6K7L | pdb_00006k7l

Cryo-EM structure of the human P4-type flippase ATP8A1-CDC50 (E2P state class2)

External Resource: Annotation

Domain Annotation: ECOD Classification
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: MemProtMD
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)
A		e6k7lA1	A: Nat/Ivy	X: Acyl-CoA N-acyltransferases (Nat)	H: Acyl-CoA N-acyltransferases (Nat)	T: SRP54_N	F:	ECOD (20:10:01)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B [auth C]	PF03381	LEM3 (ligand-effect modulator 3) family / CDC50 family (CDC50)	LEM3 (ligand-effect modulator 3) family / CDC50 family	-	Family
A	PF16209	Phospholipid-translocating ATPase N-terminal (PhoLip_ATPase_N)	Phospholipid-translocating ATPase N-terminal	-	Family
A	PF16212	Phospholipid-translocating P-type ATPase C-terminal (PhoLip_ATPase_C)	Phospholipid-translocating P-type ATPase C-terminal	-	Family
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]	Cell cycle control protein 50A	structural molecule activity aminophospholipid flippase activity lipid transporter activity ATPase-coupled intramembrane lipid transporter activity flippase activity intramembrane lipid transporter activity transporter activity phospholipid transporter activity ATP-dependent activity	localization nitrogen compound transport transport macromolecule localization phospholipid transport lipid localization aminophospholipid transport lipid transport establishment of localization organophosphate ester transport regulation of neuron projection development multicellular organismal process regulation of cellular component organization regulation of cellular process localization nitrogen compound transport transport macromolecule localization phospholipid transport lipid localization aminophospholipid transport lipid transport establishment of localization organophosphate ester transport regulation of neuron projection development multicellular organismal process regulation of cellular component organization regulation of cellular process positive regulation of cellular component organization cellular developmental process cell projection organization positive regulation of biological process cell development neuron projection development cellular component organization neurogenesis multicellular organism development neuron differentiation positive regulation of neuron projection development cell differentiation anatomical structure development positive regulation of cell projection organization cellular component organization or biogenesis positive regulation of cellular process system development developmental process regulation of biological process plasma membrane bounded cell projection organization regulation of cell projection organization biological regulation nervous system development generation of neurons neuron development cellular process regulation of plasma membrane bounded cell projection organization regulation of localization regulation of phospholipid transport phospholipid translocation regulation of lipid transport regulation of biological quality membrane organization regulation of transport regulation of phospholipid translocation positive regulation of lipid localization lipid translocation regulation of membrane lipid distribution positive regulation of phospholipid translocation positive regulation of lipid transport positive regulation of transport regulation of lipid localization positive regulation of phospholipid transport protein localization to endosome protein localization to organelle intracellular protein localization transmembrane transport xenobiotic transmembrane transport xenobiotic transport regulation of protein exit from endoplasmic reticulum protein exit from endoplasmic reticulum establishment of protein localization cellular localization regulation of protein localization positive regulation of establishment of protein localization positive regulation of protein transport establishment of localization in cell positive regulation of intracellular transport regulation of intracellular transport regulation of establishment of protein localization intracellular transport regulation of protein transport positive regulation of protein exit from endoplasmic reticulum protein transport regulation of cellular localization positive regulation of protein localization regulation of intracellular protein transport positive regulation of intracellular protein transport intracellular protein transport	membrane-bounded organelle intracellular anatomical structure membrane intracellular vesicle intracellular membrane-bounded organelle endomembrane system specific granule membrane intracellular organelle cytoplasmic vesicle membrane cellular anatomical structure bounding membrane of organelle vesicle membrane cytoplasmic vesicle organelle membrane-bounded organelle intracellular anatomical structure membrane intracellular vesicle intracellular membrane-bounded organelle endomembrane system specific granule membrane intracellular organelle cytoplasmic vesicle membrane cellular anatomical structure bounding membrane of organelle vesicle membrane cytoplasmic vesicle organelle secretory granule secretory vesicle cytoplasm vesicle organelle membrane secretory granule membrane specific granule Golgi apparatus cell periphery apical part of cell plasma membrane plasma membrane region apical plasma membrane endosome membrane early endosome endosome early endosome membrane lytic vacuole lysosome vacuolar membrane azurophil granule vacuole lytic vacuole membrane lysosomal membrane primary lysosome azurophil granule membrane phospholipid-translocating ATPase complex protein-containing complex transporter complex late endosome membrane late endosome transport vesicle transport vesicle membrane endoplasmic reticulum
