrome c	The Pfam entry does not include all Prosite members. The cytochrome 556 and cytochrome c' families are not included. All these are now in a new clan together. The C-terminus of DUF989, Pfam:PF06181, has now been merged into this family.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, C	CYTOCHROME C PEROXIDASE (CCP)	peroxidase activity oxidoreductase activity antioxidant activity oxidoreductase activity, acting on peroxide as acceptor catalytic activity binding organic cyclic compound binding tetrapyrrole binding heme binding cytochrome-c peroxidase activity cation binding ion binding metal ion binding small molecule binding	catabolic process hydrogen peroxide metabolic process reactive oxygen species metabolic process metabolic process cellular process hydrogen peroxide catabolic process response to oxidative stress response to stimulus response to stress response to chemical response to oxygen-containing compound response to reactive oxygen species cellular response to stimulus cellular response to chemical stimulus catabolic process hydrogen peroxide metabolic process reactive oxygen species metabolic process metabolic process cellular process hydrogen peroxide catabolic process response to oxidative stress response to stimulus response to stress response to chemical response to oxygen-containing compound response to reactive oxygen species cellular response to stimulus cellular response to chemical stimulus cellular response to stress cellular response to oxidative stress cellular response to chemical stress	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle membrane-enclosed lumen mitochondrial matrix intracellular organelle lumen organelle lumen mitochondrial intermembrane space organelle envelope lumen membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle membrane-enclosed lumen mitochondrial matrix intracellular organelle lumen organelle lumen mitochondrial intermembrane space organelle envelope lumen organelle envelope mitochondrial envelope
B	CYTOCHROME C	binding lipid binding organic cyclic compound binding tetrapyrrole binding heme binding electron transfer activity cation binding ion binding metal ion binding small molecule binding identical protein binding protein binding	aerobic respiration cellular respiration aerobic electron transport chain oxidative phosphorylation energy derivation by oxidation of organic compounds ATP synthesis coupled electron transport electron transport chain generation of precursor metabolites and energy mitochondrial electron transport, cytochrome c to oxygen respiratory electron transport chain metabolic process cellular process mitochondrial ATP synthesis coupled electron transport mitochondrial electron transport, ubiquinol to cytochrome c aerobic respiration cellular respiration aerobic electron transport chain oxidative phosphorylation energy derivation by oxidation of organic compounds ATP synthesis coupled electron transport electron transport chain generation of precursor metabolites and energy mitochondrial electron transport, cytochrome c to oxygen respiratory electron transport chain metabolic process cellular process mitochondrial ATP synthesis coupled electron transport mitochondrial electron transport, ubiquinol to cytochrome c regulation of cellular process regulation of catalytic activity positive regulation of protein metabolic process positive regulation of peptidase activity positive regulation of biological process regulation of primary metabolic process positive regulation of molecular function positive regulation of metabolic process regulation of proteolysis proteolysis regulation of endopeptidase activity positive regulation of macromolecule metabolic process protein metabolic process positive regulation of cellular process regulation of cysteine-type endopeptidase activity regulation of biological process regulation of protein metabolic process regulation of peptidase activity biological regulation positive regulation of catalytic activity primary metabolic process regulation of macromolecule metabolic process regulation of molecular function positive regulation of hydrolase activity positive regulation of cysteine-type endopeptidase activity regulation of hydrolase activity positive regulation of endopeptidase activity positive regulation of proteolysis macromolecule metabolic process regulation of metabolic process apoptotic process cell death programmed cell death positive regulation of programmed cell death regulation of apoptotic process regulation of programmed cell death positive regulation of apoptotic process cytochrome complex assembly protein-tetrapyrrole linkage protein-containing complex organization cytochrome c-heme linkage cellular component organization cellular component biogenesis cellular component assembly macromolecule modification protein-heme linkage protein-containing complex assembly cellular component organization or biogenesis protein modification process	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle mitochondrial intermembrane space mitochondrion membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen organelle envelope lumen intracellular organelle organelle envelope organelle lumen cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle mitochondrial intermembrane space mitochondrion membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen organelle envelope lumen intracellular organelle organelle envelope organelle lumen organelle mitochondrial envelope protein-containing complex cytochrome complex catalytic complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, C	IPR002016	Haem peroxidase	Domain
A, C	IPR019794	Peroxidase, active site	Active Site
A, C	IPR010255	Haem peroxidase superfamily	Homologous Superfamily
A, C	IPR002207	Class I peroxidase	Family
A, C	IPR044831	Heme-binding peroxidase Ccp1-like	Family
A, C	IPR019793	Peroxidases heam-ligand binding site	Binding Site
B	IPR036909	Cytochrome c-like domain superfamily	Homologous Superfamily
B	IPR009056	Cytochrome c-like domain	Domain
B	IPR002327	Cytochrome c, class IA/ IB	Family

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.