8CTG

Extracellular architecture of an engineered canonical Wnt signaling ternary complex

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Frizzled domain-like	8034042	3001950	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Proto-oncogene Wnt3 C-terminal domain-like	8093180	3002689	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Serum amyloid A (SAA)-like	8093177	3002198	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)
A	PF01392	e8ctgA1	A: few secondary structure elements	X: Frizzled cysteine-rich domain-related (From Topology)	H: Frizzled cysteine-rich domain-related (From Topology)	T: Frizzled cysteine-rich domain-related	F: PF01392	ECOD (1.6)
B	PF00110	e8ctgB1	A: alpha arrays	X: Protein Wnt-8 (From Topology)	H: Protein Wnt-8 (From Topology)	T: Protein Wnt-8	F: PF00110	ECOD (1.6)
C	PF00058	e8ctgC1	A: beta duplicates or obligate multimers	X: beta-propeller-like	H: beta-propeller	T: 6-bladed	F: PF00058	ECOD (1.6)
C	PF14670	e8ctgC4	A: few secondary structure elements	X: EGF-like	H: EGF-related	T: EGF/Laminin	F: PF14670	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF01392	Fz domain (Fz)	Fz domain	Also known as the CRD (cysteine rich domain), the C6 box in MuSK receptor. This domain of unknown function has been independently identified by several groups [1,2,3,4]. The domain contains 10 conserved cysteines.	Domain
B	PF00110	wnt family (wnt)	wnt family	-	Family
C	PF14670	Coagulation Factor Xa inhibitory site (FXa_inhibition)	Coagulation Factor Xa inhibitory site	This short domain on coagulation enzyme factor Xa is found to be the target for a potent inhibitor of coagulation, TAK-442 [1].	Domain
C	PF00058	Low-density lipoprotein receptor repeat class B (Ldl_recept_b)	Low-density lipoprotein receptor repeat class B	-	Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Frizzled-8	protein binding binding signaling receptor binding molecular transducer activity transmembrane signaling receptor activity signaling receptor activity Wnt receptor activity G protein-coupled receptor activity PDZ domain binding protein domain specific binding ubiquitin protein ligase binding ubiquitin-like protein ligase binding enzyme binding Wnt-protein binding	developmental process multicellular organismal 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 developmental process multicellular organismal 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 cellular response to stimulus regulation of biological process regulation of cellular process cell surface receptor signaling pathway response to stimulus signaling canonical Wnt signaling pathway biological regulation cell communication cellular process signal transduction Wnt signaling pathway non-canonical Wnt signaling pathway positive regulation of phosphorylation regulation of protein modification process regulation of protein phosphorylation positive regulation of protein metabolic process positive regulation of biological process positive regulation of cellular metabolic process positive regulation of phosphate metabolic process regulation of primary metabolic process positive regulation of metabolic process positive regulation of protein modification process organic substance metabolic process regulation of phosphate metabolic process phosphate-containing compound metabolic process positive regulation of macromolecule metabolic process protein metabolic process positive regulation of protein phosphorylation phosphorus metabolic process protein modification process positive regulation of cellular process organonitrogen compound metabolic process protein phosphorylation positive regulation of phosphorus metabolic process phosphorylation cellular metabolic process regulation of protein metabolic process regulation of cellular metabolic process primary metabolic process regulation of macromolecule metabolic process macromolecule modification regulation of phosphorus metabolic process metabolic process regulation of phosphorylation macromolecule metabolic process regulation of metabolic process cellular developmental process hemopoiesis cell activation cell development mononuclear cell differentiation lymphocyte activation lymphocyte differentiation leukocyte activation T cell differentiation in thymus T cell activation immune system process cell differentiation T cell differentiation leukocyte differentiation	membrane-bounded organelle intracellular organelle intracellular anatomical structure Golgi apparatus organelle cytoplasm cellular anatomical entity intracellular membrane-bounded organelle endomembrane system dense core granule intracellular vesicle cytoplasmic vesicle secretory granule secretory vesicle membrane-bounded organelle intracellular organelle intracellular anatomical structure Golgi apparatus organelle cytoplasm cellular anatomical entity intracellular membrane-bounded organelle endomembrane system dense core granule intracellular vesicle cytoplasmic vesicle secretory granule secretory vesicle vesicle neuronal dense core vesicle extracellular region cell periphery plasma membrane membrane protein-containing complex Wnt-Frizzled-LRP5/6 complex plasma membrane protein complex membrane protein complex
