5LZQ | pdb_00005lzq

Crystal structure of Thermotoga maritima sodium pumping membrane integral pyrophosphatase in complex with imidodiphosphate and magnesium, and with bound sodium ion

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Membrane Protein Annotation: OPM
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)
B	SCOP2B Superfamily	Membrane-integral pyrophosphatase-like	8092367	3002599	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Membrane-integral pyrophosphatase-like	8092367	3002599	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
B	PG_binding_1	e5lzqB1	A: a/b three-layered sandwiches	X: Tetrapyrrole methylase C-terminal domain-like	H: Tetrapyrrole methylase C-terminal domain	T: Tetrapyrrole methylase C-terminal domain	F: PG_binding_1	ECOD (v294.1)
A	PG_binding_1	e5lzqA1	A: a/b three-layered sandwiches	X: Tetrapyrrole methylase C-terminal domain-like	H: Tetrapyrrole methylase C-terminal domain	T: Tetrapyrrole methylase C-terminal domain	F: PG_binding_1	ECOD (v294.1)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF03030	Inorganic H+ pyrophosphatase (H_PPase)	Inorganic H+ pyrophosphatase	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	K(+)-stimulated pyrophosphate-energized sodium pump	cation binding magnesium ion binding ion binding binding metal ion binding small molecule binding calcium ion binding potassium ion binding alkali metal ion binding monoatomic cation transmembrane transporter activity monoatomic ion transmembrane transporter activity transporter activity sodium ion transmembrane transporter activity metal ion transmembrane transporter activity cation binding magnesium ion binding ion binding binding metal ion binding small molecule binding calcium ion binding potassium ion binding alkali metal ion binding monoatomic cation transmembrane transporter activity monoatomic ion transmembrane transporter activity transporter activity sodium ion transmembrane transporter activity metal ion transmembrane transporter activity transmembrane transporter activity pyrophosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity inorganic diphosphate phosphatase activity hydrolase activity, acting on acid anhydrides catalytic activity identical protein binding protein binding protein homodimerization activity protein dimerization activity active monoatomic ion transmembrane transporter activity proton transmembrane transporter activity active transmembrane transporter activity primary active transmembrane transporter activity diphosphate hydrolysis-driven proton transmembrane transporter activity	transport monoatomic ion transmembrane transport sodium ion transmembrane transport establishment of localization metal ion transport monoatomic cation transmembrane transport transmembrane transport localization monoatomic ion transport cellular process monoatomic cation transport sodium ion transport	cell periphery cellular anatomical structure plasma membrane membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR004131	Pyrophosphate-energised proton pump	Family

Membrane Protein Annotation: OPM OPM Database Homepage

Chains	External Link	Type	Class	Superfamily	Family
A, B	OPM	Transmembrane	Alpha-helical polytopic	Proton-translocating pyrophosphatase	Proton-translocating pyrophosphatase

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

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

Membrane Protein Annotation: MemProtMD MemProtMD Database Homepage

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

Membrane Protein Annotation: mpstruc mpstruc Database Homepage

Chains	Resource Link	Group	Subgroup	Protein
A, B	mpstruc	TRANSMEMBRANE PROTEINS: ALPHA-HELICAL	Membrane-Integral Pyrophosphatases (M-PPases)	Na⁺-translocating M-PPase in complex with imidodiphosphate and magnesium, and with bound sodium ion

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.