7JGC | pdb_00007jgc

Cryo-EM structure of bedaquiline-saturated Mycobacterium smegmatis ATP synthase FO region

External Resource: Annotation

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: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
F [auth 3]	Pyr_redox_2	e7jgc31	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Pyr_redox_2	ECOD (develop294)
G [auth 4]	Pyr_redox_2	e7jgc41	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Pyr_redox_2	ECOD (develop294)
I [auth 6]	Pyr_redox_2	e7jgc61	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Pyr_redox_2	ECOD (develop294)
J [auth 7]	Pyr_redox_2	e7jgc71	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Pyr_redox_2	ECOD (develop294)
L [auth 9]	Pyr_redox_2	e7jgc91	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Pyr_redox_2	ECOD (develop294)
K [auth 8]	Pyr_redox_2	e7jgc81	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Pyr_redox_2	ECOD (develop294)
H [auth 5]	Pyr_redox_2	e7jgc51	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Pyr_redox_2	ECOD (develop294)
E [auth 2]	Pyr_redox_2	e7jgc21	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Pyr_redox_2	ECOD (develop294)
D [auth 1]	Pyr_redox_2	e7jgc11	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Pyr_redox_2	ECOD (develop294)
A [auth a]	Pyr_redox_2	e7jgca1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Pyr_redox_2	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
F [auth 3]	1.20.20.10	Mainly Alpha	Up-down Bundle	F1FO ATP Synthase	F1F0 ATP synthase subunit C	CATH (utative)
G [auth 4]	1.20.20.10	Mainly Alpha	Up-down Bundle	F1FO ATP Synthase	F1F0 ATP synthase subunit C	CATH (utative)
I [auth 6]	1.20.20.10	Mainly Alpha	Up-down Bundle	F1FO ATP Synthase	F1F0 ATP synthase subunit C	CATH (utative)
J [auth 7]	1.20.20.10	Mainly Alpha	Up-down Bundle	F1FO ATP Synthase	F1F0 ATP synthase subunit C	CATH (utative)
L [auth 9]	1.20.20.10	Mainly Alpha	Up-down Bundle	F1FO ATP Synthase	F1F0 ATP synthase subunit C	CATH (utative)
K [auth 8]	1.20.20.10	Mainly Alpha	Up-down Bundle	F1FO ATP Synthase	F1F0 ATP synthase subunit C	CATH (utative)
H [auth 5]	1.20.20.10	Mainly Alpha	Up-down Bundle	F1FO ATP Synthase	F1F0 ATP synthase subunit C	CATH (utative)
E [auth 2]	1.20.20.10	Mainly Alpha	Up-down Bundle	F1FO ATP Synthase	F1F0 ATP synthase subunit C	CATH (utative)
D [auth 1]	1.20.20.10	Mainly Alpha	Up-down Bundle	F1FO ATP Synthase	F1F0 ATP synthase subunit C	CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
D [auth 1], E [auth 2], F [auth 3], G [auth 4], H [auth 5], D [auth 1], E [auth 2], F [auth 3], G [auth 4], H [auth 5], I [auth 6], J [auth 7], K [auth 8], L [auth 9]	PF00137	ATP synthase subunit C (ATP-synt_C)	ATP synthase subunit C	This domain is found in the subunit c of ATP synthases and similar sequences from all cellular organisms. It forms two alpha-helices [1-4].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
D [auth 1], E [auth 2], F [auth 3], G [auth 4], H [auth 5], D [auth 1], E [auth 2], F [auth 3], G [auth 4], H [auth 5], I [auth 6], J [auth 7], K [auth 8], L [auth 9]	ATP synthase subunit c	hydrolase activity catalytic activity binding lipid binding monoatomic cation transmembrane transporter activity proton transmembrane transporter activity monoatomic ion channel activity proton channel activity proton-transporting ATP synthase activity, rotational mechanism monoatomic cation channel activity passive transmembrane transporter activity channel activity monoatomic ion transmembrane transporter activity transporter activity hydrolase activity catalytic activity binding lipid binding monoatomic cation transmembrane transporter activity proton transmembrane transporter activity monoatomic ion channel activity proton channel activity proton-transporting ATP synthase activity, rotational mechanism monoatomic cation channel activity passive transmembrane transporter activity channel activity monoatomic ion transmembrane transporter activity transporter activity transmembrane transporter activity ligase activity	-	cell periphery cellular anatomical structure plasma membrane membrane protein-containing complex proton-transporting two-sector ATPase complex membrane protein complex proton-transporting two-sector ATPase complex, proton-transporting domain respiratory chain complex catalytic complex proton-transporting ATP synthase complex cation channel complex transporter complex transmembrane transporter complex cell periphery cellular anatomical structure plasma membrane membrane protein-containing complex proton-transporting two-sector ATPase complex membrane protein complex proton-transporting two-sector ATPase complex, proton-transporting domain respiratory chain complex catalytic complex proton-transporting ATP synthase complex cation channel complex transporter complex transmembrane transporter complex monoatomic ion channel complex
C [auth d]	ATP synthase subunit b-delta	monoatomic cation transmembrane transporter activity proton transmembrane transporter activity monoatomic ion channel activity proton channel activity proton-transporting ATP synthase activity, rotational mechanism monoatomic cation channel activity passive transmembrane transporter activity channel activity monoatomic ion transmembrane transporter activity transporter activity transmembrane transporter activity catalytic activity ligase activity	-	cell periphery cellular anatomical structure plasma membrane membrane respiratory chain complex protein-containing complex catalytic complex proton-transporting ATP synthase complex membrane protein complex cation channel complex transporter complex proton-transporting two-sector ATPase complex transmembrane transporter complex monoatomic ion channel complex
