6RD8

CryoEM structure of Polytomella F-ATP synthase, c-ring position 2, focussed refinement of Fo and peripheral stalk

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: PDBTM
Membrane Protein Annotation: MemProtMD

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
H [auth A]	ATP-synt_C	e6rd8A1	A: extended segments	X: F1F0 ATP synthase subunit C (From Topology)	H: F1F0 ATP synthase subunit C (From Topology)	T: F1F0 ATP synthase subunit C	F: ATP-synt_C	ECOD (1.6)
I [auth B]	ATP-synt_C	e6rd8B1	A: extended segments	X: F1F0 ATP synthase subunit C (From Topology)	H: F1F0 ATP synthase subunit C (From Topology)	T: F1F0 ATP synthase subunit C	F: ATP-synt_C	ECOD (1.6)
J [auth C]	ATP-synt_C	e6rd8C1	A: extended segments	X: F1F0 ATP synthase subunit C (From Topology)	H: F1F0 ATP synthase subunit C (From Topology)	T: F1F0 ATP synthase subunit C	F: ATP-synt_C	ECOD (1.6)
K [auth D]	ATP-synt_C	e6rd8D1	A: extended segments	X: F1F0 ATP synthase subunit C (From Topology)	H: F1F0 ATP synthase subunit C (From Topology)	T: F1F0 ATP synthase subunit C	F: ATP-synt_C	ECOD (1.6)
L [auth E]	ATP-synt_C	e6rd8E1	A: extended segments	X: F1F0 ATP synthase subunit C (From Topology)	H: F1F0 ATP synthase subunit C (From Topology)	T: F1F0 ATP synthase subunit C	F: ATP-synt_C	ECOD (1.6)
M [auth F]	ATP-synt_C	e6rd8F1	A: extended segments	X: F1F0 ATP synthase subunit C (From Topology)	H: F1F0 ATP synthase subunit C (From Topology)	T: F1F0 ATP synthase subunit C	F: ATP-synt_C	ECOD (1.6)
N [auth G]	ATP-synt_C	e6rd8G1	A: extended segments	X: F1F0 ATP synthase subunit C (From Topology)	H: F1F0 ATP synthase subunit C (From Topology)	T: F1F0 ATP synthase subunit C	F: ATP-synt_C	ECOD (1.6)
O [auth H]	ATP-synt_C	e6rd8H1	A: extended segments	X: F1F0 ATP synthase subunit C (From Topology)	H: F1F0 ATP synthase subunit C (From Topology)	T: F1F0 ATP synthase subunit C	F: ATP-synt_C	ECOD (1.6)
P [auth I]	ATP-synt_C	e6rd8I1	A: extended segments	X: F1F0 ATP synthase subunit C (From Topology)	H: F1F0 ATP synthase subunit C (From Topology)	T: F1F0 ATP synthase subunit C	F: ATP-synt_C	ECOD (1.6)
Q [auth J]	ATP-synt_C	e6rd8J1	A: extended segments	X: F1F0 ATP synthase subunit C (From Topology)	H: F1F0 ATP synthase subunit C (From Topology)	T: F1F0 ATP synthase subunit C	F: ATP-synt_C	ECOD (1.6)
R [auth M]	ATP-synt_A	e6rd8M1	A: alpha bundles	X: F1F0 ATP synthase subunit A (From Topology)	H: F1F0 ATP synthase subunit A (From Topology)	T: F1F0 ATP synthase subunit A	F: ATP-synt_A	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
H [auth A]	1.20.20.10	Mainly Alpha	Up-down Bundle	F1FO ATP Synthase	F1F0 ATP synthase subunit C	CATH (utative)
I [auth B]	1.20.20.10	Mainly Alpha	Up-down Bundle	F1FO ATP Synthase	F1F0 ATP synthase subunit C	CATH (utative)
J [auth C]	1.20.20.10	Mainly Alpha	Up-down Bundle	F1FO ATP Synthase	F1F0 ATP synthase subunit C	CATH (utative)
K [auth D]	1.20.20.10	Mainly Alpha	Up-down Bundle	F1FO ATP Synthase	F1F0 ATP synthase subunit C	CATH (utative)
L [auth E]	1.20.20.10	Mainly Alpha	Up-down Bundle	F1FO ATP Synthase	F1F0 ATP synthase subunit C	CATH (utative)
M [auth F]	1.20.20.10	Mainly Alpha	Up-down Bundle	F1FO ATP Synthase	F1F0 ATP synthase subunit C	CATH (utative)
N [auth G]	1.20.20.10	Mainly Alpha	Up-down Bundle	F1FO ATP Synthase	F1F0 ATP synthase subunit C	CATH (utative)
O [auth H]	1.20.20.10	Mainly Alpha	Up-down Bundle	F1FO ATP Synthase	F1F0 ATP synthase subunit C	CATH (utative)
P [auth I]	1.20.20.10	Mainly Alpha	Up-down Bundle	F1FO ATP Synthase	F1F0 ATP synthase subunit C	CATH (utative)
Q [auth J]	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
H [auth A], I [auth B], J [auth C], K [auth D], L [auth E], H [auth A], I [auth B], J [auth C], K [auth D], L [auth E], M [auth F], N [auth G], O [auth H], P [auth I], Q [auth J]	PF00137	ATP synthase subunit C (ATP-synt_C)	ATP synthase subunit C	-	Family
R [auth M]	PF00119	ATP synthase A chain (ATP-synt_A)	ATP synthase A chain	-	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth 0]	ASA-10: Polytomella F-ATP synthase associated subunit 10	-	-	membrane cellular anatomical entity
B [auth 1]	ATP synthase associated protein ASA1	-	-	membrane-bounded organelle intracellular organelle intracellular anatomical structure mitochondrion organelle cytoplasm cellular anatomical entity intracellular membrane-bounded organelle
C [auth 3]	Mitochondrial F1F0 ATP synthase associated 32 kDa protein	-	-	-
D [auth 5]	Mitochondrial F1F0 ATP synthase associated 14 kDa protein	-	-	-
E [auth 6]	Mitochondrial ATP synthase subunit ASA6	-	-	-
F [auth 8]	Mitochondrial ATP synthase subunit ASA8	-	-	membrane cellular anatomical entity
G [auth 9]	ASA-9: Polytomella F-ATP synthase associated subunit 9	-	-	membrane cellular anatomical entity
