3S5O

Crystal Structure of Human 4-hydroxy-2-oxoglutarate Aldolase Bound to Pyruvate

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
Pharos: Disease Associations
Protein Modification Annotation

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d3s5oa_	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	Aldolase	automated matches	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	Class I aldolase	8059144	4003216	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Aldolase	8059145	3000445	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)
A	DHDPS	e3s5oA1	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels (From Topology)	T: TIM barrels	F: DHDPS	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.20.20.70	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Aldolase class I	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF00701	Dihydrodipicolinate synthetase family (DHDPS)	Dihydrodipicolinate synthetase family	This family has a TIM barrel structure.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	4-hydroxy-2-oxoglutarate aldolase, mitochondrial	oxo-acid-lyase activity (4S)-4-hydroxy-2-oxoglutarate aldolase activity lyase activity catalytic activity carbon-carbon lyase activity 4-hydroxy-2-oxoglutarate aldolase activity aldehyde-lyase activity identical protein binding protein binding binding protein homodimerization activity protein dimerization activity N-acetylneuraminate lyase activity	organic substance metabolic process oxalate metabolic process oxoacid metabolic process cellular metabolic process dicarboxylic acid metabolic process carboxylic acid metabolic process small molecule metabolic process metabolic process cellular process organic acid metabolic process glyoxylate metabolic process cellular aldehyde metabolic process monocarboxylic acid metabolic process catabolic process organic substance metabolic process oxalate metabolic process oxoacid metabolic process cellular metabolic process dicarboxylic acid metabolic process carboxylic acid metabolic process small molecule metabolic process metabolic process cellular process organic acid metabolic process glyoxylate metabolic process cellular aldehyde metabolic process monocarboxylic acid metabolic process catabolic process carbohydrate derivative metabolic process organic acid catabolic process cellular catabolic process carboxylic acid catabolic process amino sugar metabolic process amide metabolic process N-acetylneuraminate metabolic process organonitrogen compound catabolic process N-acetylneuraminate catabolic process carbohydrate derivative catabolic process organonitrogen compound metabolic process amino sugar catabolic process small molecule catabolic process organic substance catabolic process monocarboxylic acid catabolic process glyoxylate catabolic process aldehyde catabolic process 4-hydroxyproline metabolic process amino acid metabolic process alpha-amino acid metabolic process non-proteinogenic amino acid metabolic process amino acid catabolic process 4-hydroxyproline catabolic process non-proteinogenic amino acid catabolic process primary metabolic process cellular modified amino acid metabolic process organic cyclic compound catabolic process organic cyclic compound metabolic process alpha-amino acid catabolic process cellular modified amino acid catabolic process pyruvate metabolic process monocarboxylic acid biosynthetic process small molecule biosynthetic process cellular biosynthetic process organic acid biosynthetic process carboxylic acid biosynthetic process biosynthetic process organic substance biosynthetic process pyruvate biosynthetic process	membrane-bounded organelle intracellular organelle intracellular anatomical structure mitochondrion organelle cytoplasm cellular anatomical entity intracellular membrane-bounded organelle membrane-enclosed lumen mitochondrial matrix intracellular organelle lumen organelle lumen

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR013785	Aldolase-type TIM barrel	Homologous Superfamily
A	IPR020625	Schiff base-forming aldolase, active site	Active Site
A	IPR002220	DapA-like	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: Q86XE5	primary hyperoxaluria primary hyperoxaluria type 3 cholestasis malignant ependymoma pancreatic intraductal papillary-mucinous carcinoma peroxisomal disease subependymal giant cell astrocytoma ductal breast carcinoma in situ malignant pancreatic neoplasm pancreatic intraductal papillary-mucinous neoplasm invasive ductal breast carcinoma pancreatic ductal adenocarcinoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
A	KPI	Parent Component: LYS RESID: AA0287 PSI-MOD : N6-pyruvic acid 2-iminyl-L-lysine MOD:00292

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.