4PXQ | pdb_00004pxq

Crystal structure of D-glucuronyl C5-epimerase in complex with heparin hexasaccharide

External Resource: Annotation

Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
B		e4pxqB1	A: P-loop domains-like	X: P-loop domains-related	H: P-loop containing nucleoside triphosphate hydrolases	T: Multi_Drug_Res	F:	ECOD (20:10:01)
A		e4pxqA1	A: P-loop domains-like	X: P-loop domains-related	H: P-loop containing nucleoside triphosphate hydrolases	T: Glce_b_sandwich	F:	ECOD (20:10:01)
A		e4pxqA2	A: P-loop domains-like	X: P-loop domains-related	H: P-loop containing nucleoside triphosphate hydrolases	T: C5-epim_C	F:	ECOD (20:10:01)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF21174	D-glucuronyl C5-epimerase, beta-sandwich domain (Glce_b_sandwich)	D-glucuronyl C5-epimerase, beta-sandwich domain	This domain is found centrally in D-glucuronyl C5-epimerase from humans (Glce) and similar proteins involved in glycan metabolism and heparin biosynthesis in animals. Glce is essential for the reversible epimerisation of D-glucuronic acid (GlcA) into ...	This domain is found centrally in D-glucuronyl C5-epimerase from humans (Glce) and similar proteins involved in glycan metabolism and heparin biosynthesis in animals. Glce is essential for the reversible epimerisation of D-glucuronic acid (GlcA) into L-iduronic acid (IdoA), contributing to generate functional protein-binding motifs to ensure polymer function. This protein consists of three intertwined domains. This entry represents a classical beta-sandwich domain that consists predominantly of a convex four-stranded beta- -sheet and a concave seven-stranded beta-sheet. It is inserted between two of the helices of the C-terminal alpha-barrel domain (whose most C-terminal region is represented by Pfam:PF06662) [1,2].	Domain
A, B	PF06662	D-glucuronyl C5-epimerase C-terminus (C5-epim_C)	D-glucuronyl C5-epimerase C-terminus	-	Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	D-glucuronyl C5 epimerase B	isomerase activity heparosan-N-sulfate-glucuronate 5-epimerase activity racemase and epimerase activity racemase and epimerase activity, acting on carbohydrates and derivatives catalytic activity cation binding ion binding binding metal ion binding small molecule binding identical protein binding protein binding	carbohydrate derivative biosynthetic process heparin proteoglycan biosynthetic process glycoprotein biosynthetic process carbohydrate derivative metabolic process primary metabolic process glycoprotein metabolic process macromolecule biosynthetic process biosynthetic process protein O-linked glycosylation via xylose protein O-linked glycosylation metabolic process cellular process protein metabolic process macromolecule metabolic process carbohydrate derivative biosynthetic process heparin proteoglycan biosynthetic process glycoprotein biosynthetic process carbohydrate derivative metabolic process primary metabolic process glycoprotein metabolic process macromolecule biosynthetic process biosynthetic process protein O-linked glycosylation via xylose protein O-linked glycosylation metabolic process cellular process protein metabolic process macromolecule metabolic process proteoglycan metabolic process heparin proteoglycan metabolic process proteoglycan biosynthetic process heparan sulfate proteoglycan biosynthetic process heparan sulfate proteoglycan metabolic process	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure Golgi apparatus organelle cytoplasm intracellular membrane-bounded organelle endomembrane system Golgi membrane membrane bounding membrane of organelle organelle membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR039721	D-glucuronyl C5-epimerase	Family
A, B	IPR059154	D-glucuronyl C5-epimerase, beta-sandwich domain	Domain
A, B	IPR010598	D-glucuronyl C5-epimerase, C-terminal	Domain

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.