1NFG | pdb_00001nfg

Structure of D-hydantoinase

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
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)
D	d1nfgd1	All beta proteins	Composite domain of metallo-dependent hydrolases	Composite domain of metallo-dependent hydrolases	Hydantoinase (dihydropyrimidinase)	D-hydantoinase	(Ralstonia pickettii ) [TaxId: 329 ],	SCOPe (2.08)
D	d1nfgd2	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	Metallo-dependent hydrolases	Hydantoinase (dihydropyrimidinase), catalytic domain	D-hydantoinase	(Ralstonia pickettii ) [TaxId: 329 ],	SCOPe (2.08)
C	d1nfgc1	All beta proteins	Composite domain of metallo-dependent hydrolases	Composite domain of metallo-dependent hydrolases	Hydantoinase (dihydropyrimidinase)	D-hydantoinase	(Ralstonia pickettii ) [TaxId: 329 ],	SCOPe (2.08)
C	d1nfgc2	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	Metallo-dependent hydrolases	Hydantoinase (dihydropyrimidinase), catalytic domain	D-hydantoinase	(Ralstonia pickettii ) [TaxId: 329 ],	SCOPe (2.08)
B	d1nfgb1	All beta proteins	Composite domain of metallo-dependent hydrolases	Composite domain of metallo-dependent hydrolases	Hydantoinase (dihydropyrimidinase)	D-hydantoinase	(Ralstonia pickettii ) [TaxId: 329 ],	SCOPe (2.08)
B	d1nfgb2	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	Metallo-dependent hydrolases	Hydantoinase (dihydropyrimidinase), catalytic domain	D-hydantoinase	(Ralstonia pickettii ) [TaxId: 329 ],	SCOPe (2.08)
A	d1nfga1	All beta proteins	Composite domain of metallo-dependent hydrolases	Composite domain of metallo-dependent hydrolases	Hydantoinase (dihydropyrimidinase)	D-hydantoinase	(Ralstonia pickettii ) [TaxId: 329 ],	SCOPe (2.08)
A	d1nfga2	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	Metallo-dependent hydrolases	Hydantoinase (dihydropyrimidinase), catalytic domain	D-hydantoinase	(Ralstonia pickettii ) [TaxId: 329 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
D	SCOP2B Superfamily	Composite domain of metallo-dependent hydrolases	8033274	3000176	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Metallo-dependent hydrolases	8033276	3000428	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Composite domain of metallo-dependent hydrolases	8033274	3000176	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Metallo-dependent hydrolases	8033276	3000428	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Composite domain of metallo-dependent hydrolases	8033274	3000176	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Composite domain of metallo-dependent hydrolases	8033274	3000176	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Composite domain of metallo-dependent hydrolases	8033274	3000176	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Metallo-dependent hydrolases	8033276	3000428	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Composite domain of metallo-dependent hydrolases	8033274	3000176	SCOP2B (2022-06-29)
A	SCOP2 Family	Hydantoinase (dihydropyrimidinase)	8020894	4002171	SCOP2 (2022-06-29)
A	SCOP2 Family	Hydantoinase (dihydropyrimidinase), catalytic domain	8020896	4002199	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Composite domain of metallo-dependent hydrolases	8033274	3000176	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Metallo-dependent hydrolases	8033276	3000428	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)
D	Fer4_13	e1nfgD3	A: a/b three-layered sandwiches	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: Fer4_13	ECOD (v294.1)
C	Fer4_13	e1nfgC3	A: a/b three-layered sandwiches	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: Fer4_13	ECOD (v294.1)
B	Fer4_13	e1nfgB3	A: a/b three-layered sandwiches	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: Fer4_13	ECOD (v294.1)
A	Amidohydro_1	e1nfgA2	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels	T: TIM barrels	F: Amidohydro_1	ECOD (v294.1)
A	Fer4_13	e1nfgA4	A: a/b three-layered sandwiches	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: Fer4_13	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D	2.30.40.10	Mainly Beta	Roll	Urease, subunit C	domain 1	CATH (4.3.0)
D	3.20.20.140	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Metal-dependent hydrolases	CATH (4.3.0)
C	2.30.40.10	Mainly Beta	Roll	Urease, subunit C	domain 1	CATH (4.3.0)
C	3.20.20.140	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Metal-dependent hydrolases	CATH (4.3.0)
B	2.30.40.10	Mainly Beta	Roll	Urease, subunit C	domain 1	CATH (4.3.0)
B	3.20.20.140	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Metal-dependent hydrolases	CATH (4.3.0)
A	2.30.40.10	Mainly Beta	Roll	Urease, subunit C	domain 1	CATH (4.3.0)
A	3.20.20.140	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Metal-dependent hydrolases	CATH (4.3.0)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	D-hydantoinase	hydrolase activity hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides catalytic activity hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds cation binding ion binding binding metal ion binding small molecule binding	-	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR011612	Urease alpha-subunit, N-terminal domain	Domain
A, B, C, D	IPR050378	Metallo-dependent Hydrolases Superfamily	Family
A, B, C, D	IPR011778	Hydantoinase/dihydropyrimidinase	Family
A, B, C, D	IPR006680	Amidohydrolase-related	Domain
A, B, C, D	IPR011059	Metal-dependent hydrolase, composite domain superfamily	Homologous Superfamily
A, B, C, D	IPR032466	Metal-dependent hydrolase	Homologous Superfamily

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.