6W2L

Crystal structure of human dehydrodolichyl diphosphate synthase (NgBR/DHDDS) in complex with Mg and IPP

External Resource: Annotation

Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations
Membrane Protein Annotation: OPM

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
B	Prenyltransf	e6w2lB1	A: a/b three-layered sandwiches	X: Undecaprenyl diphosphate synthase (From Topology)	H: Undecaprenyl diphosphate synthase (From Topology)	T: Undecaprenyl diphosphate synthase	F: Prenyltransf	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF01255	Putative undecaprenyl diphosphate synthase (Prenyltransf)	Putative undecaprenyl diphosphate synthase	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Dehydrodolichyl diphosphate synthase complex subunit DHDDS	prenyltransferase activity transferase activity transferase activity, transferring alkyl or aryl (other than methyl) groups catalytic activity dehydrodolichyl diphosphate synthase activity cation binding ion binding binding metal ion binding small molecule binding	polyprenol metabolic process polyprenol biosynthetic process small molecule biosynthetic process isoprenoid biosynthetic process cellular biosynthetic process organic hydroxy compound metabolic process cellular metabolic process lipid biosynthetic process alcohol metabolic process primary metabolic process organic substance metabolic process biosynthetic process organic hydroxy compound biosynthetic process cellular lipid metabolic process alcohol biosynthetic process polyprenol metabolic process polyprenol biosynthetic process small molecule biosynthetic process isoprenoid biosynthetic process cellular biosynthetic process organic hydroxy compound metabolic process cellular metabolic process lipid biosynthetic process alcohol metabolic process primary metabolic process organic substance metabolic process biosynthetic process organic hydroxy compound biosynthetic process cellular lipid metabolic process alcohol biosynthetic process organic substance biosynthetic process small molecule metabolic process metabolic process cellular process isoprenoid metabolic process lipid metabolic process dolichol-linked oligosaccharide biosynthetic process organonitrogen compound biosynthetic process carbohydrate derivative metabolic process phospholipid metabolic process oligosaccharide-lipid intermediate biosynthetic process phosphate-containing compound metabolic process protein metabolic process phosphorus metabolic process protein modification process dolichol metabolic process dolichyl diphosphate biosynthetic process carbohydrate derivative biosynthetic process organonitrogen compound metabolic process dolichyl diphosphate metabolic process glycoprotein biosynthetic process glycoprotein metabolic process protein N-linked glycosylation protein glycosylation macromolecule biosynthetic process phospholipid biosynthetic process organophosphate metabolic process glycosylation organophosphate biosynthetic process macromolecule modification macromolecule glycosylation macromolecule metabolic process	protein-containing complex catalytic complex polyprenyl diphosphate synthase complex transferase complex dehydrodolichyl diphosphate synthase complex membrane-bounded organelle intracellular organelle intracellular anatomical structure organelle endoplasmic reticulum cytoplasm cellular anatomical entity intracellular membrane-bounded organelle endomembrane system protein-containing complex catalytic complex polyprenyl diphosphate synthase complex transferase complex dehydrodolichyl diphosphate synthase complex membrane-bounded organelle intracellular organelle intracellular anatomical structure organelle endoplasmic reticulum cytoplasm cellular anatomical entity intracellular membrane-bounded organelle endomembrane system organelle subcompartment membrane endoplasmic reticulum subcompartment nuclear outer membrane-endoplasmic reticulum membrane network organelle membrane endoplasmic reticulum membrane
B	Dehydrodolichyl diphosphate synthase complex subunit NUS1	prenyltransferase activity transferase activity transferase activity, transferring alkyl or aryl (other than methyl) groups catalytic activity dehydrodolichyl diphosphate synthase activity cation binding ion binding binding metal ion binding small molecule binding	polyprenol metabolic process dolichol-linked oligosaccharide biosynthetic process cellular biosynthetic process organic hydroxy compound metabolic process organonitrogen compound biosynthetic process lipid biosynthetic process carbohydrate derivative metabolic process alcohol metabolic process phospholipid metabolic process oligosaccharide-lipid intermediate biosynthetic process organic substance metabolic process phosphate-containing compound metabolic process organic substance biosynthetic process small molecule metabolic process polyprenol metabolic process dolichol-linked oligosaccharide biosynthetic process cellular biosynthetic process organic hydroxy compound metabolic process organonitrogen compound biosynthetic process lipid biosynthetic process carbohydrate derivative metabolic process alcohol metabolic process phospholipid metabolic process oligosaccharide-lipid intermediate biosynthetic process organic substance metabolic process phosphate-containing compound metabolic process organic substance biosynthetic process small molecule metabolic process protein metabolic process phosphorus metabolic process protein modification process dolichol metabolic process dolichyl diphosphate biosynthetic process carbohydrate derivative biosynthetic process organonitrogen compound metabolic process dolichyl diphosphate metabolic process cellular metabolic process glycoprotein biosynthetic process primary metabolic process glycoprotein metabolic process protein N-linked glycosylation protein glycosylation macromolecule biosynthetic process phospholipid biosynthetic process biosynthetic process organophosphate metabolic process glycosylation organophosphate biosynthetic process macromolecule modification