8F8O | pdb_00008f8o

Crystal Structure of the Succinyl-diaminopimelate Desuccinylase (DapE) from Acinetobacter baumannii in complex with Succinic and L-Lactic Acids

External Resource: Annotation

Domain Annotation: ECOD Classification
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	M20_dimer_1	e8f8oB1	A: a+b two layers	X: Alpha-beta plaits	H: Bacterial exopeptidase dimerisation domain (From Topology)	T: Bacterial exopeptidase dimerisation domain	F: M20_dimer_1	ECOD (1.6)
B	Peptidase_M20_1st	e8f8oB2	A: a/b three-layered sandwiches	X: Phosphorylase/hydrolase-like	H: Zn-dependent exopeptidases (From Topology)	T: Zn-dependent exopeptidases	F: Peptidase_M20_1st	ECOD (1.6)
A	M20_dimer_1	e8f8oA2	A: a+b two layers	X: Alpha-beta plaits	H: Bacterial exopeptidase dimerisation domain (From Topology)	T: Bacterial exopeptidase dimerisation domain	F: M20_dimer_1	ECOD (1.6)
A	Peptidase_M20_1st	e8f8oA1	A: a/b three-layered sandwiches	X: Phosphorylase/hydrolase-like	H: Zn-dependent exopeptidases (From Topology)	T: Zn-dependent exopeptidases	F: Peptidase_M20_1st	ECOD (1.6)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Succinyl-diaminopimelate desuccinylase	cation binding transition metal ion binding ion binding binding metal ion binding cobalt ion binding small molecule binding deacetylase activity acetylornithine deacetylase activity hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides deacylase activity hydrolase activity catalytic activity hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds cation binding transition metal ion binding ion binding binding metal ion binding cobalt ion binding small molecule binding deacetylase activity acetylornithine deacetylase activity hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides deacylase activity hydrolase activity catalytic activity hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds zinc ion binding succinyl-diaminopimelate desuccinylase activity	diaminopimelate biosynthetic process oxoacid metabolic process small molecule biosynthetic process dicarboxylic acid metabolic process lipid biosynthetic process carboxylic acid metabolic process fatty acid derivative biosynthetic process primary metabolic process amino acid metabolic process organic acid metabolic process organic acid biosynthetic process carboxylic acid biosynthetic process fatty acid derivative metabolic process amino acid biosynthetic process biosynthetic process diaminopimelate biosynthetic process oxoacid metabolic process small molecule biosynthetic process dicarboxylic acid metabolic process lipid biosynthetic process carboxylic acid metabolic process fatty acid derivative biosynthetic process primary metabolic process amino acid metabolic process organic acid metabolic process organic acid biosynthetic process carboxylic acid biosynthetic process fatty acid derivative metabolic process amino acid biosynthetic process biosynthetic process metabolic process cellular process small molecule metabolic process dicarboxylic acid biosynthetic process lipid metabolic process L-arginine biosynthetic process glutamine family amino acid biosynthetic process alpha-amino acid metabolic process glutamine family amino acid metabolic process arginine metabolic process L-amino acid biosynthetic process L-amino acid metabolic process proteinogenic amino acid metabolic process proteinogenic amino acid biosynthetic process alpha-amino acid biosynthetic process lysine metabolic process aspartate family amino acid biosynthetic process lysine biosynthetic process lysine biosynthetic process via diaminopimelate	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR005941	Succinyl-diaminopimelate desuccinylase, proteobacteria	Family
A, B	IPR002933	Peptidase M20	Family
A, B	IPR050072	Peptidase M20A family, bacterial cell wall biosynthesis	Family
A, B	IPR036264	Bacterial exopeptidase dimerisation domain	Homologous Superfamily
A, B	IPR011650	Peptidase M20, dimerisation domain	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.