3J0J | pdb_00003j0j

Fitted atomic models of Thermus thermophilus V-ATPase subunits into cryo-EM map


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
MSCOP2B SuperfamilyV-type ATP synthase subunit C 8040383 3000323 SCOP2B (2022-06-29)
ISCOP2B SuperfamilyVAPG-like 8101875 3002722 SCOP2B (2022-06-29)
KSCOP2B SuperfamilyVAPG-like 8101875 3002722 SCOP2B (2022-06-29)
HSCOP2B SuperfamilyAtpF-like 8033711 3000828 SCOP2B (2022-06-29)
DSCOP2B SuperfamilyATP synthase alpha/beta N-terminal domain-like 8018298 3001034 SCOP2B (2022-06-29)
DSCOP2B SuperfamilyRecA-like P-loop NTPases 8018301 3002019 SCOP2B (2022-06-29)
ESCOP2B SuperfamilyRecA-like P-loop NTPases 8018301 3002019 SCOP2B (2022-06-29)
ESCOP2B SuperfamilyATP synthase alpha/beta N-terminal domain-like 8018298 3001034 SCOP2B (2022-06-29)
FSCOP2B SuperfamilyRecA-like P-loop NTPases 8018301 3002019 SCOP2B (2022-06-29)
FSCOP2B SuperfamilyATP synthase alpha/beta N-terminal domain-like 8018298 3001034 SCOP2B (2022-06-29)
ASCOP2B SuperfamilyRecA-like P-loop NTPases 8018285 3002019 SCOP2B (2022-06-29)
ASCOP2B SuperfamilyATP synthase alpha/beta N-terminal domain-like 8018290 3001034 SCOP2B (2022-06-29)
ASCOP2B SuperfamilyATP synthase alpha/beta C-terminal domain-like 8056935 3000684 SCOP2B (2022-06-29)
ASCOP2B SuperfamilySingle hybrid motif 8018293 3001880 SCOP2B (2022-06-29)
BSCOP2B SuperfamilyATP synthase alpha/beta N-terminal domain-like 8018290 3001034 SCOP2B (2022-06-29)
BSCOP2B SuperfamilyATP synthase alpha/beta C-terminal domain-like 8056935 3000684 SCOP2B (2022-06-29)
BSCOP2B SuperfamilyRecA-like P-loop NTPases 8018285 3002019 SCOP2B (2022-06-29)
BSCOP2B SuperfamilySingle hybrid motif 8018293 3001880 SCOP2B (2022-06-29)
CSCOP2B SuperfamilyATP synthase alpha/beta N-terminal domain-like 8018290 3001034 SCOP2B (2022-06-29)
CSCOP2B SuperfamilyATP synthase alpha/beta C-terminal domain-like 8056935 3000684 SCOP2B (2022-06-29)
CSCOP2B SuperfamilySingle hybrid motif 8018293 3001880 SCOP2B (2022-06-29)
CSCOP2B SuperfamilyRecA-like P-loop NTPases 8018285 3002019 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
MV-sete3j0jM1 A: a/b three-layered sandwichesX: Baculovirus p35 protein-relatedH: RIFT-relatedT: Phage tail proteinsF: V-setECOD (v294.1)
JvATP-synt_Ee3j0jJ1 A: a/b three-layered sandwichesX: jelly-rollH: Acetamidase/Formamidase-likeT: Acetamidase/Formamidase-likeF: vATP-synt_EECOD (v294.1)
Je3j0jJ2 A: a/b three-layered sandwichesX: jelly-rollH: Acetamidase/Formamidase-likeT: Acetamidase/Formamidase-likeF:ECOD (v294.1)
LvATP-synt_Ee3j0jL1 A: a/b three-layered sandwichesX: jelly-rollH: Acetamidase/Formamidase-likeT: Acetamidase/Formamidase-likeF: vATP-synt_EECOD (v294.1)
Ie3j0jI1 A: a/b three-layered sandwichesX: Lipocalins/StreptavidinH: RIFT-relatedT: acid proteaseF:ECOD (v294.1)
KSigma70_r2,Sigma70_nere3j0jK1 A: a/b three-layered sandwichesX: Lipocalins/StreptavidinH: SAM/DNA-glycosylaseT: SAM domain-likeF: Sigma70_r2,Sigma70_nerECOD (v294.1)
HMHC_Ie3j0jH1 A: a/b three-layered sandwichesX: MHC antigen-recognition domainH: MHC antigen-recognition domainT: MHC antigen-recognition domainF: MHC_IECOD (v294.1)
DWD40, eIF2A, Beta-prop_WDR5e3j0jD1 A: a/b three-layered sandwichesX: Lipocalins/StreptavidinH: Zn-dependent exopeptidasesT: Zn-dependent exopeptidasesF: WD40, eIF2A, Beta-prop_WDR5ECOD (v294.1)
DV-sete3j0jD4 A: a/b three-layered sandwichesX: Subtilisin-likeH: Subtilisin-likeT: Subtilisin-likeF: V-setECOD (v294.1)
EWD40, eIF2A, Beta-prop_WDR5e3j0jE1 A: a/b three-layered sandwichesX: Lipocalins/StreptavidinH: Zn-dependent exopeptidasesT: Zn-dependent exopeptidasesF: WD40, eIF2A, Beta-prop_WDR5ECOD (v294.1)
EV-sete3j0jE4 A: a/b three-layered sandwichesX: Subtilisin-likeH: Subtilisin-likeT: Subtilisin-likeF: V-setECOD (v294.1)
FWD40, eIF2A, Beta-prop_WDR5e3j0jF1 A: a/b three-layered sandwichesX: Lipocalins/StreptavidinH: Zn-dependent exopeptidasesT: Zn-dependent exopeptidasesF: WD40, eIF2A, Beta-prop_WDR5ECOD (v294.1)
FV-sete3j0jF4 A: a/b three-layered sandwichesX: Subtilisin-likeH: Subtilisin-likeT: Subtilisin-likeF: V-setECOD (v294.1)
ATHUMPe3j0jA1 A: a/b three-layered sandwichesX: Transmembrane heme-binding four-helical bundleH: P-loop domains-relatedT: P-loop containing nucleoside triphosphate hydrolasesF: THUMPECOD (v294.1)
BTHUMPe3j0jB1 A: a/b three-layered sandwichesX: Transmembrane heme-binding four-helical bundleH: P-loop domains-relatedT: P-loop containing nucleoside triphosphate hydrolasesF: THUMPECOD (v294.1)
CTHUMPe3j0jC1 A: a/b three-layered sandwichesX: Transmembrane heme-binding four-helical bundleH: P-loop domains-relatedT: P-loop containing nucleoside triphosphate hydrolasesF: THUMPECOD (v294.1)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
PF01813ATP synthase subunit D (ATP-synt_D)ATP synthase subunit D- Family
PF01992ATP synthase (C/AC39) subunit (vATP-synt_AC39)ATP synthase (C/AC39) subunit- Family
J, L
PF01991ATP synthase (E/31 kDa) subunit (vATP-synt_E)ATP synthase (E/31 kDa) subunit- Family
PF01990ATP synthase (F/14-kDa) subunit (ATP-synt_F)ATP synthase (F/14-kDa) subunit- Family
D, E, 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
D, E, 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
D, E, 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
A, B, C
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
A, B, C
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
A, B, C
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
A, B, C
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