macromolecule glycosylation cellular lipid metabolic process metabolic process cellular process macromolecule metabolic process lipid metabolic process isoprenoid metabolic process protein mannosylation mannosylation developmental process cellular developmental process cell differentiation multicellular organismal process positive regulation of locomotion regulation of cell motility regulation of cellular process regulation of blood vessel endothelial cell migration endothelial cell migration positive regulation of biological process positive regulation of cell migration positive regulation of epithelial cell migration tissue migration ameboidal-type cell migration positive regulation of cell motility regulation of cell migration blood vessel endothelial cell migration regulation of endothelial cell migration epithelial cell migration cell migration regulation of multicellular organismal process cell motility regulation of epithelial cell migration locomotion positive regulation of cellular process regulation of biological process biological regulation positive regulation of blood vessel endothelial cell migration epithelium migration regulation of locomotion positive regulation of endothelial cell migration regulation of catalytic activity positive regulation of catalytic activity regulation of oxidoreductase activity positive regulation of oxidoreductase activity positive regulation of nitric-oxide synthase activity regulation of molecular function positive regulation of molecular function regulation of monooxygenase activity positive regulation of monooxygenase activity regulation of nitric-oxide synthase activity polyprenol biosynthetic process small molecule biosynthetic process isoprenoid biosynthetic process dolichol biosynthetic process organic hydroxy compound biosynthetic process alcohol biosynthetic process blood vessel morphogenesis tube development angiogenesis vasculature development circulatory system development multicellular organism development anatomical structure morphogenesis tube morphogenesis anatomical structure development anatomical structure formation involved in morphogenesis blood vessel development system development regulation of localization cellular localization transport regulation of intracellular sterol transport intracellular cholesterol transport regulation of lipid transport organic hydroxy compound transport intracellular sterol transport localization regulation of intracellular cholesterol transport establishment of localization in cell sterol transport regulation of cholesterol transport regulation of intracellular transport regulation of sterol transport regulation of transport intracellular lipid transport organic substance transport regulation of intracellular lipid transport lipid localization lipid transport intracellular transport establishment of localization regulation of lipid localization regulation of cellular localization macromolecule localization cholesterol transport cellular response to stimulus cellular response to growth factor stimulus cell surface receptor signaling pathway response to stimulus signaling response to endogenous stimulus cell surface receptor protein tyrosine kinase signaling pathway cell communication vascular endothelial growth factor signaling pathway cellular response to endogenous stimulus cellular response to vascular endothelial growth factor stimulus signal transduction response to growth factor enzyme-linked receptor protein signaling pathway sterol homeostasis chemical homeostasis homeostatic process cholesterol homeostasis lipid homeostasis	protein-containing complex catalytic complex polyprenyl diphosphate synthase complex transferase complex dehydrodolichyl diphosphate synthase complex membrane-bounded organelle intracellular anatomical structure organelle subcompartment membrane cellular anatomical entity intracellular membrane-bounded organelle endomembrane system endoplasmic reticulum subcompartment intracellular organelle protein-containing complex catalytic complex polyprenyl diphosphate synthase complex transferase complex dehydrodolichyl diphosphate synthase complex membrane-bounded organelle intracellular anatomical structure organelle subcompartment membrane cellular anatomical entity intracellular membrane-bounded organelle endomembrane system endoplasmic reticulum subcompartment intracellular organelle organelle nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum cytoplasm organelle membrane endoplasmic reticulum membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR018520	Di-trans-poly-cis-decaprenylcistransferase-like, conserved site	Conserved Site
A	IPR036424	Decaprenyl diphosphate synthase-like superfamily	Homologous Superfamily
A	IPR001441	Decaprenyl diphosphate synthase-like	Family
B	IPR001441	Decaprenyl diphosphate synthase-like	Family
B	IPR038887	Dehydrodolichyl diphosphate synthase complex subunit Nus1	Family
B	IPR036424	Decaprenyl diphosphate synthase-like superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: Q86SQ9	retinitis pigmentosa 59 retinitis pigmentosa cone-rod dystrophy ductal breast carcinoma in situ osteosarcoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia congenital disorder of glycosylation epilepsy pancreatic intraductal papillary-mucinous carcinoma retinal degeneration developmental delay and seizures with or without movement abnormalities invasive ductal breast carcinoma pancreatic intraductal papillary-mucinous neoplasm
B	Pharos: Q96E22	congenital disorder of glycosylation congenital disorder of glycosylation, type IAA melanoma breast cancer Crohn disease inborn errors of metabolism ovarian cancer cutaneous melanoma intellectual disability, autosomal dominant 55, with seizures pancreatic ductal adenocarcinoma endometriosis type 2 diabetes mellitus

Membrane Protein Annotation: OPM OPM Database Homepage

Chains	External Link	Type	Class	Superfamily	Family
A, B	OPM				Putative undecaprenyl diphosphate synthase

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.