9CF8 | pdb_00009cf8

Cryo-EM structure of human kidney V-ATPase state 1

External Resource: Annotation


Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
Y [auth Q]WD40e9cf8Q1 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: acid proteaseF: WD40ECOD (v294.2)
X [auth N]WD40e9cf8N1 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: acid proteaseF: WD40ECOD (v294.2)
W [auth M]WD40e9cf8M1 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: acid proteaseF: WD40ECOD (v294.2)
V [auth L]WD40e9cf8L1 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: acid proteaseF: WD40ECOD (v294.2)
U [auth K]WD40e9cf8K1 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: acid proteaseF: WD40ECOD (v294.2)
T [auth J]WD40e9cf8J1 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: acid proteaseF: WD40ECOD (v294.2)
S [auth I]WD40e9cf8I1 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: acid proteaseF: WD40ECOD (v294.2)
R [auth H]WD40e9cf8H1 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: acid proteaseF: WD40ECOD (v294.2)
Q [auth G]WD40e9cf8G1 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: acid proteaseF: WD40ECOD (v294.2)
P [auth F]WD40e9cf8F1 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: acid proteaseF: WD40ECOD (v294.2)
O [auth E]WD40e9cf8E1 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: acid proteaseF: WD40ECOD (v294.2)
N [auth D]WD40e9cf8D1 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: acid proteaseF: WD40ECOD (v294.2)
M [auth C]WD40e9cf8C1 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: acid proteaseF: WD40ECOD (v294.2)
L [auth B]WD40e9cf8B1 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: acid proteaseF: WD40ECOD (v294.2)
K [auth A]WD40e9cf8A1 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: acid proteaseF: WD40ECOD (v294.2)
J [auth 9]WD40e9cf891 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: acid proteaseF: WD40ECOD (v294.2)
I [auth 8]WD40e9cf881 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: acid proteaseF: WD40ECOD (v294.2)
H [auth 7]WD40e9cf871 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: acid proteaseF: WD40ECOD (v294.2)
G [auth 6]WD40e9cf861 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: acid proteaseF: WD40ECOD (v294.2)
F [auth 5]WD40e9cf851 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: acid proteaseF: WD40ECOD (v294.2)
E [auth 4]WD40e9cf841 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: acid proteaseF: WD40ECOD (v294.2)
D [auth 3]WD40e9cf831 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: acid proteaseF: WD40ECOD (v294.2)
C [auth 2]WD40e9cf821 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: acid proteaseF: WD40ECOD (v294.2)
B [auth 1]WD40e9cf811 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: acid proteaseF: WD40ECOD (v294.2)
Z [auth R]WD40e9cf8R1 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: acid proteaseF: WD40ECOD (v294.2)
A [auth 0]WD40e9cf801 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: acid proteaseF: WD40ECOD (v294.2)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
Y [auth Q]PF01992ATP synthase (C/AC39) subunit (vATP-synt_AC39)ATP synthase (C/AC39) subunit- Family
X [auth N]PF01990ATP synthase (F/14-kDa) subunit (ATP-synt_F)ATP synthase (F/14-kDa) subunit- Family
U [auth K],
V [auth L],
W [auth M]		PF03179Vacuolar (H+)-ATPase G subunit (V-ATPase_G)Vacuolar (H+)-ATPase G subunit- Coiled-coil
R [auth H],
S [auth I],
T [auth J]		PF01991ATP synthase (E/31 kDa) subunit (vATP-synt_E)ATP synthase (E/31 kDa) subunit- Family
Q [auth G]PF01813ATP synthase subunit D (ATP-synt_D)ATP synthase subunit D- Family
N [auth D],
O [auth E],
P [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
N [auth D],
O [auth E],
P [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
N [auth D],
O [auth E],
P [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
K [auth A],
L [auth B],
M [auth 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
K [auth A],
L [auth B],
M [auth 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
K [auth A],
L [auth B],
M [auth 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
K [auth A],
L [auth B],
M [auth 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
PF00137ATP synthase subunit C (ATP-synt_C)ATP synthase subunit CThis 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
CA [auth U]PF05827V-type proton ATPase subunit S1, luminal domain (VAS1_LD)V-type proton ATPase subunit S1, luminal domainThis entry represents the luminal domain (LD) found in eukaryotic V-type proton ATPase subunit S1 involved in V-ATPase V0 assembly, including Ac45 subunit (ATP6AP1) [1,2]. This domain folds as a globular beta-prism structure which is structurally sim ...This entry represents the luminal domain (LD) found in eukaryotic V-type proton ATPase subunit S1 involved in V-ATPase V0 assembly, including Ac45 subunit (ATP6AP1) [1,2]. This domain folds as a globular beta-prism structure which is structurally similar to LAMP1-3, thus, the LD domain of Ac45 is an evolutionarily conserved member of the LAMP family [2]. Ac45 is an ER membrane protein that guides the V-type ATPase into specialised subcellular compartments [3] and is critical for Vo complex assembly as it connects to multiple Vo subunits and phospholipids in the c-ring [2]. Missense mutations in the X-linked ATP6AP1 gene cause immunodeficiency in males that leads to recurrent bacterial infection, hepatopathy, cognitive impairment, and abnormal protein glycosylation [2].
Domain
CA [auth U]PF20520V0 complex accessory subunit Ac45/VOA1 transmembrane domain (Ac45-VOA1_TM)V0 complex accessory subunit Ac45/VOA1 transmembrane domainThis entry represents the transmembrane domain from ER/Golgi membrane proteins including V0 complex accessory subunit Ac45 (ATP6AP1, also known as V-type proton ATPase subunit S1) from animals and the yeast homologue V0 assembly protein 1 (VOA1) whic ...This entry represents the transmembrane domain from ER/Golgi membrane proteins including V0 complex accessory subunit Ac45 (ATP6AP1, also known as V-type proton ATPase subunit S1) from animals and the yeast homologue V0 assembly protein 1 (VOA1) which are essential for V0 ATPase assembly, stability and function [1,2]. In humans, mutations of ATP6AP1 cause immunodeficiency with hypogammaglobulinemia, hepatopathy and neurocognitive abnormalities [3]. This entry also includes ER membrane BIG1 proteins from yeast, involved in cell wall biogenesis.
Domain
AA [auth S]PF05493ATP synthase subunit H (ATP_synt_H)ATP synthase subunit H- Family
Z [auth R]PF01496V-type ATPase 116kDa subunit family (V_ATPase_I)V-type ATPase 116kDa subunit family- Family
A [auth 0]PF00137ATP synthase subunit C (ATP-synt_C)ATP synthase subunit CThis 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