B	Protein Wnt-8	protein binding binding enzyme binding protease binding signaling receptor binding G protein-coupled receptor binding frizzled binding	developmental process multicellular organism development multicellular organismal process anterior/posterior axis specification anterior/posterior pattern specification anatomical structure development pattern specification process regionalization axis specification cellular response to stimulus regulation of biological process regulation of cellular process cell surface receptor signaling pathway response to stimulus developmental process multicellular organism development multicellular organismal process anterior/posterior axis specification anterior/posterior pattern specification anatomical structure development pattern specification process regionalization axis specification cellular response to stimulus regulation of biological process regulation of cellular process cell surface receptor signaling pathway response to stimulus signaling canonical Wnt signaling pathway biological regulation cell communication cellular process signal transduction Wnt signaling pathway embryonic axis specification embryonic pattern specification embryo development positive regulation of DNA-binding transcription factor activity cellular biosynthetic process RNA metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process positive regulation of molecular function nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process organic substance metabolic process organic substance biosynthetic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of biosynthetic process cellular metabolic process primary metabolic process regulation of cellular metabolic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of cellular biosynthetic process regulation of molecular function organic cyclic compound metabolic process regulation of gene expression biosynthetic process regulation of DNA-binding transcription factor activity organic cyclic compound biosynthetic process metabolic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription macromolecule metabolic process regulation of metabolic process Spemann organizer formation anatomical structure morphogenesis anatomical structure formation involved in morphogenesis developmental induction stem cell fate commitment cellular developmental process chordate embryonic development mesenchyme development neural crest formation embryo development ending in birth or egg hatching cell differentiation neural crest cell fate commitment neural crest cell differentiation animal organ development tissue development epithelial to mesenchymal transition stem cell differentiation mesenchymal cell differentiation cell fate commitment positive regulation of macromolecule biosynthetic process positive regulation of metabolic process transcription by RNA polymerase II positive regulation of macromolecule metabolic process regulation of transcription by RNA polymerase II positive regulation of nucleobase-containing compound metabolic process positive regulation of transcription by RNA polymerase II positive regulation of RNA metabolic process positive regulation of DNA-templated transcription positive regulation of biological process positive regulation of cellular metabolic process positive regulation of biosynthetic process positive regulation of cellular process positive regulation of RNA biosynthetic process positive regulation of cellular biosynthetic process regulation of developmental process negative regulation of cell fate specification negative regulation of biological process regulation of cell differentiation negative regulation of cell fate commitment negative regulation of cardiac cell fate specification cardiac cell fate specification negative regulation of cellular process cardiac cell fate commitment negative regulation of cell differentiation regulation of multicellular organismal process negative regulation of cardiocyte differentiation system development heart development regulation of cell fate commitment negative regulation of developmental process cell fate specification cardiocyte differentiation circulatory system development regulation of cell fate specification regulation of cardiocyte differentiation regulation of cardiac cell fate specification negative regulation of multicellular organismal process	extracellular region cellular anatomical entity cell periphery extracellular matrix external encapsulating structure collagen-containing extracellular matrix
C	Low-density lipoprotein receptor-related protein 6	protein binding binding signaling receptor binding molecular transducer activity transmembrane signaling receptor activity signaling receptor activity Wnt receptor activity coreceptor activity toxin transmembrane transporter activity transporter activity transmembrane transporter activity enzyme regulator activity molecular function inhibitor activity molecular function regulator activity protein binding binding signaling receptor binding molecular transducer activity transmembrane signaling receptor activity signaling receptor activity Wnt receptor activity coreceptor activity toxin transmembrane transporter activity transporter activity transmembrane transporter activity enzyme regulator activity molecular function inhibitor activity