4UR7 | pdb_00004ur7

Crystal structure of keto-deoxy-D-galactarate dehydratase complexed with pyruvate

External Resource: Annotation

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

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
D	d4ur7d_	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	Aldolase	automated matches	automated matches	(Agrobacterium tumefaciens ) [TaxId: 358 ],	SCOPe (2.08)
C	d4ur7c1	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	Aldolase	automated matches	automated matches	(Agrobacterium tumefaciens ) [TaxId: 358 ],	SCOPe (2.08)
C	d4ur7c2	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Agrobacterium tumefaciens ) [TaxId: 358 ],	SCOPe (2.08)
B	d4ur7b1	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	Aldolase	automated matches	automated matches	(Agrobacterium tumefaciens ) [TaxId: 358 ],	SCOPe (2.08)
B	d4ur7b2	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Agrobacterium tumefaciens ) [TaxId: 358 ],	SCOPe (2.08)
A	d4ur7a_	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	Aldolase	automated matches	automated matches	(Agrobacterium tumefaciens ) [TaxId: 358 ],	SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
D	DHDPS	e4ur7D1	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels (From Topology)	T: TIM barrels	F: DHDPS	ECOD (1.6)
C	DHDPS	e4ur7C1	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels (From Topology)	T: TIM barrels	F: DHDPS	ECOD (1.6)
B	DHDPS	e4ur7B1	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels (From Topology)	T: TIM barrels	F: DHDPS	ECOD (1.6)
A	DHDPS	e4ur7A1	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)
D	3.20.20.70	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Aldolase class I	CATH (4.3.0)
C	3.20.20.70	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Aldolase class I	CATH (4.3.0)
B	3.20.20.70	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Aldolase class I	CATH (4.3.0)
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, B, C, D	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, B, C, D	KETO-DEOXY-D-GALACTARATE DEHYDRATASE	4-hydroxy-tetrahydrodipicolinate synthase activity hydro-lyase activity lyase activity catalytic activity carbon-oxygen lyase activity 5-dehydro-4-deoxyglucarate dehydratase activity	carbohydrate metabolic process D-glucarate catabolic process catabolic process oxoacid metabolic process dicarboxylic acid metabolic process carbohydrate catabolic process carboxylic acid metabolic process primary metabolic process glucarate catabolic process organic acid metabolic process dicarboxylic acid catabolic process organic acid catabolic process aldaric acid catabolic process carboxylic acid catabolic process D-glucarate metabolic process carbohydrate metabolic process D-glucarate catabolic process catabolic process oxoacid metabolic process dicarboxylic acid metabolic process carbohydrate catabolic process carboxylic acid metabolic process primary metabolic process glucarate catabolic process organic acid metabolic process dicarboxylic acid catabolic process organic acid catabolic process aldaric acid catabolic process carboxylic acid catabolic process D-glucarate metabolic process small molecule metabolic process metabolic process cellular process small molecule catabolic process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR013785	Aldolase-type TIM barrel	Homologous Superfamily
A, B, C, D	IPR017655	5-dehydro-4-deoxyglucarate dehydratase	Family
A, B, C, D	IPR002220	DapA-like	Family

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
A, B, C, D	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 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.