7QHM | pdb_00007qhm

Cytochrome bcc-aa3 supercomplex (respiratory supercomplex III2/IV2) from Corynebacterium glutamicum (stigmatellin and azide bound)

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
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: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
S	SCOP2B Superfamily	Cytochrome c oxidase subunit III-like	8106635	3000671	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Cytochrome c oxidase subunit III-like	8106635	3000671	SCOP2B (2022-06-29)
Q	SCOP2B Superfamily	Cytochrome c oxidase subunit I-like	8106587	3000653	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Cytochrome c oxidase subunit I-like	8106587	3000653	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)
U	tRNA-synt_2d	e7qhmU1	A: alpha bundles	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: tRNA-synt_2d	ECOD (develop294)
H	tRNA-synt_2d	e7qhmH1	A: alpha bundles	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: tRNA-synt_2d	ECOD (develop294)
S	tRNA-synt_2d	e7qhmS1	A: alpha bundles	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: tRNA-synt_2d	ECOD (develop294)
F	tRNA-synt_2d	e7qhmF1	A: alpha bundles	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: tRNA-synt_2d	ECOD (develop294)
R	tRNA-synt_2d	e7qhmR1	A: alpha bundles	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: tRNA-synt_2d	ECOD (develop294)
E	tRNA-synt_2d	e7qhmE1	A: alpha bundles	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: tRNA-synt_2d	ECOD (develop294)
Q	tRNA-synt_2d	e7qhmQ1	A: alpha bundles	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: tRNA-synt_2d	ECOD (develop294)
D	tRNA-synt_2d	e7qhmD1	A: alpha bundles	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: tRNA-synt_2d	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
S	1.20.120.80	Mainly Alpha	Up-down Bundle	Four Helix Bundle (Hemerythrin (Met), subunit A)	Cytochrome c oxidase, subunit III, four-helix bundle	CATH (utative)
F	1.20.120.80	Mainly Alpha	Up-down Bundle	Four Helix Bundle (Hemerythrin (Met), subunit A)	Cytochrome c oxidase, subunit III, four-helix bundle	CATH (utative)
R	1.10.287.90	Mainly Alpha	Orthogonal Bundle	Helix Hairpins		CATH (utative)
R	2.60.40.420	Mainly Beta	Sandwich	Immunoglobulin-like	Cupredoxins - blue copper proteins	CATH (utative)
E	1.10.287.90	Mainly Alpha	Orthogonal Bundle	Helix Hairpins		CATH (utative)
E	2.60.40.420	Mainly Beta	Sandwich	Immunoglobulin-like	Cupredoxins - blue copper proteins	CATH (utative)
Q	1.20.210.10	Mainly Alpha	Up-down Bundle	Cytochrome C Oxidase	Chain A	CATH (utative)
D	1.20.210.10	Mainly Alpha	Up-down Bundle	Cytochrome C Oxidase	Chain A	CATH (utative)
O	1.20.810.10	Mainly Alpha	Up-down Bundle	Cytochrome Bc1 Complex	Chain C	CATH (utative)
B	1.20.810.10	Mainly Alpha	Up-down Bundle	Cytochrome Bc1 Complex	Chain C	CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
I, V	PF10939	Protein of unknown function (DUF2631) (DUF2631)	Protein of unknown function (DUF2631)	-	Family
G, T	PF12270	Cytochrome c oxidase subunit IV (Cyt_c_ox_IV)	Cytochrome c oxidase subunit IV	-	Family
F, S	PF00510	Cytochrome c oxidase subunit III (COX3)	Cytochrome c oxidase subunit III		Domain
E, R	PF00116	Cytochrome C oxidase subunit II, periplasmic domain (COX2)	Cytochrome C oxidase subunit II, periplasmic domain		Domain
D, Q	PF00115	Cytochrome C and Quinol oxidase polypeptide I (COX1)	Cytochrome C and Quinol oxidase polypeptide I	-	Family
C, P	PF13442	Cytochrome C oxidase, cbb3-type, subunit III (Cytochrome_CBB3)	Cytochrome C oxidase, cbb3-type, subunit III		Domain
C, P	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
B, O	PF13631	Cytochrome b(N-terminal)/b6/petB (Cytochrom_B_N_2)	Cytochrome b(N-terminal)/b6/petB		Domain
A, N	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

