1EC9 | pdb_00001ec9

E. COLI GLUCARATE DEHYDRATASE BOUND TO XYLAROHYDROXAMATE

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
Structure Motif: Primary M-CSA Annotation

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d1ec9a1	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	Enolase C-terminal domain-like	D-glucarate dehydratase-like	D-glucarate dehydratase	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
A	d1ec9a2	Alpha and beta proteins (a+b)	Enolase N-terminal domain-like	Enolase N-terminal domain-like	Enolase N-terminal domain-like	D-glucarate dehydratase	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
B	d1ec9b1	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	Enolase C-terminal domain-like	D-glucarate dehydratase-like	D-glucarate dehydratase	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
B	d1ec9b2	Alpha and beta proteins (a+b)	Enolase N-terminal domain-like	Enolase N-terminal domain-like	Enolase N-terminal domain-like	D-glucarate dehydratase	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
C	d1ec9c1	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	Enolase C-terminal domain-like	D-glucarate dehydratase-like	D-glucarate dehydratase	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
C	d1ec9c2	Alpha and beta proteins (a+b)	Enolase N-terminal domain-like	Enolase N-terminal domain-like	Enolase N-terminal domain-like	D-glucarate dehydratase	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
D	d1ec9d1	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	Enolase C-terminal domain-like	D-glucarate dehydratase-like	D-glucarate dehydratase	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
D	d1ec9d2	Alpha and beta proteins (a+b)	Enolase N-terminal domain-like	Enolase N-terminal domain-like	Enolase N-terminal domain-like	D-glucarate dehydratase	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Enolase C-terminal domain-like	8034350	3000476	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Enolase N-terminal domain-like	8034351	3001064	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Enolase C-terminal domain-like	8034350	3000476	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Enolase N-terminal domain-like	8034351	3001064	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Enolase N-terminal domain-like	8034351	3001064	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Enolase C-terminal domain-like	8034350	3000476	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Enolase C-terminal domain-like	8034350	3000476	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Enolase N-terminal domain-like	8034351	3001064	SCOP2B (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	OsmC	e1ec9A1	A: alpha bundles	X: EGF-like	H: LDL receptor-like module	T: LDL receptor-like module	F: OsmC	ECOD (develop294)
A	Meth_synt_2	e1ec9A2	A: alpha bundles	X: HTH	H: HTH	T: winged helix domain	F: Meth_synt_2	ECOD (develop294)
B	OsmC	e1ec9B1	A: alpha bundles	X: EGF-like	H: LDL receptor-like module	T: LDL receptor-like module	F: OsmC	ECOD (develop294)
B	Meth_synt_2	e1ec9B2	A: alpha bundles	X: HTH	H: HTH	T: winged helix domain	F: Meth_synt_2	ECOD (develop294)
C	OsmC	e1ec9C1	A: alpha bundles	X: EGF-like	H: LDL receptor-like module	T: LDL receptor-like module	F: OsmC	ECOD (develop294)
C	Meth_synt_2	e1ec9C2	A: alpha bundles	X: HTH	H: HTH	T: winged helix domain	F: Meth_synt_2	ECOD (develop294)
D	OsmC	e1ec9D1	A: alpha bundles	X: EGF-like	H: LDL receptor-like module	T: LDL receptor-like module	F: OsmC	ECOD (develop294)
D	Meth_synt_2	e1ec9D2	A: alpha bundles	X: HTH	H: HTH	T: winged helix domain	F: Meth_synt_2	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.30.390.10	Alpha Beta	2-Layer Sandwich	Enolase-like	domain 1	CATH (4.3.0)
A	3.20.20.120	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Enolase-like C-terminal domain	CATH (4.3.0)
B	3.30.390.10	Alpha Beta	2-Layer Sandwich	Enolase-like	domain 1	CATH (4.3.0)
B	3.20.20.120	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Enolase-like C-terminal domain	CATH (4.3.0)
C	3.30.390.10	Alpha Beta	2-Layer Sandwich	Enolase-like	domain 1	CATH (4.3.0)
C	3.20.20.120	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Enolase-like C-terminal domain	CATH (4.3.0)
D	3.30.390.10	Alpha Beta	2-Layer Sandwich	Enolase-like	domain 1	CATH (4.3.0)
D	3.20.20.120	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Enolase-like C-terminal domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF13378	Enolase C-terminal domain-like (MR_MLE_C)	Enolase C-terminal domain-like	This domain appears at the C-terminus of many of the proteins that carry the MR_MLE_N Pfam:PF02746 domain. EC:4.2.1.40.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	GLUCARATE DEHYDRATASE	cation binding magnesium ion binding ion binding binding metal ion binding small molecule binding hydro-lyase activity glucarate dehydratase activity lyase activity catalytic activity carbon-oxygen lyase 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	IPR034593	D-galactonate dehydratase DgoD-like	Family
A, B, C, D	IPR029065	Enolase_C-like	Unknown
A, B, C, D	IPR017653	Glucarate dehydratase	Family
A, B, C, D	IPR034598	D-Glucarate dehydratase-like	Family
A, B, C, D	IPR013342	Mandelate racemase, C-terminal domain	Domain
A, B, C, D	IPR029017	Enolase-like, N-terminal	Homologous Superfamily
A, B, C, D	IPR036849	Enolase-like, C-terminal domain superfamily	Homologous Superfamily

Structure Motif Annotation: Mechanism and Catalytic Site Atlas M-CSA Database Homepage

Chains	Enzyme Name	Description	Catalytic Residues
A	glucarate dehydratase M-CSA #451	Delta-Glucarate dehyratase catalyses the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-d-glucarate. Enzymes are also known to perform the glucarate to idarate and idarate to glucarate epimerization reactions The enzyme belongs to the mechanistically diverse enolase superfamily, specifically the glucarate dehydratase subgroup (SFLD nomenclature). Enolase enzymes catalyse reactions involving the removal of an alpha proton adjacent to a carboxylate anion.	Defined by 9 residues: LYS:A-205LYS:A-207ASP:A-235ASN:A-237GLU:A-260ASN:A-289ASP:A-313HIS:A-339ASN:A-341 \| Explore in 3D: M-CSA Motif Definition Search M-CSA Motif EC: 4.2.1.40 (PDB Primary Data) Search M-CSA Motif + EC 4.2.1.40

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.