B [auth b]	ATP synthase subunit b	monoatomic cation transmembrane transporter activity proton transmembrane transporter activity primary active transmembrane transporter activity ATPase-coupled transmembrane transporter activity proton-transporting ATPase activity, rotational mechanism ATPase-coupled monoatomic cation transmembrane transporter activity ATP-dependent activity active monoatomic ion transmembrane transporter activity ATPase-coupled ion transmembrane transporter activity active transmembrane transporter activity ATPase activity, coupled to transmembrane movement of ions, rotational mechanism monoatomic ion transmembrane transporter activity transporter activity transmembrane transporter activity monoatomic cation transmembrane transporter activity proton transmembrane transporter activity primary active transmembrane transporter activity ATPase-coupled transmembrane transporter activity proton-transporting ATPase activity, rotational mechanism ATPase-coupled monoatomic cation transmembrane transporter activity ATP-dependent activity active monoatomic ion transmembrane transporter activity ATPase-coupled ion transmembrane transporter activity active transmembrane transporter activity ATPase activity, coupled to transmembrane movement of ions, rotational mechanism monoatomic ion transmembrane transporter activity transporter activity transmembrane transporter activity monoatomic ion channel activity proton channel activity proton-transporting ATP synthase activity, rotational mechanism monoatomic cation channel activity passive transmembrane transporter activity channel activity catalytic activity ligase activity	-	cell periphery cellular anatomical structure plasma membrane membrane respiratory chain complex protein-containing complex catalytic complex proton-transporting ATP synthase complex membrane protein complex cation channel complex transporter complex proton-transporting two-sector ATPase complex transmembrane transporter complex monoatomic ion channel complex
A [auth a]	ATP synthase subunit a	hydrolase activity catalytic activity monoatomic cation transmembrane transporter activity proton transmembrane transporter activity monoatomic ion channel activity proton channel activity proton-transporting ATP synthase activity, rotational mechanism monoatomic cation channel activity passive transmembrane transporter activity channel activity monoatomic ion transmembrane transporter activity transporter activity transmembrane transporter activity ligase activity	ribose phosphate metabolic process ATP metabolic process ATP biosynthetic process nucleotide biosynthetic process carbohydrate derivative metabolic process purine ribonucleotide biosynthetic process purine ribonucleoside triphosphate biosynthetic process proton motive force-driven ATP synthesis nucleobase-containing compound metabolic process ribonucleotide biosynthetic process purine nucleotide metabolic process ribonucleotide metabolic process purine nucleoside triphosphate biosynthetic process nucleobase-containing small molecule metabolic process purine-containing compound biosynthetic process ribose phosphate metabolic process ATP metabolic process ATP biosynthetic process nucleotide biosynthetic process carbohydrate derivative metabolic process purine ribonucleotide biosynthetic process purine ribonucleoside triphosphate biosynthetic process proton motive force-driven ATP synthesis nucleobase-containing compound metabolic process ribonucleotide biosynthetic process purine nucleotide metabolic process ribonucleotide metabolic process purine nucleoside triphosphate biosynthetic process nucleobase-containing small molecule metabolic process purine-containing compound biosynthetic process purine ribonucleoside triphosphate metabolic process phosphate-containing compound metabolic process small molecule metabolic process phosphorus metabolic process ribose phosphate biosynthetic process nucleoside phosphate metabolic process carbohydrate derivative biosynthetic process purine nucleoside triphosphate metabolic process nucleoside triphosphate biosynthetic process proton motive force-driven plasma membrane ATP synthesis primary metabolic process nucleotide metabolic process nucleobase-containing compound biosynthetic process ribonucleoside triphosphate biosynthetic process purine-containing compound metabolic process biosynthetic process organophosphate metabolic process organophosphate biosynthetic process nucleoside phosphate biosynthetic process metabolic process cellular process nucleoside triphosphate metabolic process purine ribonucleotide metabolic process purine nucleotide biosynthetic process	cell periphery cellular anatomical structure plasma membrane membrane respiratory chain complex protein-containing complex catalytic complex proton-transporting ATP synthase complex membrane protein complex cation channel complex transporter complex proton-transporting two-sector ATPase complex transmembrane transporter complex monoatomic ion channel complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
D [auth 1], E [auth 2], F [auth 3], G [auth 4], H [auth 5], D [auth 1], E [auth 2], F [auth 3], G [auth 4], H [auth 5], I [auth 6], J [auth 7], K [auth 8], L [auth 9]	IPR035921	F/V-ATP synthase subunit C superfamily	Homologous Superfamily
D [auth 1], E [auth 2], F [auth 3], G [auth 4], H [auth 5], D [auth 1], E [auth 2], F [auth 3], G [auth 4], H [auth 5], I [auth 6], J [auth 7], K [auth 8], L [auth 9]	IPR005953	ATP synthase, F0 complex, subunit C, bacterial/chloroplast	Family
D [auth 1], E [auth 2], F [auth 3], G [auth 4], H [auth 5], D [auth 1], E [auth 2], F [auth 3], G [auth 4], H [auth 5], I [auth 6], J [auth 7], K [auth 8], L [auth 9]	IPR038662	F1F0 ATP synthase subunit C superfamily	Homologous Superfamily
D [auth 1], E [auth 2], F [auth 3], G [auth 4], H [auth 5], D [auth 1], E [auth 2], F [auth 3], G [auth 4], H [auth 5], I [auth 6], J [auth 7], K [auth 8], L [auth 9]	IPR020537	ATP synthase, F0 complex, subunit C, DCCD-binding site	Binding Site
D [auth 1], E [auth 2], F [auth 3], G [auth 4], H [auth 5], D [auth 1], E [auth 2], F [auth 3], G [auth 4], H [auth 5], I [auth 6], J [auth 7], K [auth 8], L [auth 9]	IPR000454	ATP synthase, F0 complex, subunit C	Family
D [auth 1], E [auth 2], F [auth 3], G [auth 4], H [auth 5], D [auth 1], E [auth 2], F [auth 3], G [auth 4], H [auth 5], I [auth 6], J [auth 7], K [auth 8], L [auth 9]	IPR002379	V-ATPase proteolipid subunit C-like domain	Domain
C [auth d]	IPR002146	ATP synthase, F0 complex, subunit b/b', bacterial/chloroplast	Family
C [auth d]	IPR000711	ATPase, OSCP/delta subunit	Family
C [auth d]	IPR028987	F-type ATP synthase subunit B-like, membrane domain superfamily	Homologous Superfamily
B [auth b]	IPR002146	ATP synthase, F0 complex, subunit b/b', bacterial/chloroplast	Family
B [auth b]	IPR005864	ATP synthase, F0 complex, subunit b, bacterial	Family
B [auth b]	IPR050059	ATP synthase B chain	Family
B [auth b]	IPR028987	F-type ATP synthase subunit B-like, membrane domain superfamily	Homologous Superfamily
A [auth a]	IPR023011	ATP synthase, F0 complex, subunit A, active site	Active Site
A [auth a]	IPR000568	ATP synthase, F0 complex, subunit A	Family
A [auth a]	IPR035908	ATP synthase, F0 complex, subunit A superfamily	Homologous Superfamily
A [auth a]	IPR045082	ATP synthase, F0 complex, subunit A, bacterial/chloroplast	Family

