8B6J

Cryo-EM structure of cytochrome bc1 complex (complex-III) from respiratory supercomplex of Tetrahymena thermophila

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

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
Q [auth f]	PF02320	e8b6jf1	A: alpha bundles	X: cytochrome bc1 complex 11 kDa protein-like	H: Non-heme 11 kDa protein of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) (From Topology)	T: Non-heme 11 kDa protein of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase)	F: PF02320	ECOD (1.6)
F	PF02320	e8b6jF1	A: alpha bundles	X: cytochrome bc1 complex 11 kDa protein-like	H: Non-heme 11 kDa protein of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) (From Topology)	T: Non-heme 11 kDa protein of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase)	F: PF02320	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, L [auth a]	PF05193	Peptidase M16 inactive domain (Peptidase_M16_C)	Peptidase M16 inactive domain	Peptidase M16 consists of two structurally related domains. One is the active peptidase, whereas the other is inactive. The two domains hold the substrate like a clamp [1].	Domain
A, L [auth a]	PF00675	Insulinase (Peptidase family M16) (Peptidase_M16)	Insulinase (Peptidase family M16)	-	Family
B, M [auth b]	PF05193	Peptidase M16 inactive domain (Peptidase_M16_C)	Peptidase M16 inactive domain	Peptidase M16 consists of two structurally related domains. One is the active peptidase, whereas the other is inactive. The two domains hold the substrate like a clamp [1].	Domain
C, N [auth c]	PF00033	Cytochrome b/b6/petB (Cytochrome_B)	Cytochrome b/b6/petB	-	Domain
D, O [auth d]	PF02167	Cytochrome C1 family (Cytochrom_C1)	Cytochrome C1 family	-	Family
E, P [auth e]	PF00355	Rieske [2Fe-2S] domain (Rieske)	Rieske [2Fe-2S] domain	The rieske domain has a [2Fe-2S] centre. Two conserved cysteines coordinate one Fe ion, while the other Fe ion is coordinated by two conserved histidines. In hyperthermophilic archaea there is a SKTPCX(2-3)C motif at the C-terminus. The cysteines in ...	The rieske domain has a [2Fe-2S] centre. Two conserved cysteines coordinate one Fe ion, while the other Fe ion is coordinated by two conserved histidines. In hyperthermophilic archaea there is a SKTPCX(2-3)C motif at the C-terminus. The cysteines in this motif form a disulphide bridge, which stabilises the protein [4].	Domain
F, Q [auth f]	PF02320	Ubiquinol-cytochrome C reductase hinge protein (UCR_hinge)	Ubiquinol-cytochrome C reductase hinge protein	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, L [auth a]	Peptidase M16 inactive domain protein	cation binding ion binding binding metal ion binding small molecule binding peptidase activity catalytic activity, acting on a protein metalloendopeptidase activity hydrolase activity metallopeptidase activity catalytic activity endopeptidase activity	protein localization establishment of protein localization cellular localization cellular biosynthetic process protein targeting protein processing involved in protein targeting to mitochondrion protein maturation localization proteolysis cellular macromolecule localization protein metabolic process organonitrogen compound metabolic process cellular metabolic process primary metabolic process protein localization establishment of protein localization cellular localization cellular biosynthetic process protein targeting protein processing involved in protein targeting to mitochondrion protein maturation localization proteolysis cellular macromolecule localization protein metabolic process organonitrogen compound metabolic process cellular metabolic process primary metabolic process gene expression establishment of localization macromolecule biosynthetic process establishment of protein localization to organelle mitochondrial protein processing biosynthetic process macromolecule localization protein localization to organelle protein localization to mitochondrion protein targeting to mitochondrion protein processing cellular process metabolic process macromolecule metabolic process establishment of protein localization to mitochondrion	membrane-bounded organelle intracellular organelle intracellular anatomical structure mitochondrion organelle cytoplasm cellular anatomical entity intracellular membrane-bounded organelle
J, U [auth j]	UQCRTT3/UP1	-	-	-
K, V [auth k]	Transmembrane protein, putative	-	-	membrane cellular anatomical entity
W [auth l], X [auth L]	UQCRTT2	-	-	-
B, M [auth b]	M16 family peptidase, putative	cation binding ion binding binding metal ion binding small molecule binding peptidase activity catalytic activity, acting on a protein metalloendopeptidase activity hydrolase activity metallopeptidase activity catalytic activity endopeptidase activity	protein localization establishment of protein localization cellular localization cellular biosynthetic process protein targeting protein processing involved in protein targeting to mitochondrion protein maturation localization proteolysis cellular macromolecule localization protein metabolic process organonitrogen compound metabolic process cellular metabolic process primary metabolic process protein localization establishment of protein localization cellular localization cellular biosynthetic process protein targeting protein processing involved in protein targeting to mitochondrion protein maturation localization proteolysis cellular macromolecule localization protein metabolic process organonitrogen compound metabolic process cellular metabolic process primary metabolic process gene expression establishment of localization macromolecule biosynthetic process establishment of protein localization to organelle mitochondrial protein processing biosynthetic process macromolecule localization protein localization to organelle protein localization to mitochondrion protein targeting to mitochondrion protein processing cellular process metabolic process macromolecule metabolic process establishment of protein localization to mitochondrion	membrane-bounded organelle intracellular organelle intracellular anatomical structure mitochondrion organelle cytoplasm cellular anatomical entity intracellular membrane-bounded organelle
