6C46 | pdb_00006c46

Crystal structure of dTDP-4-dehydrorhamnose 3,5-epimerase from Elizabethkingia anophelis NUHP1

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
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)
E	d6c46e1	All beta proteins	Double-stranded beta-helix	RmlC-like cupins	automated matches	automated matches	(Elizabethkingia anophelis NUHP1 ) [TaxId: 1338011 ],	SCOPe (2.08)
E	d6c46e2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Elizabethkingia anophelis NUHP1 ) [TaxId: 1338011 ],	SCOPe (2.08)
D	d6c46d1	All beta proteins	Double-stranded beta-helix	RmlC-like cupins	automated matches	automated matches	(Elizabethkingia anophelis NUHP1 ) [TaxId: 1338011 ],	SCOPe (2.08)
D	d6c46d2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Elizabethkingia anophelis NUHP1 ) [TaxId: 1338011 ],	SCOPe (2.08)
C	d6c46c1	All beta proteins	Double-stranded beta-helix	RmlC-like cupins	automated matches	automated matches	(Elizabethkingia anophelis NUHP1 ) [TaxId: 1338011 ],	SCOPe (2.08)
C	d6c46c2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Elizabethkingia anophelis NUHP1 ) [TaxId: 1338011 ],	SCOPe (2.08)
B	d6c46b1	All beta proteins	Double-stranded beta-helix	RmlC-like cupins	automated matches	automated matches	(Elizabethkingia anophelis NUHP1 ) [TaxId: 1338011 ],	SCOPe (2.08)
B	d6c46b2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Elizabethkingia anophelis NUHP1 ) [TaxId: 1338011 ],	SCOPe (2.08)
A	d6c46a1	All beta proteins	Double-stranded beta-helix	RmlC-like cupins	automated matches	automated matches	(Elizabethkingia anophelis NUHP1 ) [TaxId: 1338011 ],	SCOPe (2.08)
A	d6c46a2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Elizabethkingia anophelis NUHP1 ) [TaxId: 1338011 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
E	SCOP2B Superfamily	RmlC-like cupins	8063624	3001825	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	RmlC-like cupins	8063624	3001825	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	RmlC-like cupins	8063624	3001825	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	RmlC-like cupins	8063624	3001825	SCOP2B (2022-06-29)
A	SCOP2 Family	dTDP-sugar isomerase	8063623	4002863	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	RmlC-like cupins	8063624	3001825	SCOP2 (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
E	SAM_KSR1_N	e6c46E1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: SAM_KSR1_N	ECOD (v294.1)
D	SAM_KSR1_N	e6c46D1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: SAM_KSR1_N	ECOD (v294.1)
C	SAM_KSR1_N	e6c46C1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: SAM_KSR1_N	ECOD (v294.1)
B	SAM_KSR1_N	e6c46B1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: SAM_KSR1_N	ECOD (v294.1)
A	14-3-3	e6c46A1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: 14-3-3	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

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

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E	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 cation binding ion binding binding metal ion binding small molecule binding	nucleoside phosphate metabolic 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 nucleobase-containing compound metabolic process biosynthetic process organophosphate metabolic process organophosphate biosynthetic process nucleobase-containing small molecule metabolic process nucleoside phosphate biosynthetic process phosphate-containing compound metabolic process nucleoside phosphate metabolic 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 nucleobase-containing compound metabolic process biosynthetic process organophosphate metabolic process organophosphate biosynthetic process nucleobase-containing small molecule metabolic process nucleoside phosphate biosynthetic process phosphate-containing compound metabolic process metabolic process cellular process small molecule metabolic process nucleotide-sugar biosynthetic process phosphorus metabolic process carbohydrate metabolic process polysaccharide metabolic process polysaccharide biosynthetic process carbohydrate biosynthetic process macromolecule metabolic process macromolecule biosynthetic process	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E	IPR000888	dTDP-4-dehydrorhamnose 3,5-epimerase-like	Family
A, B, C, D, E	IPR011051	RmlC-like cupin domain superfamily	Homologous Superfamily
A, B, C, D, E	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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.