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
I, V	Uncharacterized membrane protein Cgl2017/cg2211	-	-	cell periphery cellular anatomical structure plasma membrane membrane
H, U	Uncharacterized protein Cgl2664/cg2949	-	-	-
G, T	Cytochrome c oxidase polypeptide 4	monoatomic cation transmembrane transporter activity proton transmembrane transporter activity primary active transmembrane transporter activity cytochrome-c oxidase activity electron transfer activity active monoatomic ion transmembrane transporter activity oxidoreduction-driven active transmembrane transporter activity active transmembrane transporter activity monoatomic ion transmembrane transporter activity transporter activity transmembrane transporter activity	electron transport chain metabolic process cellular process generation of precursor metabolites and energy	cell periphery cellular anatomical structure plasma membrane membrane
F, S	Cytochrome c oxidase subunit 3	monoatomic cation transmembrane transporter activity proton transmembrane transporter activity primary active transmembrane transporter activity cytochrome-c oxidase activity electron transfer activity active monoatomic ion transmembrane transporter activity oxidoreduction-driven active transmembrane transporter activity active transmembrane transporter activity monoatomic ion transmembrane transporter activity transporter activity transmembrane transporter activity	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
E, R	Cytochrome c oxidase subunit 2	cation binding transition metal ion binding copper ion binding ion binding binding metal ion binding small molecule binding monoatomic cation transmembrane transporter activity proton transmembrane transporter activity primary active transmembrane transporter activity cytochrome-c oxidase activity electron transfer activity active monoatomic ion transmembrane transporter activity oxidoreduction-driven active transmembrane transporter activity cation binding transition metal ion binding copper ion binding ion binding binding metal ion binding small molecule binding monoatomic cation transmembrane transporter activity proton transmembrane transporter activity primary active transmembrane transporter activity cytochrome-c oxidase activity electron transfer activity active monoatomic ion transmembrane transporter activity oxidoreduction-driven active transmembrane transporter activity active transmembrane transporter activity monoatomic ion transmembrane transporter activity transporter activity transmembrane transporter activity	aerobic respiration cellular respiration oxidative phosphorylation energy derivation by oxidation of organic compounds respiratory electron transport chain ATP synthesis coupled electron transport electron transport chain metabolic process cellular process generation of precursor metabolites and energy	cell periphery cellular anatomical structure plasma membrane membrane
D, Q	Cytochrome c oxidase subunit 1	monoatomic cation transmembrane transporter activity proton transmembrane transporter activity primary active transmembrane transporter activity cytochrome-c oxidase activity electron transfer activity active monoatomic ion transmembrane transporter activity oxidoreduction-driven active transmembrane transporter activity active transmembrane transporter activity monoatomic ion transmembrane transporter activity transporter activity transmembrane transporter activity binding tetrapyrrole binding heme binding monoatomic cation transmembrane transporter activity proton transmembrane transporter activity primary active transmembrane transporter activity cytochrome-c oxidase activity electron transfer activity active monoatomic ion transmembrane transporter activity oxidoreduction-driven active transmembrane transporter activity active transmembrane transporter activity monoatomic ion transmembrane transporter activity transporter activity transmembrane transporter activity binding tetrapyrrole binding heme binding cation binding ion binding metal ion binding small molecule binding	electron transport coupled proton transport transport proton transmembrane transport monoatomic ion transmembrane transport establishment of localization monoatomic cation