8IGV

Hexameric Ring Complex of Engineered V1-ATPase bound to 5 ADPs: A3(De)3_(ADP-Pi)1cat(ADP)2cat,2non-cat

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	ATP synthase alpha/beta N-terminal domain-like	8093377	3001034	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	ATP synthase alpha/beta C-terminal domain-like	8093380	3000684	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Single hybrid motif	8093375	3001880	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	RecA-like P-loop NTPases	8093379	3002019	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	RecA-like P-loop NTPases	8093379	3002019	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Single hybrid motif	8093375	3001880	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	ATP synthase alpha/beta N-terminal domain-like	8093377	3001034	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	ATP synthase alpha/beta C-terminal domain-like	8093380	3000684	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Single hybrid motif	8093375	3001880	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	ATP synthase alpha/beta N-terminal domain-like	8093377	3001034	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	RecA-like P-loop NTPases	8093379	3002019	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	ATP synthase alpha/beta C-terminal domain-like	8093380	3000684	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)
A	PF02874	e8igvA1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: Alanine racemase-C	F: PF02874	ECOD (1.6)
A	PF22919	e8igvA3	A: alpha superhelices	X: C-terminal domain of alpha and beta subunits of F1 ATP synthase (From Topology)	H: C-terminal domain of alpha and beta subunits of F1 ATP synthase (From Topology)	T: C-terminal domain of alpha and beta subunits of F1 ATP synthase	F: PF22919	ECOD (1.6)
A	PF00006,PF16886	e8igvA2	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: PF00006,PF16886	ECOD (1.6)
B	PF02874	e8igvB3	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: Alanine racemase-C	F: PF02874	ECOD (1.6)
B	PF22919	e8igvB1	A: alpha superhelices	X: C-terminal domain of alpha and beta subunits of F1 ATP synthase (From Topology)	H: C-terminal domain of alpha and beta subunits of F1 ATP synthase (From Topology)	T: C-terminal domain of alpha and beta subunits of F1 ATP synthase	F: PF22919	ECOD (1.6)
B	PF00006,PF16886	e8igvB2	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: PF00006,PF16886	ECOD (1.6)
C	PF02874	e8igvC1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: Alanine racemase-C	F: PF02874	ECOD (1.6)
C	PF22919	e8igvC2	A: alpha superhelices	X: C-terminal domain of alpha and beta subunits of F1 ATP synthase (From Topology)	H: C-terminal domain of alpha and beta subunits of F1 ATP synthase (From Topology)	T: C-terminal domain of alpha and beta subunits of F1 ATP synthase	F: PF22919	ECOD (1.6)
C	PF00006,PF16886	e8igvC3	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: PF00006,PF16886	ECOD (1.6)
D	PF02874	e8igvD2	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: Alanine racemase-C	F: PF02874	ECOD (1.6)
D	PF22919	e8igvD1	A: alpha superhelices	X: C-terminal domain of alpha and beta subunits of F1 ATP synthase (From Topology)	H: C-terminal domain of alpha and beta subunits of F1 ATP synthase (From Topology)	T: C-terminal domain of alpha and beta subunits of F1 ATP synthase	F: PF22919	ECOD (1.6)
D	PF00006	e8igvD3	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: PF00006	ECOD (1.6)
E	PF02874	e8igvE1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: Alanine racemase-C	F: PF02874	ECOD (1.6)
E	PF22919	e8igvE3	A: alpha superhelices	X: C-terminal domain of alpha and beta subunits of F1 ATP synthase (From Topology)	H: C-terminal domain of alpha and beta subunits of F1 ATP synthase (From Topology)	T: C-terminal domain of alpha and beta subunits of F1 ATP synthase	F: PF22919	ECOD (1.6)
E	PF00006	e8igvE2	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: PF00006	ECOD (1.6)
F	PF02874	e8igvF3	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: Alanine racemase-C	F: PF02874	ECOD (1.6)
F	PF22919	e8igvF2	A: alpha superhelices	X: C-terminal domain of alpha and beta subunits of F1 ATP synthase (From Topology)	H: C-terminal domain of alpha and beta subunits of F1 ATP synthase (From Topology)	T: C-terminal domain of alpha and beta subunits of F1 ATP synthase	F: PF22919	ECOD (1.6)
F	PF00006	e8igvF1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: PF00006	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C	PF00006	ATP synthase alpha/beta family, nucleotide-binding domain (ATP-synt_ab)	ATP synthase alpha/beta family, nucleotide-binding domain	This entry includes the ATP synthase alpha and beta subunits, the ATP synthase associated with flagella and the termination factor Rho.	Domain