A	Phospholipid-transporting ATPase	ATPase-coupled intramembrane lipid transporter activity lipid transporter activity intramembrane lipid transporter activity transporter activity ATP-dependent activity glycerophospholipid flippase activity phosphatidylserine flippase activity aminophospholipid flippase activity flippase activity phospholipid transporter activity monoatomic cation transmembrane transporter activity active monoatomic ion transmembrane transporter activity active transmembrane transporter activity primary active transmembrane transporter activity ATPase-coupled intramembrane lipid transporter activity lipid transporter activity intramembrane lipid transporter activity transporter activity ATP-dependent activity glycerophospholipid flippase activity phosphatidylserine flippase activity aminophospholipid flippase activity flippase activity phospholipid transporter activity monoatomic cation transmembrane transporter activity active monoatomic ion transmembrane transporter activity active transmembrane transporter activity primary active transmembrane transporter activity ATPase-coupled transmembrane transporter activity monoatomic ion transmembrane transporter activity ATPase-coupled monoatomic cation transmembrane transporter activity transmembrane transporter activity cation binding magnesium ion binding ion binding binding metal ion binding small molecule 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 phosphatidylserine floppase activity floppase 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	synaptic vesicle endocytosis import into cell cellular localization transport synaptic vesicle cycle establishment of localization vesicle-mediated transport presynaptic endocytosis vesicle-mediated transport in synapse synaptic vesicle recycling localization establishment of localization in cell cellular process endocytosis synaptic vesicle endocytosis import into cell cellular localization transport synaptic vesicle cycle establishment of localization vesicle-mediated transport presynaptic endocytosis vesicle-mediated transport in synapse synaptic vesicle recycling localization establishment of localization in cell cellular process endocytosis behavior multicellular organismal process system process learning learning or memory nervous system process cognition regulation of localization regulation of phospholipid transport positive regulation of cellular component organization regulation of cellular process regulation of cellular component organization phospholipid translocation positive regulation of biological process phospholipid transport regulation of lipid transport cellular component organization cellular component organization or biogenesis regulation of biological quality positive regulation of cellular process membrane organization regulation of biological process regulation of transport biological regulation lipid localization regulation of phospholipid translocation lipid transport positive regulation of lipid localization lipid translocation regulation of membrane lipid distribution positive regulation of phospholipid translocation positive regulation of lipid transport positive regulation of transport regulation of lipid localization macromolecule localization positive regulation of phospholipid transport organophosphate ester transport transmembrane transport monoatomic ion transmembrane transport monoatomic ion transport nitrogen compound transport aminophospholipid translocation aminophospholipid transport positive regulation of locomotion regulation of cell motility positive regulation of cell migration regulation of locomotion positive regulation of cell motility regulation of cell migration cell migration cell motility locomotion circulatory system process vascular process in circulatory system vascular transport transport across blood-brain barrier	membrane-bounded organelle intracellular anatomical structure membrane intracellular vesicle intracellular membrane-bounded organelle endomembrane system specific granule membrane intracellular organelle cytoplasmic vesicle membrane cellular anatomical structure bounding membrane of organelle vesicle membrane cytoplasmic vesicle organelle membrane-bounded organelle intracellular anatomical structure membrane intracellular vesicle intracellular membrane-bounded organelle endomembrane system specific granule membrane intracellular organelle cytoplasmic vesicle membrane cellular anatomical structure bounding membrane of organelle vesicle membrane cytoplasmic vesicle organelle secretory granule secretory vesicle cytoplasm vesicle organelle membrane secretory granule membrane specific granule extracellular exosome extracellular vesicle extracellular organelle extracellular region extracellular space extracellular membrane-bounded organelle lytic vacuole lysosome vacuolar membrane azurophil granule vacuole lytic vacuole membrane lysosomal membrane primary lysosome azurophil granule membrane cytosol cell periphery plasma membrane phospholipid-translocating ATPase complex protein-containing complex transporter complex synapse cell junction glutamatergic synapse Golgi apparatus subcompartment Golgi apparatus organelle subcompartment trans-Golgi network transport vesicle membrane presynapse synaptic vesicle synaptic vesicle membrane transport vesicle exocytic vesicle membrane exocytic vesicle chromaffin granule membrane chromaffin granule endoplasmic reticulum