transmembrane transport transmembrane transport localization energy coupled proton transmembrane transport, against electrochemical gradient monoatomic ion transport cellular process monoatomic cation transport cellular respiration energy derivation by oxidation of organic compounds electron transport coupled proton transport transport proton transmembrane transport monoatomic ion transmembrane transport establishment of localization monoatomic cation transmembrane transport transmembrane transport localization energy coupled proton transmembrane transport, against electrochemical gradient monoatomic ion transport cellular process monoatomic cation transport cellular respiration energy derivation by oxidation of organic compounds respiratory electron transport chain electron transport chain metabolic process generation of precursor metabolites and energy aerobic respiration oxidative phosphorylation	cell periphery cellular anatomical structure plasma membrane membrane
C, P	Cytochrome bc1 complex cytochrome c subunit	monoatomic cation transmembrane transporter activity proton transmembrane transporter activity primary active transmembrane transporter activity electron transfer activity active monoatomic ion transmembrane transporter activity oxidoreduction-driven active transmembrane transporter activity active transmembrane transporter activity quinol-cytochrome-c reductase activity monoatomic ion transmembrane transporter activity transporter activity transmembrane transporter activity binding tetrapyrrole binding heme binding monoatomic cation transmembrane transporter activity proton transmembrane transporter activity primary active transmembrane transporter activity electron transfer activity active monoatomic ion transmembrane transporter activity oxidoreduction-driven active transmembrane transporter activity active transmembrane transporter activity quinol-cytochrome-c reductase activity monoatomic ion transmembrane transporter activity transporter activity transmembrane transporter activity binding tetrapyrrole binding heme binding cation binding transition metal ion binding iron ion binding ion binding metal ion binding small molecule binding	-	cell periphery cellular anatomical structure plasma membrane membrane
B, O	Cytochrome bc1 complex cytochrome b subunit	oxidoreductase activity catalytic activity monoatomic cation transmembrane transporter activity proton transmembrane transporter activity primary active transmembrane transporter activity electron transfer activity active monoatomic ion transmembrane transporter activity oxidoreduction-driven active transmembrane transporter activity active transmembrane transporter activity quinol-cytochrome-c reductase activity monoatomic ion transmembrane transporter activity transporter activity transmembrane transporter activity cation binding oxidoreductase activity catalytic activity monoatomic cation transmembrane transporter activity proton transmembrane transporter activity primary active transmembrane transporter activity electron transfer activity active monoatomic ion transmembrane transporter activity oxidoreduction-driven active transmembrane transporter activity active transmembrane transporter activity quinol-cytochrome-c reductase activity monoatomic ion transmembrane transporter activity transporter activity transmembrane transporter activity cation binding ion binding binding metal ion binding small molecule binding	cellular respiration 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
M, Z	Thiamine biosynthesis protein X	-	pyrimidine-containing compound metabolic process water-soluble vitamin biosynthetic process small molecule biosynthetic process thiamine-containing compound metabolic process vitamin biosynthetic process alcohol metabolic process thiamine metabolic process vitamin metabolic process sulfur compound biosynthetic process thiamine biosynthetic process biosynthetic process alcohol biosynthetic process sulfur compound metabolic process metabolic process pyrimidine-containing compound metabolic process water-soluble vitamin biosynthetic process small molecule biosynthetic process thiamine-containing compound metabolic process vitamin biosynthetic process alcohol metabolic process thiamine metabolic process vitamin metabolic process sulfur compound biosynthetic process thiamine biosynthetic process biosynthetic process alcohol biosynthetic process sulfur compound metabolic process metabolic process cellular process small molecule metabolic process pyrimidine-containing compound biosynthetic process primary alcohol biosynthetic process thiamine-containing compound biosynthetic process primary alcohol metabolic process	cell periphery cellular anatomical structure plasma membrane membrane