Membrane Protein Annotation: OPM OPM Database Homepage

Chains	External Link	Type	Class	Superfamily	Family
A [auth a], B [auth b], C [auth d], D [auth 1], E [auth 2] A [auth a], B [auth b], C [auth d], D [auth 1], E [auth 2], F [auth 3], G [auth 4], H [auth 5], I [auth 6], J [auth 7], K [auth 8], L [auth 9]	OPM	Transmembrane	Alpha-helical polytopic	Proton or Sodium translocating F-type, V-type and A-type ATPases	V-type and F-type ATPases

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

Chains	External Link	Comment
A [auth a], B [auth b], C [auth d], D [auth 1], E [auth 2] A [auth a], B [auth b], C [auth d], D [auth 1], E [auth 2], F [auth 3], G [auth 4], H [auth 5], I [auth 6], J [auth 7], K [auth 8], L [auth 9]	PDBTM	Annotated as membrane protein by PDBTM

Membrane Protein Annotation: MemProtMD MemProtMD Database Homepage

Chains	External Link	Comment
A [auth a], B [auth b], C [auth d], D [auth 1], E [auth 2] A [auth a], B [auth b], C [auth d], D [auth 1], E [auth 2], F [auth 3], G [auth 4], H [auth 5], I [auth 6], J [auth 7], K [auth 8], L [auth 9]	MemProtMD	Annotated as membrane protein by MemProtMD

Membrane Protein Annotation: mpstruc mpstruc Database Homepage

Chains	Resource Link	Group	Subgroup	Protein
A [auth a], B [auth b], C [auth d], D [auth 1], E [auth 2] A [auth a], B [auth b], C [auth d], D [auth 1], E [auth 2], F [auth 3], G [auth 4], H [auth 5], I [auth 6], J [auth 7], K [auth 8], L [auth 9]	mpstruc	TRANSMEMBRANE PROTEINS: ALPHA-HELICAL	F-type ATPase	F₁F_o synthase, bedaquiline-free, rotational state 1

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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.