3Q4S | pdb_00003q4s

Crystal Structure of Human Glycogenin-1 (GYG1), apo form

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
Pharos: Disease Associations

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d3q4sa1	Alpha and beta proteins (a/b)	Nucleotide-diphospho-sugar transferases	Nucleotide-diphospho-sugar transferases	Glycogenin	Glycogenin	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d3q4sa2	Artifacts	Tags	Tags	Tags	N-terminal Tags	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	Glycogenin	8077335	4002419	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Nucleotide-diphospho-sugar transferases	8077336	3000077	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)
A	Macro	e3q4sA1	A: a/b three-layered sandwiches	X: N-terminal beta-sandwich domain in anthrax protective antigen	H: Macro domain-like	T: Macro domain-like	F: Macro	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.90.550.10	Alpha Beta	Alpha-Beta Complex	Spore Coat Polysaccharide Biosynthesis Protein SpsA	Chain A	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF01501	Glycosyl transferase family 8 (Glyco_transf_8)	Glycosyl transferase family 8	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Glycogenin-1	glycosyltransferase activity transferase activity catalytic activity identical protein binding protein binding binding protein homodimerization activity protein dimerization activity UDP-glycosyltransferase activity glycogenin glucosyltransferase activity glucosyltransferase activity hexosyltransferase activity UDP-glucosyltransferase activity cation binding glycosyltransferase activity transferase activity catalytic activity identical protein binding protein binding binding protein homodimerization activity protein dimerization activity UDP-glycosyltransferase activity glycogenin glucosyltransferase activity glucosyltransferase activity hexosyltransferase activity UDP-glucosyltransferase activity cation binding manganese ion binding transition metal ion binding ion binding metal ion binding small molecule binding	carbohydrate metabolic process glucan biosynthetic process polysaccharide biosynthetic process energy derivation by oxidation of organic compounds carbohydrate biosynthetic process glycogen metabolic process primary metabolic process generation of precursor metabolites and energy glycogen biosynthetic process macromolecule biosynthetic process polysaccharide metabolic process glucan metabolic process biosynthetic process glycogen biosynthetic process via UDP-glucose carbohydrate metabolic process glucan biosynthetic process polysaccharide biosynthetic process energy derivation by oxidation of organic compounds carbohydrate biosynthetic process glycogen metabolic process primary metabolic process generation of precursor metabolites and energy glycogen biosynthetic process macromolecule biosynthetic process polysaccharide metabolic process glucan metabolic process biosynthetic process glycogen biosynthetic process via UDP-glucose metabolic process cellular process energy reserve metabolic process macromolecule metabolic process	cellular anatomical structure membrane extracellular region membrane-bounded organelle intracellular anatomical structure membrane-enclosed lumen lytic vacuole vacuolar lumen vacuole intracellular membrane-bounded organelle lysosomal lumen intracellular organelle lumen intracellular organelle organelle lumen cellular anatomical structure membrane extracellular region membrane-bounded organelle intracellular anatomical structure membrane-enclosed lumen lytic vacuole vacuolar lumen vacuole intracellular membrane-bounded organelle lysosomal lumen intracellular organelle lumen intracellular organelle organelle lumen organelle cytoplasm lysosome vesicle lumen intracellular vesicle cytoplasmic vesicle lumen secretory granule lumen endomembrane system cytoplasmic vesicle secretory granule secretory vesicle vesicle cytosol ficolin-1-rich granule ficolin-1-rich granule lumen nucleus

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR050587	GNT1/Glycosyltransferase 8	Family
A	IPR002495	Glycosyl transferase, family 8	Family
A	IPR029044	Nucleotide-diphospho-sugar transferases	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: P46976	glycogen storage disease XV glycogen storage disease polyglucosan body myopathy type 2 Muscle Weakness plasma cell myeloma coronary artery disease inborn errors of metabolism lymphoplasmacytic lymphoma ovarian cancer pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia astrocytic tumor malignant colon neoplasm myocardial ischemia pancreatic intraductal papillary-mucinous carcinoma pituitary cancer glycogen storage disease XV glycogen storage disease polyglucosan body myopathy type 2 Muscle Weakness plasma cell myeloma coronary artery disease inborn errors of metabolism lymphoplasmacytic lymphoma ovarian cancer pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia astrocytic tumor malignant colon neoplasm myocardial ischemia pancreatic intraductal papillary-mucinous carcinoma pituitary cancer rhabdomyolysis large cell medulloblastoma medulloblastoma osteosarcoma pancreatic intraductal papillary-mucinous neoplasm

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.