C, N [auth c]	Apocytochrome b	monoatomic cation transmembrane transporter activity proton transmembrane transporter activity oxidoreductase activity, acting on diphenols and related substances as donors primary active transmembrane transporter activity oxidoreductase activity electron transfer activity active monoatomic ion transmembrane transporter activity oxidoreduction-driven active transmembrane transporter activity active transmembrane transporter activity inorganic molecular entity transmembrane transporter activity inorganic cation transmembrane transporter activity monoatomic ion transmembrane transporter activity transporter activity ubiquinol-cytochrome-c reductase activity catalytic activity monoatomic cation transmembrane transporter activity proton transmembrane transporter activity oxidoreductase activity, acting on diphenols and related substances as donors primary active transmembrane transporter activity oxidoreductase activity electron transfer activity active monoatomic ion transmembrane transporter activity oxidoreduction-driven active transmembrane transporter activity active transmembrane transporter activity inorganic molecular entity transmembrane transporter activity inorganic cation transmembrane transporter activity monoatomic ion transmembrane transporter activity transporter activity ubiquinol-cytochrome-c reductase activity catalytic activity transmembrane transporter activity	aerobic respiration cellular respiration aerobic electron transport chain oxidative phosphorylation energy derivation by oxidation of organic compounds cellular metabolic process ATP synthesis coupled electron transport electron transport chain generation of precursor metabolites and energy mitochondrial electron transport, ubiquinol to cytochrome c respiratory electron transport chain metabolic process cellular process mitochondrial ATP synthesis coupled electron transport	membrane-bounded organelle respiratory chain complex protein-containing complex mitochondrial respiratory chain complex III intracellular anatomical structure mitochondrial membrane organelle inner membrane mitochondrion cytochrome complex mitochondrial respirasome membrane protein complex transporter complex respiratory chain complex III intracellular organelle membrane-bounded organelle respiratory chain complex protein-containing complex mitochondrial respiratory chain complex III intracellular anatomical structure mitochondrial membrane organelle inner membrane mitochondrion cytochrome complex mitochondrial respirasome membrane protein complex transporter complex respiratory chain complex III intracellular organelle organelle envelope oxidoreductase complex mitochondrial protein-containing complex catalytic complex membrane cellular anatomical entity intracellular membrane-bounded organelle mitochondrial inner membrane inner mitochondrial membrane protein complex transmembrane transporter complex organelle mitochondrial envelope respirasome cytoplasm organelle membrane
D, O [auth d]	Cytochrome protein c1	binding organic cyclic compound binding tetrapyrrole binding heme binding electron transfer activity cation binding ion binding metal ion binding small molecule binding	aerobic respiration cellular respiration aerobic electron transport chain oxidative phosphorylation energy derivation by oxidation of organic compounds cellular metabolic process ATP synthesis coupled electron transport electron transport chain generation of precursor metabolites and energy mitochondrial electron transport, ubiquinol to cytochrome c respiratory electron transport chain metabolic process cellular process mitochondrial ATP synthesis coupled electron transport	membrane-bounded organelle respiratory chain complex protein-containing complex mitochondrial respiratory chain complex III intracellular anatomical structure mitochondrial membrane organelle inner membrane mitochondrion cytochrome complex mitochondrial respirasome membrane protein complex transporter complex respiratory chain complex III intracellular organelle membrane-bounded organelle respiratory chain complex protein-containing complex mitochondrial respiratory chain complex III intracellular anatomical structure mitochondrial membrane organelle inner membrane mitochondrion cytochrome complex mitochondrial respirasome membrane protein complex transporter complex respiratory chain complex III intracellular organelle organelle envelope oxidoreductase complex mitochondrial protein-containing complex catalytic complex membrane cellular anatomical entity intracellular membrane-bounded organelle mitochondrial inner membrane inner mitochondrial membrane protein complex transmembrane transporter complex organelle mitochondrial envelope respirasome cytoplasm organelle membrane
E, P [auth e]	Rieske iron-sulfur protein, ubiquinol-cytochrome C reductase iron-sulfur subunit	oxidoreductase activity catalytic activity iron-sulfur cluster binding 2 iron, 2 sulfur cluster binding binding metal cluster binding small molecule binding cation binding ion binding metal ion binding	aerobic respiration cellular respiration aerobic electron transport chain oxidative phosphorylation energy derivation by oxidation of organic compounds cellular metabolic process ATP synthesis coupled electron transport electron transport chain generation of precursor metabolites and energy mitochondrial electron transport, ubiquinol to cytochrome c respiratory electron transport chain metabolic process cellular process mitochondrial ATP synthesis coupled electron transport	cell periphery plasma membrane membrane cellular anatomical entity membrane-bounded organelle respiratory chain complex protein-containing complex mitochondrial respiratory chain complex III intracellular anatomical structure mitochondrial membrane organelle inner membrane mitochondrion cytochrome complex mitochondrial respirasome cell periphery plasma membrane membrane cellular anatomical entity membrane-bounded organelle respiratory chain complex protein-containing complex mitochondrial respiratory chain complex III intracellular anatomical structure mitochondrial membrane organelle inner membrane mitochondrion cytochrome complex mitochondrial respirasome membrane protein complex transporter complex respiratory chain complex III intracellular organelle organelle envelope oxidoreductase complex mitochondrial protein-containing complex catalytic complex intracellular membrane-bounded organelle mitochondrial inner membrane inner mitochondrial membrane protein complex transmembrane transporter complex organelle mitochondrial envelope respirasome cytoplasm organelle membrane
F, Q [auth f]	Ubiquinol-cytochrome C reductase hinge protein	-	-	membrane-bounded organelle mitochondrial membrane intracellular anatomical structure organelle inner membrane mitochondrion membrane cellular anatomical entity intracellular membrane-bounded organelle mitochondrial inner membrane intracellular organelle organelle envelope mitochondrial envelope organelle cytoplasm membrane-bounded organelle mitochondrial membrane intracellular anatomical structure organelle inner membrane mitochondrion membrane cellular anatomical entity intracellular membrane-bounded organelle mitochondrial inner membrane intracellular organelle organelle envelope mitochondrial envelope organelle cytoplasm organelle membrane protein-containing complex respirasome membrane protein complex
G, R [auth g]	UQCRTT1	-	-	-
H, S [auth h]	Transmembrane protein, putative	-	-	-
I, T [auth i]	Transmembrane protein, putative	-	-	membrane cellular anatomical entity