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B [auth C]	IPR005045	CDC50/LEM3 family	Family
A	IPR001757	P-type ATPase	Family
A	IPR044492	P-type ATPase, haloacid dehalogenase domain	Domain
A	IPR006539	P-type ATPase, subfamily IV	Family
A	IPR018303	P-type ATPase, phosphorylation site	PTM
A	IPR059000	P-type ATPase, A domain	Domain
A	IPR023298	P-type ATPase, transmembrane domain superfamily	Homologous Superfamily
A	IPR032631	P-type ATPase, N-terminal	Domain
A	IPR023214	HAD superfamily	Homologous Superfamily
A	IPR008250	P-type ATPase, A domain superfamily	Homologous Superfamily
A	IPR036412	HAD-like superfamily	Homologous Superfamily
A	IPR032630	P-type ATPase, C-terminal	Domain
A	IPR023299	P-type ATPase, cytoplasmic domain N	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
B [auth C]	Pharos: Q9NV96	progressive supranuclear palsy Alzheimer disease Crohn disease hereditary spastic paraplegia large cell medulloblastoma oligodendroglioma pancreatic ductal adenocarcinoma plasma cell myeloma psoriasis atypical teratoid rhabdoid tumor diabetes mellitus IgA glomerulonephritis lung cancer osteosarcoma Pick disease progressive supranuclear palsy Alzheimer disease Crohn disease hereditary spastic paraplegia large cell medulloblastoma oligodendroglioma pancreatic ductal adenocarcinoma plasma cell myeloma psoriasis atypical teratoid rhabdoid tumor diabetes mellitus IgA glomerulonephritis lung cancer osteosarcoma Pick disease polycystic ovary syndrome breast cancer glioblastoma juvenile dermatomyositis myopathy ovarian cancer pilocytic astrocytoma
A	Pharos: Q9Y2Q0	pituitary cancer psoriasis adrenal cortex carcinoma breast cancer large cell medulloblastoma lymphoplasmacytic lymphoma medulloblastoma osteosarcoma Pick disease primitive neuroectodermal tumor Sjogren syndrome astrocytic tumor glioblastoma limb-girdle muscular dystrophy malignant ependymoma pituitary cancer psoriasis adrenal cortex carcinoma breast cancer large cell medulloblastoma lymphoplasmacytic lymphoma medulloblastoma osteosarcoma Pick disease primitive neuroectodermal tumor Sjogren syndrome astrocytic tumor glioblastoma limb-girdle muscular dystrophy malignant ependymoma non-small cell lung carcinoma ovarian cancer pilocytic astrocytoma progressive supranuclear palsy ulcerative colitis atypical teratoid rhabdoid tumor hereditary spastic paraplegia lung cancer malignant glioma oligodendroglioma pancreatic intraductal papillary-mucinous carcinoma

Membrane Protein Annotation: OPM OPM Database Homepage

Chains	External Link	Type	Class	Superfamily	Family
A, B [auth C]	OPM	Transmembrane	Alpha-helical polytopic	P-type ATPase (P-ATPase)	P-ATPase

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

Chains	External Link	Comment
A, B [auth C]	PDBTM	Annotated as membrane protein by PDBTM

Membrane Protein Annotation: MemProtMD MemProtMD Database Homepage

Chains	External Link	Comment
A, B [auth C]	MemProtMD	Annotated as membrane protein by MemProtMD

Membrane Protein Annotation: mpstruc mpstruc Database Homepage

Chains	Resource Link	Group	Subgroup	Protein
A, B [auth C]	mpstruc	TRANSMEMBRANE PROTEINS: ALPHA-HELICAL	P-type ATPase	P4-ATPase lipid flippase ATP8A1-CDC50 in all states, E1 state class1

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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.

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