molecular function regulator activity enzyme inhibitor activity kinase inhibitor activity kinase regulator activity G protein-coupled receptor binding frizzled binding lipoprotein particle receptor activity low-density lipoprotein particle receptor activity cargo receptor activity identical protein binding protein homodimerization activity protein dimerization activity Wnt-protein binding	regulation of biological process regulation of cellular process biological regulation positive regulation of biological process cellular process cell cycle regulation of cell cycle positive regulation of cell cycle positive regulation of cellular process cellular response to stimulus response to organic substance response to sterol response to stimulus response to lipid regulation of biological process regulation of cellular process biological regulation positive regulation of biological process cellular process cell cycle regulation of cell cycle positive regulation of cell cycle positive regulation of cellular process cellular response to stimulus response to organic substance response to sterol response to stimulus response to lipid response to alcohol cellular response to organic cyclic compound response to oxygen-containing compound response to cholesterol cellular response to oxygen-containing compound cellular response to chemical stimulus cellular response to alcohol response to chemical cellular response to lipid cellular response to sterol cellular response to organic substance cellular response to cholesterol response to organic cyclic compound positive regulation of cytosolic calcium ion concentration regulation of biological quality developmental process neural crest cell differentiation cellular developmental process animal organ development mesenchyme development tissue development stem cell differentiation cell differentiation anatomical structure development mesenchymal cell differentiation response to hormone response to endogenous stimulus response to organonitrogen compound response to peptide hormone response to nitrogen compound cell surface receptor signaling pathway signaling canonical Wnt signaling pathway cell communication signal transduction Wnt signaling pathway positive regulation of DNA-binding transcription factor activity cellular biosynthetic process RNA metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process positive regulation of molecular function nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process organic substance metabolic process organic substance biosynthetic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of biosynthetic process cellular metabolic process primary metabolic process regulation of cellular metabolic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of cellular biosynthetic process regulation of molecular function organic cyclic compound metabolic process regulation of gene expression biosynthetic process regulation of DNA-binding transcription factor activity organic cyclic compound biosynthetic process metabolic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription macromolecule metabolic process regulation of metabolic process protein localization localization protein localization to cell periphery cellular localization protein localization to plasma membrane cellular macromolecule localization macromolecule localization localization within membrane protein localization to membrane multicellular organismal process chordate embryonic development embryo development neural crest formation epithelial to mesenchymal transition multicellular organism development anatomical structure morphogenesis embryo development ending in birth or egg hatching anatomical structure formation involved in morphogenesis somitogenesis segmentation anterior/posterior pattern specification pattern specification process somite development epithelium development Wnt signaling pathway involved in somitogenesis regionalization regulation of catalytic activity negative regulation of biological process negative regulation of catalytic activity regulation of transferase activity negative regulation of cellular metabolic process negative regulation of kinase activity negative regulation of transferase activity regulation of phosphate metabolic process phosphate-containing compound metabolic process negative regulation of protein modification process phosphorus metabolic process protein modification process negative regulation of protein metabolic process protein phosphorylation phosphorylation regulation of protein metabolic process negative regulation of metabolic process regulation of kinase activity negative regulation of protein phosphorylation macromolecule modification regulation of protein serine/threonine kinase activity regulation of phosphorus metabolic process regulation of protein modification process regulation of protein phosphorylation negative regulation of phosphate metabolic process negative regulation of protein serine/threonine kinase activity negative regulation of cellular process protein metabolic process negative regulation of macromolecule metabolic process organonitrogen compound metabolic process negative regulation of molecular function negative regulation of protein kinase activity