A, B, C	PF16886	ATPsynthase alpha/beta subunit N-term extension (ATP-synt_ab_Xtn)	ATPsynthase alpha/beta subunit N-term extension	-	Family
A, B, C	PF02874	ATP synthase alpha/beta family, beta-barrel domain (ATP-synt_ab_N)	ATP synthase alpha/beta family, beta-barrel domain	This family includes the ATP synthase alpha and beta subunits the ATP synthase associated with flagella.	Domain
D, E, F	PF00006	ATP synthase alpha/beta family, nucleotide-binding domain (ATP-synt_ab)	ATP synthase alpha/beta family, nucleotide-binding domain	This entry includes the ATP synthase alpha and beta subunits, the ATP synthase associated with flagella and the termination factor Rho.	Domain
D, E, F	PF02874	ATP synthase alpha/beta family, beta-barrel domain (ATP-synt_ab_N)	ATP synthase alpha/beta family, beta-barrel domain	This family includes the ATP synthase alpha and beta subunits the ATP synthase associated with flagella.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C	V-type sodium ATPase catalytic subunit A	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding organic cyclic compound binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding organic cyclic compound binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding 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 inorganic molecular entity transmembrane transporter activity inorganic cation transmembrane transporter activity monoatomic ion transmembrane transporter activity transporter activity transmembrane transporter activity sodium ion transmembrane transporter activity sodium-transporting ATP synthase activity, rotational mechanism metal ion transmembrane transporter activity catalytic activity ligase activity sodium-transporting ATPase activity, rotational mechanism monoatomic ion channel activity proton channel activity proton-transporting ATP synthase activity, rotational mechanism monoatomic cation channel activity passive transmembrane transporter activity channel activity	nucleotide biosynthetic process organonitrogen compound biosynthetic process carbohydrate derivative metabolic process purine ribonucleotide biosynthetic process purine ribonucleoside triphosphate biosynthetic process nucleobase-containing compound metabolic process ribonucleotide biosynthetic process purine nucleoside triphosphate biosynthetic process phosphate-containing compound metabolic process organic substance biosynthetic process small molecule metabolic process phosphorus metabolic process ribose phosphate biosynthetic process nucleoside phosphate metabolic process nucleotide biosynthetic process organonitrogen compound biosynthetic process carbohydrate derivative metabolic process purine ribonucleotide biosynthetic process purine ribonucleoside triphosphate biosynthetic process nucleobase-containing compound metabolic process ribonucleotide biosynthetic process purine nucleoside triphosphate biosynthetic process phosphate-containing compound metabolic process organic substance biosynthetic process small molecule metabolic process phosphorus metabolic process ribose phosphate biosynthetic process nucleoside phosphate metabolic process proton motive force-driven plasma membrane ATP synthesis cellular metabolic process primary metabolic process nucleotide metabolic process ribonucleoside triphosphate biosynthetic process organic cyclic compound metabolic process biosynthetic process organophosphate biosynthetic process organic cyclic compound biosynthetic process nucleoside phosphate biosynthetic process metabolic process nucleoside triphosphate metabolic process purine ribonucleotide metabolic process purine nucleotide biosynthetic process ribose phosphate metabolic process ATP metabolic process ATP biosynthetic process proton motive force-driven ATP synthesis purine nucleotide metabolic process organic substance metabolic process ribonucleotide metabolic process nucleobase-containing small molecule metabolic process purine-containing compound biosynthetic process purine ribonucleoside triphosphate metabolic process ribonucleoside triphosphate metabolic process carbohydrate derivative biosynthetic process purine nucleoside triphosphate metabolic process organonitrogen compound metabolic process nucleoside triphosphate biosynthetic process nucleobase-containing compound biosynthetic process purine-containing compound metabolic process organophosphate metabolic process cellular process	protein-containing complex ATPase complex proton-transporting two-sector ATPase complex catalytic complex proton-transporting ATP synthase complex membrane membrane protein complex cellular anatomical entity