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
Y [auth Q]V-type proton ATPase subunit d 1
X [auth N]V-type proton ATPase subunit F
U [auth K],
V [auth L],
W [auth M]		V-type proton ATPase subunit G 1
R [auth H],
S [auth I],
T [auth J]		V-type proton ATPase subunit E 1
Q [auth G]V-type proton ATPase subunit D
N [auth D],
O [auth E],
P [auth F]		V-type proton ATPase subunit B, brain isoform
K [auth A],
L [auth B],
M [auth C]		V-type proton ATPase catalytic subunit A
V-type proton ATPase 16 kDa proteolipid subunit
DA [auth V]Renin receptor
CA [auth U]V-type proton ATPase subunit S1
BA [auth T]Ribonuclease kappa
AA [auth S]V-type proton ATPase subunit e 1
Z [auth R]V-type proton ATPase 116 kDa subunit a isoform 1
A [auth 0]V-type proton ATPase 21 kDa proteolipid subunit

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
Y [auth Q]IPR044911V-type ATP synthase C/D subunit, domain 3 superfamilyHomologous Superfamily
Y [auth Q]IPR036079V-type ATP synthase subunit C/D subunit superfamilyHomologous Superfamily
Y [auth Q]IPR035067V-type ATPase subunit C/DHomologous Superfamily
Y [auth Q]IPR002843ATPase, V0 complex, C/D subunitFamily
Y [auth Q]IPR016727ATPase, V0 complex, subunit DFamily
X [auth N]IPR008218ATPase, V1 complex, subunit FFamily
X [auth N]IPR036906ATPase, V1 complex, subunit F superfamilyHomologous Superfamily
X [auth N]IPR005772ATPase, V1 complex, subunit F, eukaryoticFamily
U [auth K],
V [auth L],
W [auth M]		IPR005124Vacuolar (H+)-ATPase G subunitFamily
R [auth H],
S [auth I],
T [auth J]		IPR038495V-type ATPase subunit E, C-terminal domain superfamilyHomologous Superfamily
R [auth H],
S [auth I],
T [auth J]		IPR002842V-type ATPase subunit EFamily
Q [auth G]IPR002699ATPase, V1 complex, subunit DFamily
N [auth D],
O [auth E],
P [auth F]		IPR000194ATPase, F1/V1/A1 complex, alpha/beta subunit, nucleotide-binding domainDomain
N [auth D],
O [auth E],
P [auth F]		IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily
N [auth D],
O [auth E],
P [auth F]		IPR004100ATPase, F1/V1/A1 complex, alpha/beta subunit, N-terminal domainDomain
N [auth D],
O [auth E],
P [auth F]		IPR005723ATPase, V1 complex, subunit BFamily
N [auth D],
O [auth E],
P [auth F]		IPR022879V-type ATP synthase regulatory subunit B/betaFamily
N [auth D],
O [auth E],
P [auth F]		IPR020003ATPase, alpha/beta subunit, nucleotide-binding domain, active siteActive Site
N [auth D],
O [auth E],
P [auth F]		IPR055190ATP synthase A/B type, C-terminal domainDomain
K [auth A],
L [auth B],
M [auth C]		IPR022878V-type ATP synthase catalytic alpha chainFamily
K [auth A],
L [auth B],
M [auth C]		IPR024034ATPase, F1/V1 complex, beta/alpha subunit, C-terminalHomologous Superfamily
K [auth A],
L [auth B],
M [auth C]		IPR036121ATPase, F1/V1/A1 complex, alpha/beta subunit, N-terminal domain superfamilyHomologous Superfamily
K [auth A],
L [auth B],
M [auth C]		IPR031686ATPsynthase alpha/beta subunit, barrel-sandwich domainDomain
K [auth A],
L [auth B],
M [auth C]		IPR000194ATPase, F1/V1/A1 complex, alpha/beta subunit, nucleotide-binding domainDomain
K [auth A],
L [auth B],
M [auth C]		IPR005725ATPase, V1 complex, subunit AFamily
K [auth A],
L [auth B],
M [auth C]		IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily
K [auth A],
L [auth B],
M [auth C]		IPR004100ATPase, F1/V1/A1 complex, alpha/beta subunit, N-terminal domainDomain
K [auth A],
L [auth B],
M [auth C]		IPR023366ATP synthase subunit alpha, N-terminal domain-like superfamilyHomologous Superfamily
K [auth A],
L [auth B],
M [auth C]		IPR020003ATPase, alpha/beta subunit, nucleotide-binding domain, active siteActive Site
K [auth A],
L [auth B],
M [auth C]		IPR055190ATP synthase A/B type, C-terminal domainDomain
IPR011555V-ATPase proteolipid subunit C, eukaryoticFamily
IPR035921F/V-ATP synthase subunit C superfamilyHomologous Superfamily
IPR002379V-ATPase proteolipid subunit C-like domainDomain
IPR000245V-ATPase proteolipid subunitFamily
DA [auth V]IPR056780Renin receptor-like, C-terminal transmembrane spanning segmentDomain
DA [auth V]IPR012493Renin receptor-likeFamily
DA [auth V]IPR057318Renin receptor, N-terminal domainDomain
CA [auth U]IPR046755V-type proton ATPase subunit S1, luminal domainDomain
CA [auth U]IPR008388V0 complex accessory subunit Ac45Family
CA [auth U]IPR046756V-type proton ATPase subunit S1/VOA1, transmembrane domainDomain
BA [auth T]IPR056552Ribonucl_KappaUnknown
BA [auth T]IPR026770Ribonuclease kappaFamily
AA [auth S]IPR017385ATPase, V0 complex, subunit e1/e2, metazoaFamily
AA [auth S]IPR008389ATPase, V0 complex, subunit e1/e2Family
Z [auth R]IPR026028ATPase, V0 complex, subunit 116kDa, eukaryoticFamily
Z [auth R]IPR002490V-type ATPase, V0 complex, 116kDa subunit familyFamily
A [auth 0]IPR035921F/V-ATP synthase subunit C superfamilyHomologous Superfamily
A [auth 0]IPR002379V-ATPase proteolipid subunit C-like domainDomain
A [auth 0]IPR000245V-ATPase proteolipid subunitFamily

Pharos: Disease Associations Pharos Homepage Annotation

ChainsDrug Target  Associated Disease
Y [auth Q]:  P61421
X [auth N]:  Q16864
U [auth K],
V [auth L],
W [auth M]		:  O75348
R [auth H],
S [auth I],
T [auth J]		:  P36543
Q [auth G]:  Q9Y5K8
N [auth D],
O [auth E],
P [auth F]		:  P21281
K [auth A],
L [auth B],
M [auth C]		:  P38606
DA [auth V]:  O75787
CA [auth U]:  Q15904
AA [auth S]:  O15342
Z [auth R]:  Q93050
A [auth 0]:  Q99437