7YAG | pdb_00007yag

CryoEM structure of SPCA1a in E1-Ca-AMPPCP state subclass 1

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
SAbDab Antibody Annotation
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations
Membrane Protein Annotation: OPM
Membrane Protein Annotation: PDBTM
Membrane Protein Annotation: mpstruc

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
B [auth C]	F_UNCLASSIFIED	e7yagC1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: F_UNCLASSIFIED	ECOD (1.6)
A	F_UNCLASSIFIED	e7yagA3	A: beta sandwiches	X: jelly-roll	H: Calcium ATPase, transduction domain A (From Topology)	T: Calcium ATPase, transduction domain A	F: F_UNCLASSIFIED	ECOD (1.6)
A	F_UNCLASSIFIED	e7yagA4	A: alpha bundles	X: Calcium ATPase transmembrane domain-related (From Homology)	H: Calcium ATPase transmembrane domain-related	T: Calcium ATPase transmembrane domain M	F: F_UNCLASSIFIED	ECOD (1.6)
A	F_UNCLASSIFIED	e7yagA2	A: a+b complex topology	X: Metal cation-transporting ATPase, ATP-binding domain (From Topology)	H: Metal cation-transporting ATPase, ATP-binding domain (From Topology)	T: Metal cation-transporting ATPase, ATP-binding domain	F: F_UNCLASSIFIED	ECOD (1.6)
A	F_UNCLASSIFIED	e7yagA1	A: a/b three-layered sandwiches	X: HAD domain-like	H: HAD domain-related	T: HAD-like	F: F_UNCLASSIFIED	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B [auth C]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
B [auth C]	Heavy Chain	IGHV1	-	calcium-transporting atpase type 2c member 1	SAbDab (2025-12-19)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF00689	Cation transporting ATPase, C-terminus (Cation_ATPase_C)	Cation transporting ATPase, C-terminus	-	Family
A	PF00690	Cation transporter/ATPase, N-terminus (Cation_ATPase_N)	Cation transporter/ATPase, N-terminus	Members of this families are involved in Na+/K+, H+/K+, Ca++ and Mg++ transport.	Domain
A	PF00122	P-type ATPase actuator domain (E1-E2_ATPase)	P-type ATPase actuator domain	This entry describes the actuator (A) domain found in P-type ATPases (also known as E1-E2 ATPases). The A domain serves as a built-in protein phosphatase that functions to dephosphorylate the phosphorylated P domain. The A domain is the smallest of t ...	This entry describes the actuator (A) domain found in P-type ATPases (also known as E1-E2 ATPases). The A domain serves as a built-in protein phosphatase that functions to dephosphorylate the phosphorylated P domain. The A domain is the smallest of the three cytoplasmic domains. It consists of a distorted jellyroll structure and two short helices [1-2].	Domain
A	PF13246	P-type ATPase, cytoplasmic domain N (Cation_ATPase)	P-type ATPase, cytoplasmic domain N	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B [auth C]	nanobody head piece of megabody	-	-	-
A	Calcium-transporting ATPase type 2C member 1	cation binding ion binding binding calcium ion binding metal ion binding small molecule binding manganese ion binding transition metal ion binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding purine nucleotide binding cation binding ion binding binding calcium ion binding metal ion binding small molecule binding manganese ion binding transition metal ion binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding P-type manganese transporter activity monoatomic cation transmembrane transporter activity P-type transmembrane transporter activity primary active transmembrane transporter activity ATPase-coupled transmembrane transporter activity ATPase-coupled monoatomic cation transmembrane transporter activity ATP-dependent activity P-type ion transporter activity active monoatomic ion transmembrane transporter activity active transmembrane transporter activity manganese ion transmembrane transporter activity monoatomic ion transmembrane transporter activity transporter activity transition metal ion transmembrane transporter activity metal ion transmembrane transporter activity transmembrane transporter activity pyrophosphatase activity ATP hydrolysis activity ribonucleoside triphosphate phosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides catalytic activity P-type calcium transporter activity calcium ion transmembrane transporter activity	positive regulation of protein localization to plasma membrane regulation of localization Golgi to plasma membrane transport establishment of protein localization cellular localization nitrogen compound transport regulation of cellular process post-Golgi vesicle-mediated transport regulation of protein localization transport positive regulation of biological process establishment of protein localization to plasma membrane positive regulation of establishment of protein localization Golgi to plasma membrane protein transport vesicle-mediated transport positive regulation of protein localization to plasma membrane regulation of localization Golgi to plasma membrane transport establishment of protein localization cellular localization nitrogen compound transport regulation of cellular process post-Golgi vesicle-mediated transport regulation of protein localization transport positive regulation of biological process establishment of protein localization to plasma membrane positive regulation of establishment of protein localization Golgi to plasma membrane protein transport vesicle-mediated transport positive regulation of protein transport localization intracellular protein localization regulation of protein localization to membrane positive regulation of cellular process positive regulation of protein localization to cell periphery positive regulation of Golgi to plasma membrane protein transport regulation of biological process protein localization to cell periphery regulation of transport protein localization to plasma membrane establishment of protein localization to membrane biological regulation regulation of establishment of protein localization positive regulation of protein localization to membrane regulation of protein transport regulation of protein localization to cell periphery localization within membrane protein localization to membrane regulation of vesicle-mediated transport establishment of localization vesicle-mediated transport to the plasma membrane positive regulation of transport regulation of Golgi to plasma membrane protein transport protein transport regulation of cellular localization macromolecule localization positive regulation of protein localization cellular process regulation of protein localization to plasma membrane Golgi vesicle transport cellular response to stimulus positive regulation of cell communication positive regulation of signal transduction positive regulation of canonical NF-kappaB signal transduction response to stimulus signaling regulation of signal transduction intracellular signal transduction cell communication positive regulation of response to stimulus regulation of intracellular signal transduction intracellular signaling cassette signal transduction regulation of signaling positive regulation of intracellular signal transduction canonical NF-kappaB signal transduction regulation of response to stimulus regulation of cell communication regulation of canonical NF-kappaB signal transduction positive regulation of signaling inorganic ion homeostasis homeostatic process manganese ion homeostasis intracellular manganese ion homeostasis cellular homeostasis chemical homeostasis intracellular monoatomic cation homeostasis monoatomic ion homeostasis intracellular chemical homeostasis monoatomic cation homeostasis intracellular monoatomic ion homeostasis developmental process epidermis development anatomical structure development tissue development intracellular calcium ion homeostasis calcium ion homeostasis cellular component organization organelle organization actin cytoskeleton organization actin filament-based process cellular component organization or biogenesis cytoskeleton organization monoatomic ion transmembrane transport calcium ion transport metal ion transport monoatomic cation transmembrane transport transmembrane transport monoatomic ion transport monoatomic cation transport calcium ion transmembrane transport manganese ion transport transition metal ion transport cell adhesion cell-cell adhesion calcium-dependent cell-cell adhesion membrane organization trans-Golgi network membrane organization Golgi calcium ion transport Golgi calcium ion homeostasis	membrane-bounded organelle intracellular anatomical structure cis-Golgi network membrane Golgi apparatus membrane intracellular membrane-bounded organelle endomembrane system intracellular organelle cellular anatomical structure bounding membrane of organelle cis-Golgi network organelle cytoplasm organelle membrane membrane-bounded organelle intracellular anatomical structure cis-Golgi network membrane Golgi apparatus membrane intracellular membrane-bounded organelle endomembrane system intracellular organelle cellular anatomical structure bounding membrane of organelle cis-Golgi network organelle cytoplasm organelle membrane Golgi cisterna membrane Golgi apparatus subcompartment organelle subcompartment Golgi cisterna Golgi stack cell periphery plasma membrane trans-Golgi network Golgi membrane endoplasmic reticulum