H [auth A], I [auth B], J [auth C], K [auth D], L [auth E], H [auth A], I [auth B], J [auth C], K [auth D], L [auth E], M [auth F], N [auth G], O [auth H], P [auth I], Q [auth J]	Mitochondrial ATP synthase subunit c	monoatomic cation transmembrane transporter activity proton transmembrane transporter activity inorganic molecular entity transmembrane transporter activity inorganic cation transmembrane transporter activity monoatomic ion transmembrane transporter activity transporter activity transmembrane transporter activity binding lipid binding	ribose phosphate metabolic process ATP metabolic process ATP biosynthetic process nucleotide biosynthetic process organonitrogen compound 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 organic substance metabolic process ribonucleotide metabolic process purine nucleoside triphosphate biosynthetic process ribose phosphate metabolic process ATP metabolic process ATP biosynthetic process nucleotide biosynthetic process organonitrogen compound 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 organic substance 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 organic substance biosynthetic process small molecule metabolic process phosphorus metabolic process ribose phosphate biosynthetic process ribonucleoside triphosphate metabolic process nucleoside phosphate metabolic process carbohydrate derivative biosynthetic process purine nucleoside triphosphate metabolic process organonitrogen compound metabolic process nucleoside triphosphate biosynthetic process cellular metabolic process primary metabolic process nucleotide metabolic process nucleobase-containing compound biosynthetic process ribonucleoside triphosphate biosynthetic process purine-containing compound metabolic process organic cyclic compound metabolic process biosynthetic process organophosphate metabolic process organophosphate biosynthetic process organic cyclic compound biosynthetic process nucleoside phosphate biosynthetic process metabolic process cellular process nucleoside triphosphate metabolic process purine ribonucleotide metabolic process purine nucleotide biosynthetic process	membrane-bounded organelle intracellular organelle intracellular anatomical structure organelle intracellular membrane-bounded organelle cellular anatomical entity cytoplasm protein-containing complex ATPase complex catalytic complex membrane proton-transporting ATP synthase complex membrane protein complex proton-transporting two-sector ATPase complex, proton-transporting domain membrane-bounded organelle intracellular organelle intracellular anatomical structure organelle intracellular membrane-bounded organelle cellular anatomical entity cytoplasm protein-containing complex ATPase complex catalytic complex membrane proton-transporting ATP synthase complex membrane protein complex proton-transporting two-sector ATPase complex, proton-transporting domain proton-transporting two-sector ATPase complex proton-transporting ATP synthase complex, coupling factor F(o) intracellular non-membrane-bounded organelle thylakoid non-membrane-bounded organelle
R [auth M]	Mitochondrial ATP synthase subunit 6	monoatomic cation transmembrane transporter activity proton transmembrane transporter activity inorganic molecular entity transmembrane transporter activity inorganic cation transmembrane transporter activity monoatomic ion transmembrane transporter activity transporter activity transmembrane transporter activity	ribose phosphate metabolic process ATP metabolic process ATP biosynthetic process nucleotide biosynthetic process organonitrogen compound 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 organic substance metabolic process ribonucleotide metabolic process purine nucleoside triphosphate biosynthetic process ribose phosphate metabolic process ATP metabolic process ATP biosynthetic process nucleotide biosynthetic process organonitrogen compound 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 organic substance 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 organic substance biosynthetic process small molecule metabolic process phosphorus metabolic process ribose phosphate biosynthetic process ribonucleoside triphosphate metabolic process nucleoside phosphate metabolic process carbohydrate derivative biosynthetic process purine nucleoside triphosphate metabolic process organonitrogen compound metabolic process nucleoside triphosphate biosynthetic process cellular metabolic process primary metabolic process nucleotide metabolic process nucleobase-containing compound biosynthetic process ribonucleoside triphosphate biosynthetic process purine-containing compound metabolic process organic cyclic compound metabolic process biosynthetic process organophosphate metabolic process organophosphate biosynthetic process organic cyclic compound biosynthetic process nucleoside phosphate biosynthetic process metabolic process cellular process nucleoside triphosphate metabolic process purine ribonucleotide metabolic process purine nucleotide biosynthetic process	protein-containing complex ATPase complex intracellular anatomical structure catalytic complex membrane proton-transporting ATP synthase complex membrane protein complex cellular anatomical entity proton-transporting two-sector ATPase complex, proton-transporting domain proton-transporting two-sector ATPase complex proton-transporting ATP synthase complex, coupling factor F(o)