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
V-type ATP synthase subunit D -
V-type ATP synthase subunit C
J, L
V-type ATP synthase subunit E
I, K
V-type ATP synthase, subunit (VAPC-THERM) - -
V-type ATP synthase subunit F -
D, E, F
V-type ATP synthase beta chain -
A, B, C
V-type ATP synthase alpha chain

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
IPR002699ATPase, V1 complex, subunit DFamily
IPR044911V-type ATP synthase C/D subunit, domain 3 superfamilyHomologous Superfamily
IPR002843ATPase, V0 complex, C/D subunitFamily
IPR014272ATPase, V0 complex, C subunitFamily
IPR050873V-ATPase V0D/AC39 subunitFamily
IPR036079V-type ATP synthase subunit C/D subunit superfamilyHomologous Superfamily
IPR035067V-type ATPase subunit C/DHomologous Superfamily
J, L
IPR002842V-type ATPase subunit EFamily
J, L
IPR038495V-type ATPase subunit E, C-terminal domain superfamilyHomologous Superfamily
IPR022944ATPase, V1 complex, subunit F, bacterial/archaealFamily
IPR036906ATPase, V1 complex, subunit F superfamilyHomologous Superfamily
IPR008218ATPase, V1 complex, subunit FFamily
D, E, F
IPR020003ATPase, alpha/beta subunit, nucleotide-binding domain, active siteActive Site
D, E, F
IPR000194ATPase, F1/V1/A1 complex, alpha/beta subunit, nucleotide-binding domainDomain
D, E, F
IPR055190ATP synthase A/B type, C-terminal domainDomain
D, E, F
IPR004100ATPase, F1/V1/A1 complex, alpha/beta subunit, N-terminal domainDomain
D, E, F
IPR022879V-type ATP synthase regulatory subunit B/betaFamily
D, E, F
IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily
A, B, C
IPR004100ATPase, F1/V1/A1 complex, alpha/beta subunit, N-terminal domainDomain
A, B, C
IPR022878V-type ATP synthase catalytic alpha chainFamily
A, B, C
IPR024034ATPase, F1/V1 complex, beta/alpha subunit, C-terminalHomologous Superfamily
A, B, C
IPR036121ATPase, F1/V1/A1 complex, alpha/beta subunit, N-terminal domain superfamilyHomologous Superfamily
A, B, C
IPR031686ATPsynthase alpha/beta subunit, barrel-sandwich domainDomain
A, B, C
IPR023366ATP synthase subunit alpha, N-terminal domain-like superfamilyHomologous Superfamily
A, B, C
IPR020003ATPase, alpha/beta subunit, nucleotide-binding domain, active siteActive Site
A, B, C
IPR000194ATPase, F1/V1/A1 complex, alpha/beta subunit, nucleotide-binding domainDomain
A, B, C
IPR055190ATP synthase A/B type, C-terminal domainDomain
A, B, C
IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily