2B9U

Crystal structure of dTDP-4-dehydrorhamnose 3,5-epimerase from sulfolobus tokodaii

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)
B [auth C]	d2b9uc_	All beta proteins	Double-stranded beta-helix	RmlC-like cupins	dTDP-sugar isomerase	dTDP-4-dehydrorhamnose 3,5-epimerase RmlC	(Sulfurisphaera tokodaii str. 7 ) [TaxId: 273063 ],	SCOPe (2.08)
D [auth B]	d2b9ub_	All beta proteins	Double-stranded beta-helix	RmlC-like cupins	dTDP-sugar isomerase	dTDP-4-dehydrorhamnose 3,5-epimerase RmlC	(Sulfurisphaera tokodaii str. 7 ) [TaxId: 273063 ],	SCOPe (2.08)
A	d2b9ua_	All beta proteins	Double-stranded beta-helix	RmlC-like cupins	dTDP-sugar isomerase	dTDP-4-dehydrorhamnose 3,5-epimerase RmlC	(Sulfurisphaera tokodaii str. 7 ) [TaxId: 273063 ],	SCOPe (2.08)
C [auth D]	d2b9ud_	All beta proteins	Double-stranded beta-helix	RmlC-like cupins	dTDP-sugar isomerase	dTDP-4-dehydrorhamnose 3,5-epimerase RmlC	(Sulfurisphaera tokodaii str. 7 ) [TaxId: 273063 ],	SCOPe (2.08)
E	d2b9ue_	All beta proteins	Double-stranded beta-helix	RmlC-like cupins	dTDP-sugar isomerase	dTDP-4-dehydrorhamnose 3,5-epimerase RmlC	(Sulfurisphaera tokodaii str. 7 ) [TaxId: 273063 ],	SCOPe (2.08)
F	d2b9uf_	All beta proteins	Double-stranded beta-helix	RmlC-like cupins	dTDP-sugar isomerase	dTDP-4-dehydrorhamnose 3,5-epimerase RmlC	(Sulfurisphaera tokodaii str. 7 ) [TaxId: 273063 ],	SCOPe (2.08)
G	d2b9ug_	All beta proteins	Double-stranded beta-helix	RmlC-like cupins	dTDP-sugar isomerase	dTDP-4-dehydrorhamnose 3,5-epimerase RmlC	(Sulfurisphaera tokodaii str. 7 ) [TaxId: 273063 ],	SCOPe (2.08)
H	d2b9uh_	All beta proteins	Double-stranded beta-helix	RmlC-like cupins	dTDP-sugar isomerase	dTDP-4-dehydrorhamnose 3,5-epimerase RmlC	(Sulfurisphaera tokodaii str. 7 ) [TaxId: 273063 ],	SCOPe (2.08)
I	d2b9ui_	All beta proteins	Double-stranded beta-helix	RmlC-like cupins	dTDP-sugar isomerase	dTDP-4-dehydrorhamnose 3,5-epimerase RmlC	(Sulfurisphaera tokodaii str. 7 ) [TaxId: 273063 ],	SCOPe (2.08)
J	d2b9uj_	All beta proteins	Double-stranded beta-helix	RmlC-like cupins	dTDP-sugar isomerase	dTDP-4-dehydrorhamnose 3,5-epimerase RmlC	(Sulfurisphaera tokodaii str. 7 ) [TaxId: 273063 ],	SCOPe (2.08)
K	d2b9uk_	All beta proteins	Double-stranded beta-helix	RmlC-like cupins	dTDP-sugar isomerase	dTDP-4-dehydrorhamnose 3,5-epimerase RmlC	(Sulfurisphaera tokodaii str. 7 ) [TaxId: 273063 ],	SCOPe (2.08)
L	d2b9ul_	All beta proteins	Double-stranded beta-helix	RmlC-like cupins	dTDP-sugar isomerase	dTDP-4-dehydrorhamnose 3,5-epimerase RmlC	(Sulfurisphaera tokodaii str. 7 ) [TaxId: 273063 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B [auth C]	SCOP2B Superfamily	RmlC-like cupins	8033089	3001825	SCOP2B (2022-06-29)
D [auth B]	SCOP2B Superfamily	RmlC-like cupins	8033089	3001825	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	RmlC-like cupins	8033089	3001825	SCOP2B (2022-06-29)
C [auth D]	SCOP2B Superfamily	RmlC-like cupins	8033089	3001825	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	RmlC-like cupins	8033089	3001825	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	RmlC-like cupins	8033089	3001825	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	RmlC-like cupins	8033089	3001825	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	RmlC-like cupins	8033089	3001825	SCOP2B (2022-06-29)
I	SCOP2B Superfamily	RmlC-like cupins	8033089	3001825	SCOP2B (2022-06-29)
J	SCOP2B Superfamily	RmlC-like cupins	8033089	3001825	SCOP2B (2022-06-29)
K	SCOP2B Superfamily	RmlC-like cupins	8033089	3001825	SCOP2B (2022-06-29)
L	SCOP2B Superfamily	RmlC-like cupins	8033089	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)
B [auth C]	PF00908	e2b9uC1	A: beta sandwiches	X: jelly-roll	H: Double-stranded beta-helix (From Topology)	T: Double-stranded beta-helix	F: PF00908	ECOD (1.6)
D [auth B]	PF00908	e2b9uB1	A: beta sandwiches	X: jelly-roll	H: Double-stranded beta-helix (From Topology)	T: Double-stranded beta-helix	F: PF00908	ECOD (1.6)
A	PF00908	e2b9uA1	A: beta sandwiches	X: jelly-roll	H: Double-stranded beta-helix (From Topology)	T: Double-stranded beta-helix	F: PF00908	ECOD (1.6)
C [auth D]	PF00908	e2b9uD1	A: beta sandwiches	X: jelly-roll	H: Double-stranded beta-helix (From Topology)	T: Double-stranded beta-helix	F: PF00908	ECOD (1.6)
E	PF00908	e2b9uE1	A: beta sandwiches	X: jelly-roll	H: Double-stranded beta-helix (From Topology)	T: Double-stranded beta-helix	F: PF00908	ECOD (1.6)
F	PF00908	e2b9uF1	A: beta sandwiches	X: jelly-roll	H: Double-stranded beta-helix (From Topology)	T: Double-stranded beta-helix	F: PF00908	ECOD (1.6)
G	PF00908	e2b9uG1	A: beta sandwiches	X: jelly-roll	H: Double-stranded beta-helix (From Topology)	T: Double-stranded beta-helix	F: PF00908	ECOD (1.6)
H	PF00908	e2b9uH1	A: beta sandwiches	X: jelly-roll	H: Double-stranded beta-helix (From Topology)	T: Double-stranded beta-helix	F: PF00908	ECOD (1.6)
I	PF00908	e2b9uI1	A: beta sandwiches	X: jelly-roll	H: Double-stranded beta-helix (From Topology)	T: Double-stranded beta-helix	F: PF00908	ECOD (1.6)
J	PF00908	e2b9uJ1	A: beta sandwiches	X: jelly-roll	H: Double-stranded beta-helix (From Topology)	T: Double-stranded beta-helix	F: PF00908	ECOD (1.6)
K	PF00908	e2b9uK1	A: beta sandwiches	X: jelly-roll	H: Double-stranded beta-helix (From Topology)	T: Double-stranded beta-helix	F: PF00908	ECOD (1.6)
L	PF00908	e2b9uL1	A: beta sandwiches	X: jelly-roll	H: Double-stranded beta-helix (From Topology)	T: Double-stranded beta-helix	F: PF00908	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B [auth C]	2.60.120.10	Mainly Beta	Sandwich	Jelly Rolls	Jelly Rolls	CATH (4.3.0)
D [auth B]	2.60.120.10	Mainly Beta	Sandwich	Jelly Rolls	Jelly Rolls	CATH (4.3.0)
A	2.60.120.10	Mainly Beta	Sandwich	Jelly Rolls	Jelly Rolls	CATH (4.3.0)
C [auth D]	2.60.120.10	Mainly Beta	Sandwich	Jelly Rolls	Jelly Rolls	CATH (4.3.0)
E	2.60.120.10	Mainly Beta	Sandwich	Jelly Rolls	Jelly Rolls	CATH (4.3.0)
F	2.60.120.10	Mainly Beta	Sandwich	Jelly Rolls	Jelly Rolls	CATH (4.3.0)
G	2.60.120.10	Mainly Beta	Sandwich	Jelly Rolls	Jelly Rolls	CATH (4.3.0)
H	2.60.120.10	Mainly Beta	Sandwich	Jelly Rolls	Jelly Rolls	CATH (4.3.0)
I	2.60.120.10	Mainly Beta	Sandwich	Jelly Rolls	Jelly Rolls	CATH (4.3.0)
J	2.60.120.10	Mainly Beta	Sandwich	Jelly Rolls	Jelly Rolls	CATH (4.3.0)
K	2.60.120.10	Mainly Beta	Sandwich	Jelly Rolls	Jelly Rolls	CATH (4.3.0)
L	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 [auth C], C [auth D], D [auth B], E, A, B [auth C], C [auth D], D [auth B], E, F, G, H, I, J, K, L	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 [auth C], C [auth D], D [auth B], E, A, B [auth C], C [auth D], D [auth B], E, F, G, H, I, J, K, L	hypothetical 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	carbohydrate derivative biosynthetic process nucleotide-sugar 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 organic cyclic compound metabolic process organic substance metabolic process biosynthetic process nucleobase-containing small molecule metabolic process organic cyclic compound biosynthetic process organic substance biosynthetic process carbohydrate derivative biosynthetic process nucleotide-sugar 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 organic cyclic compound metabolic process organic substance metabolic process biosynthetic process nucleobase-containing small molecule metabolic process organic cyclic compound biosynthetic process organic substance biosynthetic process small molecule metabolic process metabolic process nucleotide-sugar biosynthetic process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B [auth C], C [auth D], D [auth B], E, A, B [auth C], C [auth D], D [auth B], E, F, G, H, I, J, K, L	IPR000888	dTDP-4-dehydrorhamnose 3,5-epimerase-like	Family
A, B [auth C], C [auth D], D [auth B], E, A, B [auth C], C [auth D], D [auth B], E, F, G, H, I, J, K, L	IPR011051	RmlC-like cupin domain superfamily	Homologous Superfamily
A, B [auth C], C [auth D], D [auth B], E, A, B [auth C], C [auth D], D [auth B], E, F, G, H, I, J, K, L	IPR014710	RmlC-like jelly roll fold	Homologous Superfamily

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.