regulation of protein kinase activity negative regulation of phosphorus metabolic process regulation of phosphorylation negative regulation of phosphorylation trans-synaptic signaling synaptic signaling anterograde trans-synaptic signaling cell-cell signaling chemical synaptic transmission positive regulation of macromolecule biosynthetic process positive regulation of metabolic process positive regulation of macromolecule metabolic process positive regulation of nucleobase-containing compound metabolic process positive regulation of RNA metabolic process positive regulation of DNA-templated transcription positive regulation of cellular metabolic process positive regulation of biosynthetic process positive regulation of RNA biosynthetic process positive regulation of cellular biosynthetic process head development dopaminergic neuron differentiation brain development nervous system development generation of neurons neurogenesis central nervous system development neuron differentiation midbrain development midbrain dopaminergic neuron differentiation system development cell adhesion cell-cell adhesion import into cell transport intracellular lipid transport organic substance transport intracellular cholesterol transport lipid localization intracellular transport lipid transport organic hydroxy compound transport intracellular sterol transport establishment of localization vesicle-mediated transport establishment of localization in cell receptor-mediated endocytosis involved in cholesterol transport cholesterol transport sterol transport receptor-mediated endocytosis endocytosis transcription by RNA polymerase II regulation of transcription by RNA polymerase II positive regulation of transcription by RNA polymerase II muscle cell apoptotic process smooth muscle cell apoptotic process negative regulation of programmed cell death regulation of apoptotic process regulation of muscle cell apoptotic process regulation of programmed cell death cell death regulation of smooth muscle cell apoptotic process negative regulation of smooth muscle cell apoptotic process negative regulation of apoptotic process negative regulation of muscle cell apoptotic process apoptotic process programmed cell death	cell surface cellular anatomical entity cell periphery plasma membrane membrane membrane microdomain membrane raft protein-containing complex Wnt-Frizzled-LRP5/6 complex plasma membrane protein complex membrane protein complex Wnt signalosome membrane-bounded organelle intracellular organelle cell surface cellular anatomical entity cell periphery plasma membrane membrane membrane microdomain membrane raft protein-containing complex Wnt-Frizzled-LRP5/6 complex plasma membrane protein complex membrane protein complex Wnt signalosome membrane-bounded organelle intracellular organelle intracellular anatomical structure cytoplasmic vesicle organelle intracellular vesicle cytoplasm intracellular membrane-bounded organelle vesicle extracellular region endosome membrane early endosome endosome early endosome membrane endomembrane system cytoplasmic vesicle membrane bounding membrane of organelle vesicle membrane organelle membrane synapse cell junction somatodendritic compartment cell body neuronal cell body endoplasmic reticulum

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR036790	Frizzled cysteine-rich domain superfamily	Homologous Superfamily
A	IPR015526	Frizzled/secreted frizzled-related protein	Family
A	IPR000539	Frizzled/Smoothened, 7TM	Domain
A	IPR041776	Frizzled 8, cysteine-rich domain	Domain
A	IPR020067	Frizzled domain	Domain
A	IPR017981	GPCR, family 2-like, 7TM	Domain
B	IPR005817	Wnt	Family
B	IPR013301	Wnt-8 protein	Family
B	IPR034312	Protein Wnt-8A/8C	Family
B	IPR043158	Wnt, C-terminal domain	Homologous Superfamily
B	IPR018161	Wnt protein, conserved site	Conserved Site
C	IPR011042	Six-bladed beta-propeller, TolB-like	Homologous Superfamily
C	IPR002172	Low-density lipoprotein (LDL) receptor class A repeat	Repeat
C	IPR036055	LDL receptor-like superfamily	Homologous Superfamily
C	IPR000742	EGF-like domain	Domain
C	IPR000033	LDLR class B repeat	Repeat
C	IPR017049	Low density lipoprotein receptor-related protein 5/6	Family
C	IPR023415	Low-density lipoprotein (LDL) receptor class A, conserved site	Conserved Site

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
C	Pharos: O75581	coronary artery disease, autosomal dominant 2 tooth agenesis, selective, 7 triple-negative breast carcinoma acute myeloid leukemia atypical teratoid rhabdoid tumor hereditary spastic paraplegia lung cancer Oligodontia Pick disease tooth agenesis adrenal cortex carcinoma malignant ependymoma osteogenesis imperfecta primitive neuroectodermal tumor astrocytic tumor coronary artery disease, autosomal dominant 2 tooth agenesis, selective, 7 triple-negative breast carcinoma acute myeloid leukemia atypical teratoid rhabdoid tumor hereditary spastic paraplegia lung cancer Oligodontia Pick disease tooth agenesis adrenal cortex carcinoma malignant ependymoma osteogenesis imperfecta primitive neuroectodermal tumor astrocytic tumor glioblastoma large cell medulloblastoma medulloblastoma osteosarcoma progressive supranuclear palsy

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 R01GM133198.