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR004014	Cation-transporting P-type ATPase, N-terminal	Domain
A	IPR001757	P-type ATPase	Family
A	IPR044492	P-type ATPase, haloacid dehalogenase domain	Domain
A	IPR006068	Cation-transporting P-type ATPase, C-terminal	Domain
A	IPR018303	P-type ATPase, phosphorylation site	PTM
A	IPR023298	P-type ATPase, transmembrane domain superfamily	Homologous Superfamily
A	IPR023214	HAD superfamily	Homologous Superfamily
A	IPR008250	P-type ATPase, A domain superfamily	Homologous Superfamily
A	IPR036412	HAD-like superfamily	Homologous Superfamily
A	IPR023299	P-type ATPase, cytoplasmic domain N	Homologous Superfamily
A	IPR006413	P-type ATPase, subfamily IIA, PMR1-type	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: P98194	Hailey-Hailey disease pemphigus restless legs syndrome acute myeloid leukemia Crohn disease large cell medulloblastoma medulloblastoma ovarian cancer pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia primitive neuroectodermal tumor subependymal giant cell astrocytoma astrocytic tumor glioblastoma malignant ependymoma nasopharyngeal carcinoma Hailey-Hailey disease pemphigus restless legs syndrome acute myeloid leukemia Crohn disease large cell medulloblastoma medulloblastoma ovarian cancer pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia primitive neuroectodermal tumor subependymal giant cell astrocytoma astrocytic tumor glioblastoma malignant ependymoma nasopharyngeal carcinoma pancreatic intraductal papillary-mucinous carcinoma psoriasis ulcerative colitis atypical teratoid rhabdoid tumor malignant glioma osteosarcoma pancreatic intraductal papillary-mucinous neoplasm Pick disease

Membrane Protein Annotation: OPM OPM Database Homepage

Chains	External Link	Type	Class	Superfamily	Family
A	OPM	Transmembrane	Alpha-helical polytopic	P-type ATPase (P-ATPase)	P-ATPase

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

Chains	External Link	Comment
A	PDBTM	Annotated as membrane protein by PDBTM

Membrane Protein Annotation: mpstruc mpstruc Database Homepage

Chains	Resource Link	Group	Subgroup	Protein
A	mpstruc	TRANSMEMBRANE PROTEINS: ALPHA-HELICAL	P-type ATPase	Calcium-transporting ATPase type 2C member 1 (ATP2C1 or also called SPCA1a) in E1-Ca-AMPPCP state, subclass 1 conformation

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 R01GM157729.