2DGE | pdb_00002dge

Crystal structure of oxidized cytochrome C6A from Arabidopsis thaliana

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)
A	d2dgea_	All alpha proteins	Cytochrome c	Cytochrome c	automated matches	automated matches	thale cress (Arabidopsis thaliana ) [TaxId: 3702 ],	SCOPe (2.08)
B	d2dgeb_	All alpha proteins	Cytochrome c	Cytochrome c	automated matches	automated matches	thale cress (Arabidopsis thaliana ) [TaxId: 3702 ],	SCOPe (2.08)
C	d2dgec_	All alpha proteins	Cytochrome c	Cytochrome c	automated matches	automated matches	thale cress (Arabidopsis thaliana ) [TaxId: 3702 ],	SCOPe (2.08)
D	d2dged_	All alpha proteins	Cytochrome c	Cytochrome c	automated matches	automated matches	thale cress (Arabidopsis thaliana ) [TaxId: 3702 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	Monodomain cytochrome c	8068556	4000635	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Cytochrome c	8068557	3000815	SCOP2 (2022-06-29)
B	SCOP2B Superfamily	Cytochrome c	8068557	3000815	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Cytochrome c	8068557	3000815	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Cytochrome c	8068557	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)
A	Cytochrome_CBB3	e2dgeA1	A: alpha arrays	X: Cytochrome c-like	H: Cytochrome c (From Topology)	T: Cytochrome c	F: Cytochrome_CBB3	ECOD (1.6)
B	Cytochrome_CBB3	e2dgeB1	A: alpha arrays	X: Cytochrome c-like	H: Cytochrome c (From Topology)	T: Cytochrome c	F: Cytochrome_CBB3	ECOD (1.6)
C	Cytochrome_CBB3	e2dgeC1	A: alpha arrays	X: Cytochrome c-like	H: Cytochrome c (From Topology)	T: Cytochrome c	F: Cytochrome_CBB3	ECOD (1.6)
D	Cytochrome_CBB3	e2dgeD1	A: alpha arrays	X: Cytochrome c-like	H: Cytochrome c (From Topology)	T: Cytochrome c	F: Cytochrome_CBB3	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	1.10.760.10	Mainly Alpha	Orthogonal Bundle	Cytochrome Bc1 Complex	Chain D, 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)
C	1.10.760.10	Mainly Alpha	Orthogonal Bundle	Cytochrome Bc1 Complex	Chain D, domain 2	CATH (4.3.0)
D	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, B, C, D	PF13442	Cytochrome C oxidase, cbb3-type, subunit III (Cytochrome_CBB3)	Cytochrome C oxidase, cbb3-type, subunit III		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	Cytochrome c6	binding tetrapyrrole binding heme binding electron transfer activity cation binding transition metal ion binding iron ion binding ion binding metal ion binding small molecule binding	photosynthesis metabolic process cellular process	membrane-bounded organelle intracellular anatomical structure plastid intracellular membraneless organelle intracellular membrane-bounded organelle plastid thylakoid plastid thylakoid lumen intracellular organelle chloroplast thylakoid lumen cellular anatomical structure organelle chloroplast thylakoid membraneless organelle cytoplasm membrane-bounded organelle intracellular anatomical structure plastid intracellular membraneless organelle intracellular membrane-bounded organelle plastid thylakoid plastid thylakoid lumen intracellular organelle chloroplast thylakoid lumen cellular anatomical structure organelle chloroplast thylakoid membraneless organelle cytoplasm thylakoid lumen thylakoid chloroplast

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR036909	Cytochrome c-like domain superfamily	Homologous Superfamily
A, B, C, D	IPR009056	Cytochrome c-like domain	Domain
A, B, C, D	IPR023655	Cytochrome c6	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.