1YGZ | pdb_00001ygz

Crystal Structure of Inorganic Pyrophosphatase from Helicobacter pylori

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
F	d1ygzf_	All beta proteins	OB-fold	Inorganic pyrophosphatase	automated matches	automated matches	(Helicobacter pylori 26695 ) [TaxId: 85962 ],	SCOPe (2.08)
E	d1ygze_	All beta proteins	OB-fold	Inorganic pyrophosphatase	automated matches	automated matches	(Helicobacter pylori 26695 ) [TaxId: 85962 ],	SCOPe (2.08)
D	d1ygzd_	All beta proteins	OB-fold	Inorganic pyrophosphatase	automated matches	automated matches	(Helicobacter pylori 26695 ) [TaxId: 85962 ],	SCOPe (2.08)
C	d1ygzc_	All beta proteins	OB-fold	Inorganic pyrophosphatase	automated matches	automated matches	(Helicobacter pylori 26695 ) [TaxId: 85962 ],	SCOPe (2.08)
B	d1ygzb_	All beta proteins	OB-fold	Inorganic pyrophosphatase	automated matches	automated matches	(Helicobacter pylori 26695 ) [TaxId: 85962 ],	SCOPe (2.08)
A	d1ygza_	All beta proteins	OB-fold	Inorganic pyrophosphatase	automated matches	automated matches	(Helicobacter pylori 26695 ) [TaxId: 85962 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
F	SCOP2B Superfamily	Inorganic pyrophosphatase	8066135	3000589	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Inorganic pyrophosphatase	8066135	3000589	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Inorganic pyrophosphatase	8066135	3000589	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Inorganic pyrophosphatase	8066135	3000589	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Inorganic pyrophosphatase	8066135	3000589	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Inorganic pyrophosphatase	8066135	3000589	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)
F	B	e1ygzF1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: winged helix domain	F: B	ECOD (v294.1)
E	B	e1ygzE1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: winged helix domain	F: B	ECOD (v294.1)
D	B	e1ygzD1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: winged helix domain	F: B	ECOD (v294.1)
C	B	e1ygzC1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: winged helix domain	F: B	ECOD (v294.1)
B	B	e1ygzB1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: winged helix domain	F: B	ECOD (v294.1)
A	Jacalin	e1ygzA1	A: a/b three-layered sandwiches	X: Globin-like	H: Globin-like	T: Globin-like	F: Jacalin	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
F	3.90.80.10	Alpha Beta	Alpha-Beta Complex	Inorganic Pyrophosphatase	Inorganic pyrophosphatase	CATH (4.3.0)
E	3.90.80.10	Alpha Beta	Alpha-Beta Complex	Inorganic Pyrophosphatase	Inorganic pyrophosphatase	CATH (4.3.0)
D	3.90.80.10	Alpha Beta	Alpha-Beta Complex	Inorganic Pyrophosphatase	Inorganic pyrophosphatase	CATH (4.3.0)
C	3.90.80.10	Alpha Beta	Alpha-Beta Complex	Inorganic Pyrophosphatase	Inorganic pyrophosphatase	CATH (4.3.0)
B	3.90.80.10	Alpha Beta	Alpha-Beta Complex	Inorganic Pyrophosphatase	Inorganic pyrophosphatase	CATH (4.3.0)
A	3.90.80.10	Alpha Beta	Alpha-Beta Complex	Inorganic Pyrophosphatase	Inorganic pyrophosphatase	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E A, B, C, D, E, F	PF00719	Inorganic pyrophosphatase (Pyrophosphatase)	Inorganic pyrophosphatase		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E A, B, C, D, E, F	Inorganic pyrophosphatase	cation binding magnesium ion binding ion binding binding metal ion binding small molecule binding 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	phosphate-containing compound metabolic process metabolic process cellular process phosphorus metabolic process	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F	IPR036649	Inorganic pyrophosphatase superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR008162	Inorganic pyrophosphatase	Family

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.