D, E, F	V-type sodium ATPase subunit B	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding organic cyclic compound binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding organic cyclic compound binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule 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 inorganic molecular entity transmembrane transporter activity inorganic cation transmembrane transporter activity channel activity monoatomic ion transmembrane transporter activity transporter activity transmembrane transporter activity catalytic activity ligase activity	nucleotide biosynthetic process organonitrogen compound biosynthetic process carbohydrate derivative metabolic process purine ribonucleotide biosynthetic process purine ribonucleoside triphosphate biosynthetic process nucleobase-containing compound metabolic process ribonucleotide biosynthetic process purine nucleoside triphosphate biosynthetic process phosphate-containing compound metabolic process organic substance biosynthetic process small molecule metabolic process phosphorus metabolic process ribose phosphate biosynthetic process nucleoside phosphate metabolic process nucleotide biosynthetic process organonitrogen compound biosynthetic process carbohydrate derivative metabolic process purine ribonucleotide biosynthetic process purine ribonucleoside triphosphate biosynthetic process nucleobase-containing compound metabolic process ribonucleotide biosynthetic process purine nucleoside triphosphate biosynthetic process phosphate-containing compound metabolic process organic substance biosynthetic process small molecule metabolic process phosphorus metabolic process ribose phosphate biosynthetic process nucleoside phosphate metabolic process proton motive force-driven plasma membrane ATP synthesis cellular metabolic process primary metabolic process nucleotide metabolic process ribonucleoside triphosphate biosynthetic process organic cyclic compound metabolic process biosynthetic process organophosphate biosynthetic process organic cyclic compound biosynthetic process nucleoside phosphate biosynthetic process metabolic process nucleoside triphosphate metabolic process purine ribonucleotide metabolic process purine nucleotide biosynthetic process ribose phosphate metabolic process ATP metabolic process ATP biosynthetic process proton motive force-driven ATP synthesis purine nucleotide metabolic process organic substance metabolic process ribonucleotide metabolic process nucleobase-containing small molecule metabolic process purine-containing compound biosynthetic process purine ribonucleoside triphosphate metabolic process ribonucleoside triphosphate metabolic process carbohydrate derivative biosynthetic process purine nucleoside triphosphate metabolic process organonitrogen compound metabolic process nucleoside triphosphate biosynthetic process nucleobase-containing compound biosynthetic process purine-containing compound metabolic process organophosphate metabolic process cellular process localization transport monoatomic ion transport monoatomic cation transport establishment of localization sodium ion transport metal ion transport	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C	IPR004100	ATPase, F1/V1/A1 complex, alpha/beta subunit, N-terminal domain	Domain
A, B, C	IPR022878	V-type ATP synthase catalytic alpha chain	Family
A, B, C	IPR031686	ATPsynthase alpha/beta subunit, N-terminal extension	Domain
A, B, C	IPR024034	ATPase, F1/V1 complex, beta/alpha subunit, C-terminal	Homologous Superfamily
A, B, C	IPR036121	ATPase, F1/V1/A1 complex, alpha/beta subunit, N-terminal domain superfamily	Homologous Superfamily
A, B, C	IPR023366	ATP synthase subunit alpha, N-terminal domain-like superfamily	Homologous Superfamily
A, B, C	IPR020003	ATPase, alpha/beta subunit, nucleotide-binding domain, active site	Active Site
A, B, C	IPR000194	ATPase, F1/V1/A1 complex, alpha/beta subunit, nucleotide-binding domain	Domain
A, B, C	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
D, E, F	IPR020003	ATPase, alpha/beta subunit, nucleotide-binding domain, active site	Active Site
D, E, F	IPR000194	ATPase, F1/V1/A1 complex, alpha/beta subunit, nucleotide-binding domain	Domain
D, E, F	IPR004100	ATPase, F1/V1/A1 complex, alpha/beta subunit, N-terminal domain	Domain
D, E, F	IPR022879	V-type ATP synthase regulatory subunit B/beta	Family
D, E, F	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily

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.