2ICY | pdb_00002icy

Crystal Structure of a Putative UDP-glucose Pyrophosphorylase from Arabidopsis Thaliana with Bound UDP-glucose

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	d2icyb1	All beta proteins	Single-stranded left-handed beta-helix	Trimeric LpxA-like enzymes	GlmU C-terminal domain-like	UDP-glucose pyrophosphorylase 2 (UDPGP 2)	thale cress (Arabidopsis thaliana ) [TaxId: 3702 ],	SCOPe (2.08)
B	d2icyb2	Alpha and beta proteins (a/b)	Nucleotide-diphospho-sugar transferases	Nucleotide-diphospho-sugar transferases	UDP-glucose pyrophosphorylase	UDP-glucose pyrophosphorylase 2 (UDPGP 2)	thale cress (Arabidopsis thaliana ) [TaxId: 3702 ],	SCOPe (2.08)
A	d2icya1	All beta proteins	Single-stranded left-handed beta-helix	Trimeric LpxA-like enzymes	GlmU C-terminal domain-like	UDP-glucose pyrophosphorylase 2 (UDPGP 2)	thale cress (Arabidopsis thaliana ) [TaxId: 3702 ],	SCOPe (2.08)
A	d2icya2	Alpha and beta proteins (a/b)	Nucleotide-diphospho-sugar transferases	Nucleotide-diphospho-sugar transferases	UDP-glucose pyrophosphorylase	UDP-glucose pyrophosphorylase 2 (UDPGP 2)	thale cress (Arabidopsis thaliana ) [TaxId: 3702 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B	SCOP2 Family	GlmU C-terminal domain-like	8030312	4002845	SCOP2 (2022-06-29)
B	SCOP2 Family	UDP-glucose pyrophosphorylase	8030314	4000691	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	Trimeric LpxA-like enzymes	8042691	3001804	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	Nucleotide-diphospho-sugar transferases	8042693	3000077	SCOP2 (2022-06-29)
A	SCOP2B Superfamily	Trimeric LpxA-like enzymes	8042691	3001804	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Nucleotide-diphospho-sugar transferases	8042693	3000077	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	UDPGP	e2icyB1	A: alpha bundles	X: EGF-like	H: LDL receptor-like module	T: LDL receptor-like module	F: UDPGP	ECOD (develop294)
B	HGTP_anticodon	e2icyB2	A: alpha bundles	X: HTH	H: HTH	T: winged helix domain	F: HGTP_anticodon	ECOD (develop294)
A	UDPGP	e2icyA1	A: beta duplicates or obligate multimers	X: Single-stranded left-handed beta-helix	H: Trimeric LpxA-like enzymes	T: Trimeric LpxA-like enzymes	F: UDPGP	ECOD (develop294)
A	NTP_transferase	e2icyA2	A: alpha bundles	X: Nucleotide-diphospho-sugar transferases	H: Nucleotide-diphospho-sugar transferases	T: Nucleotide-diphospho-sugar transferases	F: NTP_transferase	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	3.90.550.10	Alpha Beta	Alpha-Beta Complex	Spore Coat Polysaccharide Biosynthesis Protein SpsA	Chain A	CATH (4.3.0)
B	2.160.10.10	Mainly Beta	3 Solenoid	UDP N-Acetylglucosamine Acyltransferase	domain 1	CATH (4.3.0)
A	3.90.550.10	Alpha Beta	Alpha-Beta Complex	Spore Coat Polysaccharide Biosynthesis Protein SpsA	Chain A	CATH (4.3.0)
A	2.160.10.10	Mainly Beta	3 Solenoid	UDP N-Acetylglucosamine Acyltransferase	domain 1	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF01704	UTP--glucose-1-phosphate uridylyltransferase (UDPGP)	UTP--glucose-1-phosphate uridylyltransferase	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Probable UTP-glucose-1-phosphate uridylyltransferase 2	UTP:glucose-1-phosphate uridylyltransferase activity uridylyltransferase activity transferase activity UTP-monosaccharide-1-phosphate uridylyltransferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups	cell wall modification cell wall organization or biogenesis cell wall organization callose deposition in cell wall cellular component organization polysaccharide localization localization cell wall thickening callose localization macromolecule localization cellular process cellular component organization or biogenesis external encapsulating structure organization sucrose metabolic process cell wall modification cell wall organization or biogenesis cell wall organization callose deposition in cell wall cellular component organization polysaccharide localization localization cell wall thickening callose localization macromolecule localization cellular process cellular component organization or biogenesis external encapsulating structure organization sucrose metabolic process carbohydrate metabolic process oligosaccharide metabolic process primary metabolic process metabolic process disaccharide metabolic process nucleoside phosphate metabolic process UDP-alpha-D-glucose metabolic process nucleotide-sugar metabolic process carbohydrate derivative metabolic process nucleobase-containing compound metabolic process organophosphate metabolic process nucleobase-containing small molecule metabolic process phosphate-containing compound metabolic process small molecule metabolic process phosphorus metabolic process developmental process multicellular organism development multicellular organismal process gametophyte development anatomical structure development pollen development cellular response to stimulus cellular response to nutrient levels response to nutrient levels cellular response to phosphate starvation response to stimulus cellular response to stress response to stress response to starvation cellular response to starvation energy derivation by oxidation of organic compounds glycogen metabolic process generation of precursor metabolites and energy glucan metabolic process polysaccharide metabolic process energy reserve metabolic process macromolecule metabolic process	cell projection pollen tube cellular anatomical structure plasma membrane bounded cell projection intracellular anatomical structure cytoplasm cytosol cell periphery plasma membrane membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR016267	UTP--glucose-1-phosphate uridylyltransferase	Family
A, B	IPR002618	UDPGP family	Family
A, B	IPR029044	Nucleotide-diphospho-sugar transferases	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.