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, L [auth a]	IPR007863	Peptidase M16, C-terminal	Domain
A, L [auth a]	IPR011765	Peptidase M16, N-terminal	Domain
A, L [auth a]	IPR011249	Metalloenzyme, LuxS/M16 peptidase-like	Homologous Superfamily
B, M [auth b]	IPR007863	Peptidase M16, C-terminal	Domain
B, M [auth b]	IPR011249	Metalloenzyme, LuxS/M16 peptidase-like	Homologous Superfamily
C, N [auth c]	IPR036150	Cytochrome b/b6, C-terminal domain superfamily	Homologous Superfamily
C, N [auth c]	IPR027387	Cytochrome b/b6-like domain superfamily	Homologous Superfamily
C, N [auth c]	IPR016174	Di-haem cytochrome, transmembrane	Homologous Superfamily
C, N [auth c]	IPR005797	Cytochrome b/b6, N-terminal domain	Domain
D, O [auth d]	IPR036909	Cytochrome c-like domain superfamily	Homologous Superfamily
D, O [auth d]	IPR002326	Cytochrome c1	Family
E, P [auth e]	IPR017941	Rieske [2Fe-2S] iron-sulphur domain	Domain
E, P [auth e]	IPR005805	Rieske iron-sulphur protein, C-terminal	Domain
E, P [auth e]	IPR036922	Rieske [2Fe-2S] iron-sulphur domain superfamily	Homologous Superfamily
E, P [auth e]	IPR014349	Rieske iron-sulphur protein	Family
F, Q [auth f]	IPR023184	Ubiquinol-cytochrome C reductase hinge domain	Domain
F, Q [auth f]	IPR036811	Ubiquinol-cytochrome C reductase hinge domain superfamily	Homologous Superfamily

Membrane Protein Annotation: OPM OPM Database Homepage

Chains	External Link	Type	Class	Superfamily	Family
C, D, F, H, I C, D, F, H, I, K, N [auth c], O [auth d], Q [auth f], S [auth h], T [auth i], V [auth k]	OPM	Transmembrane	Alpha-helical polytopic	Electron transport chain complex III (bc1 and b6f) superfamily	Cytochrome bc1 and b6f complexes

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

Chains	External Link	Comment
C, D, F, H, I C, D, F, H, I, K, N [auth c], O [auth d], Q [auth f], S [auth h], T [auth i], V [auth k]	PDBTM	Annotated as membrane protein by PDBTM

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 R01GM133198.