7FDE | pdb_00007fde

CryoEM Structures of Reconstituted V-ATPase, Oxr1 bound V1


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
A [auth O]SCOP2B SuperfamilyVacuolar ATP synthase subunit C 8042806 3001744 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
PGlyco_hydro_65Ne7fdeP1 A: a/b three-layered sandwichesX: RNase A-likeH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Glyco_hydro_65NECOD (v294.1)
M [auth N]Glyco_hydro_65Ne7fdeN1 A: a/b three-layered sandwichesX: RNase A-likeH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Glyco_hydro_65NECOD (v294.1)
L [auth M]Glyco_hydro_65Ne7fdeM1 A: a/b three-layered sandwichesX: RNase A-likeH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Glyco_hydro_65NECOD (v294.1)
G [auth D]Glyco_hydro_65Ne7fdeD1 A: a/b three-layered sandwichesX: RNase A-likeH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Glyco_hydro_65NECOD (v294.1)
I [auth F]Glyco_hydro_65Ne7fdeF1 A: a/b three-layered sandwichesX: RNase A-likeH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Glyco_hydro_65NECOD (v294.1)
E [auth B]Glyco_hydro_65Ne7fdeB1 A: a/b three-layered sandwichesX: RNase A-likeH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Glyco_hydro_65NECOD (v294.1)
H [auth E]Glyco_transf_41e7fdeE1 A: a/b three-layered sandwichesX: RNase A-likeH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Glyco_transf_41ECOD (v294.1)
F [auth C]Glyco_transf_41e7fdeC1 A: a/b three-layered sandwichesX: RNase A-likeH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Glyco_transf_41ECOD (v294.1)
D [auth A]Ion_transe7fdeA1 A: a/b three-layered sandwichesX: RNase A-likeH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Ion_transECOD (v294.1)
O [auth J]Glyco_hydro_65Ne7fdeJ1 A: a/b three-layered sandwichesX: RNase A-likeH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Glyco_hydro_65NECOD (v294.1)
K [auth L]Glyco_hydro_65Ne7fdeL1 A: a/b three-layered sandwichesX: RNase A-likeH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Glyco_hydro_65NECOD (v294.1)
C [auth H]Glyco_hydro_65Ne7fdeH1 A: a/b three-layered sandwichesX: RNase A-likeH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Glyco_hydro_65NECOD (v294.1)
N [auth I]Glyco_hydro_65Ne7fdeI1 A: a/b three-layered sandwichesX: RNase A-likeH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Glyco_hydro_65NECOD (v294.1)
J [auth K]Glyco_transf_41e7fdeK1 A: a/b three-layered sandwichesX: RNase A-likeH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Glyco_transf_41ECOD (v294.1)
B [auth G]Glyco_hydro_65Ne7fdeG1 A: a/b three-layered sandwichesX: RNase A-likeH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Glyco_hydro_65NECOD (v294.1)
A [auth O]Glyco_hydro_65Ne7fdeO1 A: a/b three-layered sandwichesX: RNase A-likeH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Glyco_hydro_65NECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

ChainDomainClassArchitectureTopologyHomologyProvenance Source (Version)
L [auth M]1.10.287.3240 Mainly Alpha Orthogonal Bundle Helix Hairpins CATH (utative)
B [auth G]3.30.2320.30 Alpha Beta 2-Layer Sandwich hypothetical protein PF0899 fold ATP synthase, E subunit, C-terminalCATH (utative)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
PF07534TLDc domain (TLD)TLDc domainThis domain is predicted to be an enzyme [1] and is often found associated with Pfam:PF01476. It's structure consists of a beta-sandwich surrounded by two helices and two one-turn helices [2]. Domain
