3I5D

Crystal structure of the ATP-gated P2X4 ion channel in the closed, apo state at 3.5 Angstroms (R3)

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Membrane Protein Annotation: PDBTM
Membrane Protein Annotation: MemProtMD
Membrane Protein Annotation: mpstruc

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	P2X receptor-like	8053199	3002165	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	P2X receptor-like	8053199	3002165	SCOP2B (2022-06-29)
C	SCOP2 Family	P2X receptor	8048349	4006064	SCOP2 (2022-06-29)
C	SCOP2 Superfamily	P2X receptor-like	8053199	3002165	SCOP2 (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	P2X_receptor	e3i5dA1	A: beta sandwiches	X: P2X purinoceptor (From Topology)	H: P2X purinoceptor (From Topology)	T: P2X purinoceptor	F: P2X_receptor	ECOD (1.6)
B	P2X_receptor	e3i5dB1	A: beta sandwiches	X: P2X purinoceptor (From Topology)	H: P2X purinoceptor (From Topology)	T: P2X purinoceptor	F: P2X_receptor	ECOD (1.6)
C	P2X_receptor	e3i5dC1	A: beta sandwiches	X: P2X purinoceptor (From Topology)	H: P2X purinoceptor (From Topology)	T: P2X purinoceptor	F: P2X_receptor	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	1.10.287.940	Mainly Alpha	Orthogonal Bundle	Helix Hairpins	atp-gated p2x4 ion channel	CATH (4.3.0)
A	2.60.490.10	Mainly Beta	Sandwich	atp-gated p2x4 ion channel fold	atp-gated p2x4 ion channel domain	CATH (4.3.0)
B	1.10.287.940	Mainly Alpha	Orthogonal Bundle	Helix Hairpins	atp-gated p2x4 ion channel	CATH (4.3.0)
B	2.60.490.10	Mainly Beta	Sandwich	atp-gated p2x4 ion channel fold	atp-gated p2x4 ion channel domain	CATH (4.3.0)
C	1.10.287.940	Mainly Alpha	Orthogonal Bundle	Helix Hairpins	atp-gated p2x4 ion channel	CATH (4.3.0)
C	2.60.490.10	Mainly Beta	Sandwich	atp-gated p2x4 ion channel fold	atp-gated p2x4 ion channel domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C	PF00864	ATP P2X receptor (P2X_receptor)	ATP P2X receptor	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C	P2X purinoceptor	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding organic cyclic compound binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding organic cyclic compound binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding ligand-gated channel activity ligand-gated monoatomic ion channel activity passive transmembrane transporter activity gated channel activity monoatomic ion channel activity channel activity monoatomic ion transmembrane transporter activity transporter activity transmembrane transporter activity ATP-gated ion channel activity molecular transducer activity transmembrane signaling receptor activity signaling receptor activity purinergic nucleotide receptor activity nucleotide receptor activity monoatomic cation transmembrane transporter activity extracellularly ATP-gated monoatomic cation channel activity excitatory extracellular ligand-gated monoatomic ion channel activity extracellular ligand-gated monoatomic ion channel activity monoatomic cation channel activity ligand-gated monoatomic cation channel activity pyrimidine ribonucleotide binding CTP binding pyrimidine nucleotide binding identical protein binding protein binding	transport monoatomic ion transmembrane transport inorganic ion transmembrane transport establishment of localization calcium ion transport metal ion transport inorganic cation transmembrane transport transmembrane transport monoatomic cation transmembrane transport localization monoatomic ion transport cellular process monoatomic cation transport calcium ion transmembrane transport transport monoatomic ion transmembrane transport inorganic ion transmembrane transport establishment of localization calcium ion transport metal ion transport inorganic cation transmembrane transport transmembrane transport monoatomic cation transmembrane transport localization monoatomic ion transport cellular process monoatomic cation transport calcium ion transmembrane transport response to organic substance response to stimulus response to chemical response to organonitrogen compound response to organophosphorus response to oxygen-containing compound response to nitrogen compound response to ATP response to purine-containing compound response to organic cyclic compound	membrane cellular anatomical entity protein-containing complex transmembrane transporter complex membrane protein complex transporter complex cell periphery plasma membrane postsynapse synapse cell junction monoatomic ion channel complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C	IPR001429	P2X purinoreceptor	Family
A, B, C	IPR027309	P2X purinoreceptor extracellular domain superfamily	Homologous Superfamily
A, B, C	IPR003047	P2X4 purinoceptor	Family

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

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

Membrane Protein Annotation: MemProtMD MemProtMD Database Homepage

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

Membrane Protein Annotation: mpstruc mpstruc Database Homepage

Chains	Resource Link	Group	Subgroup	Protein
A, B, C	mpstruc	TRANSMEMBRANE PROTEINS: ALPHA-HELICAL	Channels: Other Ion Channels	ATP-gated P2X₄ ion channel (apo protein; ΔP2X₄-B construct)

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.