3P13 | pdb_00003p13

Complex Structure of D-ribose Pyranase Sa240 with D-ribose

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)
D	d3p13d_	Alpha and beta proteins (a/b)	RbsD-like	RbsD-like	automated matches	automated matches	(Staphylococcus aureus subsp. aureus NCTC 8325 ) [TaxId: 93061 ],	SCOPe (2.08)
C	d3p13c_	Alpha and beta proteins (a/b)	RbsD-like	RbsD-like	automated matches	automated matches	(Staphylococcus aureus subsp. aureus NCTC 8325 ) [TaxId: 93061 ],	SCOPe (2.08)
B	d3p13b_	Alpha and beta proteins (a/b)	RbsD-like	RbsD-like	automated matches	automated matches	(Staphylococcus aureus subsp. aureus NCTC 8325 ) [TaxId: 93061 ],	SCOPe (2.08)
A	d3p13a_	Alpha and beta proteins (a/b)	RbsD-like	RbsD-like	automated matches	automated matches	(Staphylococcus aureus subsp. aureus NCTC 8325 ) [TaxId: 93061 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
D	SCOP2B Superfamily	RbsD-like	8080473	3000903	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	RbsD-like	8080473	3000903	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	RbsD-like	8080473	3000903	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	RbsD-like	8080473	3000903	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)
D	PQQ_2	e3p13D1	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: Zn-dependent exopeptidases	T: Zn-dependent exopeptidases	F: PQQ_2	ECOD (v294.1)
C	PQQ_2	e3p13C1	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: Zn-dependent exopeptidases	T: Zn-dependent exopeptidases	F: PQQ_2	ECOD (v294.1)
B	PQQ_2	e3p13B1	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: Zn-dependent exopeptidases	T: Zn-dependent exopeptidases	F: PQQ_2	ECOD (v294.1)
A	PQQ_2	e3p13A1	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: Zn-dependent exopeptidases	T: Zn-dependent exopeptidases	F: PQQ_2	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D	3.40.1650.10	Alpha Beta	3-Layer(aba) Sandwich	RbsD-like fold	RbsD-like domain	CATH (4.3.0)
C	3.40.1650.10	Alpha Beta	3-Layer(aba) Sandwich	RbsD-like fold	RbsD-like domain	CATH (4.3.0)
B	3.40.1650.10	Alpha Beta	3-Layer(aba) Sandwich	RbsD-like fold	RbsD-like domain	CATH (4.3.0)
A	3.40.1650.10	Alpha Beta	3-Layer(aba) Sandwich	RbsD-like fold	RbsD-like domain	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	D-ribose pyranase	isomerase activity D-ribose pyranase activity catalytic activity intramolecular transferase activity intramolecular lyase activity binding monosaccharide binding carbohydrate binding small molecule binding	monosaccharide metabolic process carbohydrate metabolic process catabolic process carbohydrate catabolic process primary metabolic process small molecule metabolic process metabolic process cellular process pentose metabolic process monosaccharide catabolic process small molecule catabolic process pentose catabolic process D-ribose metabolic process D-ribose catabolic process	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR023750	RbsD-like superfamily	Homologous Superfamily
A, B, C, D	IPR007721	D-ribose pyranase RbsD/L-fucose mutarotase FucU	Family
A, B, C, D	IPR023064	D-ribose pyranase	Family

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.