M [auth N]PF01990ATP synthase (F/14-kDa) subunit (ATP-synt_F)ATP synthase (F/14-kDa) subunit- Family
L [auth M]PF01813ATP synthase subunit D (ATP-synt_D)ATP synthase subunit D- Family
E [auth B],
G [auth D],
I [auth F]
PF00006ATP synthase alpha/beta family, nucleotide-binding domain (ATP-synt_ab)ATP synthase alpha/beta family, nucleotide-binding domainThis entry includes the ATP synthase alpha and beta subunits, the ATP synthase associated with flagella and the termination factor Rho. Domain
E [auth B],
G [auth D],
I [auth F]
PF22919C-terminal domain of V and A type ATP synthase (ATP-synt_VA_C)C-terminal domain of V and A type ATP synthaseThis entry represents a small alpha helical domain found at the C-terminus of a variety of ATP synthases. Domain
E [auth B],
G [auth D],
I [auth F]
PF02874ATP synthase alpha/beta family, beta-barrel domain (ATP-synt_ab_N)ATP synthase alpha/beta family, beta-barrel domainThis family includes the ATP synthase alpha and beta subunits the ATP synthase associated with flagella. Domain
D [auth A],
F [auth C],
H [auth E]
PF00006ATP synthase alpha/beta family, nucleotide-binding domain (ATP-synt_ab)ATP synthase alpha/beta family, nucleotide-binding domainThis entry includes the ATP synthase alpha and beta subunits, the ATP synthase associated with flagella and the termination factor Rho. Domain
D [auth A],
F [auth C],
H [auth E]
PF22919C-terminal domain of V and A type ATP synthase (ATP-synt_VA_C)C-terminal domain of V and A type ATP synthaseThis entry represents a small alpha helical domain found at the C-terminus of a variety of ATP synthases. Domain
D [auth A],
F [auth C],
H [auth E]
PF16886ATPsynthase alpha/beta subunit barrel-sandwich domain (ATP-synt_ab_Xtn)ATPsynthase alpha/beta subunit barrel-sandwich domainThis barrel-sandwich domain is found in the alpha-beta catalytic subunit of VATA or V-type proton ATPase catalytic subunit at the N-terminal end. This domain has a circularly permuted topology compared to other barrel-sandwich domains. In VATA barrel ...This barrel-sandwich domain is found in the alpha-beta catalytic subunit of VATA or V-type proton ATPase catalytic subunit at the N-terminal end. This domain has a circularly permuted topology compared to other barrel-sandwich domains. In VATA barrel-sandwich domain the C-terminal strand is circularly permuted and occupies the spatial position of the N-terminal strand in other hybrid domains.
Domain
D [auth A],
F [auth C],
H [auth E]
PF02874ATP synthase alpha/beta family, beta-barrel domain (ATP-synt_ab_N)ATP synthase alpha/beta family, beta-barrel domainThis family includes the ATP synthase alpha and beta subunits the ATP synthase associated with flagella. Domain
C [auth H],
K [auth L],
O [auth J]
PF03179Vacuolar (H+)-ATPase G subunit (V-ATPase_G)Vacuolar (H+)-ATPase G subunit- Coiled-coil
B [auth G],
J [auth K],
N [auth I]
PF01991ATP synthase (E/31 kDa) subunit (vATP-synt_E)ATP synthase (E/31 kDa) subunit- Family
A [auth O]PF03223V-ATPase subunit C (V-ATPase_C)V-ATPase subunit C- Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
Oxidation resistance protein 1-
M [auth N]V-type proton ATPase subunit F
L [auth M]V-type proton ATPase subunit D
E [auth B],
G [auth D],
I [auth F]
V-type proton ATPase subunit B
D [auth A],
F [auth C],
H [auth E]
Yeast Vacuolar ATPase A subunit
C [auth H],
K [auth L],
O [auth J]
