3CK5 | pdb_00003ck5

Crystal structure of a racemase from Streptomyces coelicolor A3(2) with bound magnesium

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

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
D	d3ck5d2	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	Enolase C-terminal domain-like	automated matches	automated matches	(Streptomyces coelicolor A3(2) ) [TaxId: 100226 ],	SCOPe (2.08)
D	d3ck5d1	Alpha and beta proteins (a+b)	Enolase N-terminal domain-like	Enolase N-terminal domain-like	automated matches	automated matches	(Streptomyces coelicolor A3(2) ) [TaxId: 100226 ],	SCOPe (2.08)
D	d3ck5d3	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Streptomyces coelicolor A3(2) ) [TaxId: 100226 ],	SCOPe (2.08)
C	d3ck5c2	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	Enolase C-terminal domain-like	automated matches	automated matches	(Streptomyces coelicolor A3(2) ) [TaxId: 100226 ],	SCOPe (2.08)
C	d3ck5c1	Alpha and beta proteins (a+b)	Enolase N-terminal domain-like	Enolase N-terminal domain-like	automated matches	automated matches	(Streptomyces coelicolor A3(2) ) [TaxId: 100226 ],	SCOPe (2.08)
C	d3ck5c3	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Streptomyces coelicolor A3(2) ) [TaxId: 100226 ],	SCOPe (2.08)
B	d3ck5b2	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	Enolase C-terminal domain-like	automated matches	automated matches	(Streptomyces coelicolor A3(2) ) [TaxId: 100226 ],	SCOPe (2.08)
B	d3ck5b1	Alpha and beta proteins (a+b)	Enolase N-terminal domain-like	Enolase N-terminal domain-like	automated matches	automated matches	(Streptomyces coelicolor A3(2) ) [TaxId: 100226 ],	SCOPe (2.08)
B	d3ck5b3	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Streptomyces coelicolor A3(2) ) [TaxId: 100226 ],	SCOPe (2.08)
A	d3ck5a2	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	Enolase C-terminal domain-like	automated matches	automated matches	(Streptomyces coelicolor A3(2) ) [TaxId: 100226 ],	SCOPe (2.08)
A	d3ck5a1	Alpha and beta proteins (a+b)	Enolase N-terminal domain-like	Enolase N-terminal domain-like	automated matches	automated matches	(Streptomyces coelicolor A3(2) ) [TaxId: 100226 ],	SCOPe (2.08)
A	d3ck5a3	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Streptomyces coelicolor A3(2) ) [TaxId: 100226 ],	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	Me-amine-dh_H	e3ck5D1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: Me-amine-dh_H	ECOD (v294.1)
C	Me-amine-dh_H	e3ck5C1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: Me-amine-dh_H	ECOD (v294.1)
B	Me-amine-dh_H	e3ck5B1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: Me-amine-dh_H	ECOD (v294.1)
A	Me-amine-dh_H	e3ck5A1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: Me-amine-dh_H	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
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)
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)
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)
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)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF02746	Mandelate racemase / muconate lactonizing enzyme, N-terminal domain (MR_MLE_N)	Mandelate racemase / muconate lactonizing enzyme, N-terminal domain	SCOP reports fold similarity with enolase N-terminal domain.	Domain
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	Putative racemase	cation binding magnesium ion binding ion binding binding metal ion binding small molecule binding hydro-lyase activity lyase activity catalytic activity carbon-oxygen lyase activity isomerase activity	carbohydrate metabolic process catabolic process carbohydrate catabolic process primary metabolic process metabolic process cellular process amino acid metabolic process amino acid catabolic process monosaccharide metabolic process hexose catabolic process galactose catabolic process hexose metabolic process galactose metabolic process small molecule metabolic process carbohydrate metabolic process catabolic process carbohydrate catabolic process primary metabolic process metabolic process cellular process amino acid metabolic process amino acid catabolic process monosaccharide metabolic process hexose catabolic process galactose catabolic process hexose metabolic process galactose metabolic process small molecule metabolic process monosaccharide catabolic process small molecule catabolic process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR029065	Enolase_C-like	Unknown
A, B, C, D	IPR018110	Mandelate racemase/muconate lactonizing enzyme, conserved site	Conserved Site
A, B, C, D	IPR046945	L-rhamnonate dehydratase-like	Family
A, B, C, D	IPR034382	3,6-anhydro-alpha-L-galactonate cycloisomerase	Family
A, B, C, D	IPR036849	Enolase-like, C-terminal domain superfamily	Homologous Superfamily
A, B, C, D	IPR013341	Mandelate racemase, N-terminal domain	Domain
A, B, C, D	IPR013342	Mandelate racemase, C-terminal domain	Domain
A, B, C, D	IPR029017	Enolase-like, N-terminal	Homologous Superfamily

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.