6NDR

Crystal structure of dTDP-6-deoxy-D-glucose-3,5-epimerase RmlC from Legionella pneumophila Philadelphia 1 in complex with dTDP-4-KETO-L-RHAMNOSE

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

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d6ndra1	All beta proteins	Double-stranded beta-helix	RmlC-like cupins	automated matches	automated matches	(Legionella pneumophila subsp. pneumophila str. Philadelphia 1 ) [TaxId: 272624 ],	SCOPe (2.08)
A	d6ndra2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Legionella pneumophila subsp. pneumophila str. Philadelphia 1 ) [TaxId: 272624 ],	SCOPe (2.08)
B	d6ndrb1	All beta proteins	Double-stranded beta-helix	RmlC-like cupins	automated matches	automated matches	(Legionella pneumophila subsp. pneumophila str. Philadelphia 1 ) [TaxId: 272624 ],	SCOPe (2.08)
B	d6ndrb2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Legionella pneumophila subsp. pneumophila str. Philadelphia 1 ) [TaxId: 272624 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	dTDP-sugar isomerase	8063621	4002863	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	RmlC-like cupins	8063622	3001825	SCOP2 (2022-06-29)
B	SCOP2B Superfamily	RmlC-like cupins	8063622	3001825	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	dTDP_sugar_isom	e6ndrA1	A: beta sandwiches	X: jelly-roll	H: Double-stranded beta-helix (From Topology)	T: Double-stranded beta-helix	F: dTDP_sugar_isom	ECOD (1.6)
B	dTDP_sugar_isom	e6ndrB1	A: beta sandwiches	X: jelly-roll	H: Double-stranded beta-helix (From Topology)	T: Double-stranded beta-helix	F: dTDP_sugar_isom	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.60.120.10	Mainly Beta	Sandwich	Jelly Rolls	Jelly Rolls	CATH (4.3.0)
B	2.60.120.10	Mainly Beta	Sandwich	Jelly Rolls	Jelly Rolls	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF00908	dTDP-4-dehydrorhamnose 3,5-epimerase (dTDP_sugar_isom)	dTDP-4-dehydrorhamnose 3,5-epimerase	This family catalyse the isomerisation of dTDP-4-dehydro-6-deoxy -D-glucose with dTDP-4-dehydro-6-deoxy-L-mannose. The EC number of this enzyme is 5.1.3.13.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	dTDP-4-dehydrorhamnose 3,5-epimerase	isomerase activity racemase and epimerase activity dTDP-4-dehydrorhamnose 3,5-epimerase activity racemase and epimerase activity, acting on carbohydrates and derivatives catalytic activity	nucleoside phosphate metabolic process carbohydrate derivative biosynthetic process nucleotide-sugar metabolic process cellular metabolic process carbohydrate derivative metabolic process primary metabolic process dTDP-rhamnose biosynthetic process nucleobase-containing compound biosynthetic process dTDP-rhamnose metabolic process nucleobase-containing compound metabolic process biosynthetic process organophosphate metabolic process nucleobase-containing small molecule metabolic process organophosphate biosynthetic process phosphate-containing compound metabolic process nucleoside phosphate metabolic process carbohydrate derivative biosynthetic process nucleotide-sugar metabolic process cellular metabolic process carbohydrate derivative metabolic process primary metabolic process dTDP-rhamnose biosynthetic process nucleobase-containing compound biosynthetic process dTDP-rhamnose metabolic process nucleobase-containing compound metabolic process biosynthetic process organophosphate metabolic process nucleobase-containing small molecule metabolic process organophosphate biosynthetic process phosphate-containing compound metabolic process nucleoside phosphate biosynthetic process metabolic process cellular process small molecule metabolic process phosphorus metabolic process nucleotide-sugar biosynthetic process carbohydrate metabolic process polysaccharide biosynthetic process cellular biosynthetic process carbohydrate biosynthetic process macromolecule biosynthetic process extracellular polysaccharide biosynthetic process polysaccharide metabolic process extracellular polysaccharide metabolic process macromolecule metabolic process	intracellular anatomical structure cytoplasm cellular anatomical entity cytosol

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR000888	dTDP-4-dehydrorhamnose 3,5-epimerase-like	Family
A, B	IPR011051	RmlC-like cupin domain superfamily	Homologous Superfamily
A, B	IPR014710	RmlC-like jelly roll fold	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.