5L9W | pdb_00005l9w

Crystal structure of the Apc core complex

External Resource: Annotation

Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
B	Hydantoinase_A	e5l9wB1	A: a/b three-layered sandwiches	X: Ribonuclease H-like	H: Ribonuclease H-like	T: Ribonuclease H-like	F: Hydantoinase_A	ECOD (v294.1)
B	Hydant_A_N	e5l9wB3	A: a/b three-layered sandwiches	X: Reverse ferredoxin	H: a/b domain in Acetophenone carboxylase (Apc) alpha subunit	T: a/b domain in Acetophenone carboxylase (Apc) alpha subunit	F: Hydant_A_N	ECOD (v294.1)
B	Hydant_A_C	e5l9wB4	A: a/b three-layered sandwiches	X: Reverse ferredoxin	H: a+b domain in Acetophenone carboxylase (Apc) alpha subunit	T: a+b domain in Acetophenone carboxylase (Apc) alpha subunit	F: Hydant_A_C	ECOD (v294.1)
B	Hydant_A_C	e5l9wB5	A: a/b three-layered sandwiches	X: Mog1p/PsbP-like	H: EGF-related	T: TNF receptor-like	F: Hydant_A_C	ECOD (v294.1)
D [auth C]	PEPcase	e5l9wC1	A: a/b three-layered sandwiches	X: Mog1p/PsbP-like	H: EGF-related	T: TNF receptor-like	F: PEPcase	ECOD (v294.1)
C [auth b]	PEPcase	e5l9wb1	A: a/b three-layered sandwiches	X: Mog1p/PsbP-like	H: EGF-related	T: TNF receptor-like	F: PEPcase	ECOD (v294.1)
A	Hydantoinase_B	e5l9wA1	A: a/b three-layered sandwiches	X: MocoBD/DmpA-related	H: MocoBD/DmpA-related	T: N-terminal domain of Apc beta-subunit	F: Hydantoinase_B	ECOD (v294.1)
A	Hydantoinase_B	e5l9wA2	A: a/b three-layered sandwiches	X: MocoBD/DmpA-related	H: MocoBD/DmpA-related	T: Apc (acetophenone carboxylase) beta subunit middle domain	F: Hydantoinase_B	ECOD (v294.1)
A	Hydantoinase_B	e5l9wA3	A: a/b three-layered sandwiches	X: Ribonuclease H-like	H: Ribonuclease H-like	T: Ribonuclease H-like	F: Hydantoinase_B	ECOD (v294.1)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B	PF01968	Hydantoinase/oxoprolinase (Hydantoinase_A)	Hydantoinase/oxoprolinase	-	Family
B	PF19278	Hydantoinase/oxoprolinase C-terminal domain (Hydant_A_C)	Hydantoinase/oxoprolinase C-terminal domain	This domain is found at the C-terminus of acetophenone carboxylase alpha subunit [1]. According to ECOD this domain adopts a reverse ferredoxin fold. This domain is found at the C-terminus of a wide range of related enzymes subunits.	Domain
B	PF05378	Hydantoinase/oxoprolinase N-terminal region (Hydant_A_N)	Hydantoinase/oxoprolinase N-terminal region	-	Family
D [auth C]	PF08882	Acetone carboxylase gamma subunit (Acetone_carb_G)	Acetone carboxylase gamma subunit	Acetone carboxylase is the key enzyme of bacterial acetone metabolism, catalysing the condensation of acetone and CO(2) to form acetoacetate.	Domain
A	PF02538	Hydantoinase B/oxoprolinase (Hydantoinase_B)	Hydantoinase B/oxoprolinase	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B	Acetophenone carboxylase gamma subunit	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding hydrolase activity 5-oxoprolinase (ATP-hydrolyzing) 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 ligase activity	glutathione metabolic process modified amino acid metabolic process sulfur compound metabolic process metabolic process cellular process	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol
D [auth C]	Acetophenone carboxylase beta subunit	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding catalytic activity ligase activity	-	cellular anatomical structure intracellular anatomical structure cytoplasm
C [auth b]	Acetophenone carboxylase alpha subunit	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding hydrolase activity 5-oxoprolinase (ATP-hydrolyzing) 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 ligase activity	glutathione metabolic process modified amino acid metabolic process sulfur compound metabolic process metabolic process cellular process	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol
A	Acetophenone carboxylase delta subunit	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding hydrolase activity 5-oxoprolinase (ATP-hydrolyzing) 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 ligase activity	glutathione metabolic process modified amino acid metabolic process sulfur compound metabolic process metabolic process cellular process	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B	IPR045079	Oxoprolinase-like	Family
B	IPR049517	Acetophenone carboxylase-like, C-terminal domain	Domain
B	IPR002821	Hydantoinase A/oxoprolinase	Domain
B	IPR050000	Acetophenone carboxylase gamma subunit	Family
B	IPR008040	Hydantoinase/oxoprolinase, N-terminal	Domain
D [auth C]	IPR016750	Acetophenone carboxylase beta subunit/Acetone carboxylase gamma subunit	Family
D [auth C]	IPR050001	Acetophenone carboxylase beta subunit	Family
C [auth b]	IPR053706	Acetophenone carboxylase alpha subunit-like	Family
C [auth b]	IPR045079	Oxoprolinase-like	Family
C [auth b]	IPR002821	Hydantoinase A/oxoprolinase	Domain
C [auth b]	IPR008040	Hydantoinase/oxoprolinase, N-terminal	Domain
A	IPR045079	Oxoprolinase-like	Family
A	IPR049999	Acetophenone carboxylase delta subunit	Family
A	IPR003692	Hydantoinase B/oxoprolinase	Domain

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.