V-type proton ATPase subunit G
B [auth G],
J [auth K],
N [auth I]
V-type proton ATPase subunit E
A [auth O]V-type proton ATPase subunit C

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
IPR006571TLDc domainDomain
M [auth N]IPR036906ATPase, V1 complex, subunit F superfamilyHomologous Superfamily
M [auth N]IPR005772ATPase, V1 complex, subunit F, eukaryoticFamily
M [auth N]IPR008218ATPase, V1 complex, subunit FFamily
L [auth M]IPR002699ATPase, V1 complex, subunit DFamily
E [auth B],
G [auth D],
I [auth F]
IPR000194ATPase, F1/V1/A1 complex, alpha/beta subunit, nucleotide-binding domainDomain
E [auth B],
G [auth D],
I [auth F]
IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily
E [auth B],
G [auth D],
I [auth F]
IPR004100ATPase, F1/V1/A1 complex, alpha/beta subunit, N-terminal domainDomain
E [auth B],
G [auth D],
I [auth F]
IPR005723ATPase, V1 complex, subunit BFamily
E [auth B],
G [auth D],
I [auth F]
IPR022879V-type ATP synthase regulatory subunit B/betaFamily
E [auth B],
G [auth D],
I [auth F]
IPR020003ATPase, alpha/beta subunit, nucleotide-binding domain, active siteActive Site
E [auth B],
G [auth D],
I [auth F]
IPR055190ATP synthase A/B type, C-terminal domainDomain
D [auth A],
F [auth C],
H [auth E]
IPR036844Hint domain superfamilyHomologous Superfamily
D [auth A],
F [auth C],
H [auth E]
IPR022878V-type ATP synthase catalytic alpha chainFamily
D [auth A],
F [auth C],
H [auth E]
IPR006142InteinDomain
D [auth A],
F [auth C],
H [auth E]
IPR007868Hom-end-associated HintDomain
D [auth A],
F [auth C],
H [auth E]
IPR004042Intein DOD homing endonuclease, central regionDomain
D [auth A],
F [auth C],
H [auth E]
IPR024034ATPase, F1/V1 complex, beta/alpha subunit, C-terminalHomologous Superfamily
D [auth A],
F [auth C],
H [auth E]
IPR036121ATPase, F1/V1/A1 complex, alpha/beta subunit, N-terminal domain superfamilyHomologous Superfamily
D [auth A],
F [auth C],
H [auth E]
IPR031686ATPsynthase alpha/beta subunit, barrel-sandwich domainDomain
D [auth A],
F [auth C],
H [auth E]
IPR006141Intein N-terminal splicing regionPTM
D [auth A],
F [auth C],
H [auth E]
IPR003586Hint domain C-terminalDomain
D [auth A],
F [auth C],
H [auth E]
IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily
D [auth A],
F [auth C],
H [auth E]
IPR004100ATPase, F1/V1/A1 complex, alpha/beta subunit, N-terminal domainDomain
D [auth A],
F [auth C],
H [auth E]
IPR030934Intein C-terminal splicing regionConserved Site
D [auth A],
F [auth C],
H [auth E]
IPR027434Homing endonucleaseHomologous Superfamily
D [auth A],
F [auth C],
H [auth E]
IPR023366ATP synthase subunit alpha, N-terminal domain-like superfamilyHomologous Superfamily
D [auth A],
F [auth C],
H [auth E]
IPR020003ATPase, alpha/beta subunit, nucleotide-binding domain, active siteActive Site
D [auth A],
F [auth C],
H [auth E]
IPR055190ATP synthase A/B type, C-terminal domainDomain
D [auth A],
F [auth C],
H [auth E]
IPR003587Hint domain N-terminalDomain
D [auth A],
F [auth C],
H [auth E]
IPR007869Homing endonuclease PI-SceDomain
C [auth H],
K [auth L],
O [auth J]
IPR005124Vacuolar (H+)-ATPase G subunitFamily
B [auth G],
J [auth K],
N [auth I]
IPR038495V-type ATPase subunit E, C-terminal domain superfamilyHomologous Superfamily
B [auth G],
J [auth K],
N [auth I]
IPR002842V-type ATPase subunit EFamily
A [auth O]IPR036132Vacuolar ATP synthase subunit C superfamilyHomologous Superfamily
A [auth O]IPR004907ATPase, V1 complex, subunit CFamily