5DOQ

The structure of bd oxidase from Geobacillus thermodenitrificans

External Resource: Annotation

Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Membrane Protein Annotation: OPM
Membrane Protein Annotation: PDBTM
Membrane Protein Annotation: MemProtMD
Membrane Protein Annotation: mpstruc

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	Cyt_bd_oxida_I_1st	e5doqA1	A: alpha bundles	X: Transmembrane heme-binding four-helical bundle (From Homology)	H: Transmembrane heme-binding four-helical bundle	T: Transmembrane di-heme cytochromes	F: Cyt_bd_oxida_I_1st	ECOD (1.6)
A	Cyt_bd_oxida_I_2nd	e5doqA2	A: alpha bundles	X: Transmembrane heme-binding four-helical bundle (From Homology)	H: Transmembrane heme-binding four-helical bundle	T: Transmembrane di-heme cytochromes	F: Cyt_bd_oxida_I_2nd	ECOD (1.6)
B	Cyt_bd_oxida_II_1st	e5doqB1	A: alpha bundles	X: Transmembrane heme-binding four-helical bundle (From Homology)	H: Transmembrane heme-binding four-helical bundle	T: Transmembrane di-heme cytochromes	F: Cyt_bd_oxida_II_1st	ECOD (1.6)
B	Cyt_bd_oxida_II_2nd	e5doqB2	A: alpha bundles	X: Transmembrane heme-binding four-helical bundle (From Homology)	H: Transmembrane heme-binding four-helical bundle	T: Transmembrane di-heme cytochromes	F: Cyt_bd_oxida_II_2nd	ECOD (1.6)
C	MRAP_like	e5doqC1	A: extended segments	X: Bd-type quinol oxidase transmembrane helix subunit (From Topology)	H: Bd-type quinol oxidase transmembrane helix subunit (From Topology)	T: Bd-type quinol oxidase transmembrane helix subunit	F: MRAP_like	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF01654	Cytochrome bd terminal oxidase subunit I (Cyt_bd_oxida_I)	Cytochrome bd terminal oxidase subunit I	-	Family
B	PF02322	Cytochrome bd terminal oxidase subunit II (Cyt_bd_oxida_II)	Cytochrome bd terminal oxidase subunit II	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Bd-type quinol oxidase subunit I	oxidoreductase activity, acting on diphenols and related substances as donors, oxygen as acceptor oxidoreductase activity oxidoreductase activity, acting on diphenols and related substances as donors catalytic activity binding tetrapyrrole binding heme binding electron transfer activity cation binding ion binding metal ion binding small molecule binding	aerobic electron transport chain aerobic respiration cellular respiration oxidative phosphorylation energy derivation by oxidation of organic compounds respiratory electron transport chain electron transport chain metabolic process cellular process generation of precursor metabolites and energy	cell periphery cellular anatomical structure plasma membrane membrane protein-containing complex cytochrome complex catalytic complex
B	Bd-type quinol oxidase subunit II	-	-	cell periphery cellular anatomical structure plasma membrane membrane
C	Putative membrane protein	-	-	cellular anatomical structure membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR002585	Cytochrome ubiquinol oxidase subunit 1	Family
B	IPR003317	Cytochrome ubiquinol oxidase subunit 2	Family
C	IPR054381	CydS-like	Family

Membrane Protein Annotation: OPM OPM Database Homepage

Chains	External Link	Type	Class	Superfamily	Family
A, B, C	OPM	Transmembrane	Alpha-helical polytopic	Electron transport chain complex IV (cytochrome c oxidase)	Cytochrome BD oxidase

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

Chains	External Link	Comment
A, B, C	PDBTM	Annotated as membrane protein by PDBTM

Membrane Protein Annotation: MemProtMD MemProtMD Database Homepage

Chains	External Link	Comment
A, B, C	MemProtMD	Annotated as membrane protein by MemProtMD

Membrane Protein Annotation: mpstruc mpstruc Database Homepage

Chains	Resource Link	Group	Subgroup	Protein
A, B, C	mpstruc	TRANSMEMBRANE PROTEINS: ALPHA-HELICAL	Electron Transport Chain Complexes: Complex IV (Cytochrome C Oxidase)	Cytochrome bd-type oxidase (anisotropy corrected)

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.