L, Y	Hypothetical membrane protein	-	-	-
K, X	Actinobacterial supercomplex, subunit C (AscC)	-	-	-
J, W	Hypothetical membrane protein	-	-	-
A, N	Cytochrome bc1 complex Rieske iron-sulfur subunit	monooxygenase activity oxidoreductase activity catalytic activity oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen iron-sulfur cluster binding 2 iron, 2 sulfur cluster binding binding metal cluster binding small molecule binding cation binding ion binding metal ion binding	-	cell periphery cellular anatomical structure plasma membrane membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
I, V	IPR024341	Protein of unknown function DUF2631	Family
G, T	IPR021050	Cytochrome c oxidase subunit IV, actinobacteria	Family
F, S	IPR035973	Cytochrome c oxidase subunit III-like superfamily	Homologous Superfamily
F, S	IPR013833	Cytochrome c oxidase, subunit III, 4-helical bundle	Homologous Superfamily
F, S	IPR000298	Cytochrome c oxidase subunit III-like	Domain
F, S	IPR024791	Cytochrome c oxidase subunit III	Family
E, R	IPR002429	Cytochrome c oxidase subunit II-like C-terminal	Domain
E, R	IPR011759	Cytochrome C oxidase subunit II, transmembrane domain	Domain
E, R	IPR036257	Cytochrome C oxidase subunit II, transmembrane domain superfamily	Homologous Superfamily
E, R	IPR008972	Cupredoxin	Homologous Superfamily
E, R	IPR001505	Copper centre Cu(A)	Binding Site
E, R	IPR045187	Cytochrome c/quinol oxidase subunit II	Family
D, Q	IPR036927	Cytochrome c oxidase-like, subunit I superfamily	Homologous Superfamily
D, Q	IPR000883	Cytochrome c oxidase subunit I	Family
D, Q	IPR023615	Cytochrome c oxidase, subunit I, copper-binding site	Binding Site
D, Q	IPR023616	Cytochrome c oxidase-like, subunit I domain	Domain
D, Q	IPR014241	Cytochrome c oxidase, subunit I bacterial type	Family
C, P	IPR009152	Cytochrome bc1 complex, cytochrome c subunit	Family
C, P	IPR036909	Cytochrome c-like domain superfamily	Homologous Superfamily
C, P	IPR050597	Cytochrome c Oxidase Subunit	Family
C, P	IPR009056	Cytochrome c-like domain	Domain
B, O	IPR027387	Cytochrome b/b6-like domain superfamily	Homologous Superfamily
B, O	IPR016174	Di-haem cytochrome, transmembrane	Homologous Superfamily
B, O	IPR005797	Cytochrome b/b6, N-terminal domain	Domain
M, Z	IPR027273	Neocarzinostatin-like superfamily	Homologous Superfamily
A, N	IPR017941	Rieske [2Fe-2S] iron-sulphur domain	Domain
A, N	IPR045603	QcrA subunit, N-terminal	Domain
A, N	IPR036922	Rieske [2Fe-2S] iron-sulphur domain superfamily	Homologous Superfamily
A, N	IPR014349	Rieske iron-sulphur protein	Family

Membrane Protein Annotation: OPM OPM Database Homepage

Chains	External Link	Type	Class	Superfamily	Family
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, L, M, N, O, P, Q, R, S, T, U, V, W, Y, Z	OPM	Transmembrane	Alpha-helical polytopic	Electron transport chain complex IV (cytochrome c oxidase)	Respiratory supercomplexes III-IV

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

Chains	External Link	Comment
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, L, M, N, O, P, Q, R, S, T, U, V, W, Y, Z	PDBTM	Annotated as membrane protein by PDBTM

Membrane Protein Annotation: MemProtMD MemProtMD Database Homepage

Chains	External Link	Comment
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, L, M, N, O, P, Q, R, S, T, U, V, W, Y, Z	MemProtMD	Annotated as membrane protein by MemProtMD

Membrane Protein Annotation: mpstruc mpstruc Database Homepage

Chains	Resource Link	Group	Subgroup	Protein
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, L, M, N, O, P, Q, R, S, T, U, V, W, Y, Z	mpstruc	TRANSMEMBRANE PROTEINS: ALPHA-HELICAL	Electron Transport Chain Supercomplexes (Respirasome)	III₂-IV₂ respiratory supercomplex, native