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
H [auth A], I [auth B], J [auth C], K [auth D], L [auth E], H [auth A], I [auth B], J [auth C], K [auth D], L [auth E], M [auth F], N [auth G], O [auth H], P [auth I], Q [auth J]	IPR035921	F/V-ATP synthase subunit C superfamily	Homologous Superfamily
H [auth A], I [auth B], J [auth C], K [auth D], L [auth E], H [auth A], I [auth B], J [auth C], K [auth D], L [auth E], M [auth F], N [auth G], O [auth H], P [auth I], Q [auth J]	IPR038662	F1F0 ATP synthase subunit C superfamily	Homologous Superfamily
H [auth A], I [auth B], J [auth C], K [auth D], L [auth E], H [auth A], I [auth B], J [auth C], K [auth D], L [auth E], M [auth F], N [auth G], O [auth H], P [auth I], Q [auth J]	IPR020537	ATP synthase, F0 complex, subunit C, DCCD-binding site	Binding Site
H [auth A], I [auth B], J [auth C], K [auth D], L [auth E], H [auth A], I [auth B], J [auth C], K [auth D], L [auth E], M [auth F], N [auth G], O [auth H], P [auth I], Q [auth J]	IPR000454	ATP synthase, F0 complex, subunit C	Family
H [auth A], I [auth B], J [auth C], K [auth D], L [auth E], H [auth A], I [auth B], J [auth C], K [auth D], L [auth E], M [auth F], N [auth G], O [auth H], P [auth I], Q [auth J]	IPR002379	V-ATPase proteolipid subunit C-like domain	Domain
R [auth M]	IPR023011	ATP synthase, F0 complex, subunit A, active site	Active Site
R [auth M]	IPR000568	ATP synthase, F0 complex, subunit A	Family
R [auth M]	IPR035908	ATP synthase, F0 complex, subunit A superfamily	Homologous Superfamily
R [auth M]	IPR045083	ATP synthase, F0 complex, subunit A, bacterial/mitochondria	Family

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

Chains	External Link	Comment
A [auth 0], F [auth 8], G [auth 9], H [auth A], I [auth B] A [auth 0], F [auth 8], G [auth 9], H [auth A], I [auth B], J [auth C], K [auth D], L [auth E], M [auth F], N [auth G], O [auth H], P [auth I], Q [auth J], R [auth M]	PDBTM	Annotated as membrane protein by PDBTM

Membrane Protein Annotation: MemProtMD MemProtMD Database Homepage

Chains	External Link	Comment
A [auth 0], F [auth 8], G [auth 9], H [auth A], I [auth B] A [auth 0], F [auth 8], G [auth 9], H [auth A], I [auth B], J [auth C], K [auth D], L [auth E], M [auth F], N [auth G], O [auth H], P [auth I], Q [auth J], R [auth M]	MemProtMD	Annotated as membrane protein by MemProtMD

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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.