4BSS | pdb_00004bss

Structure of the ectodomain of LGR5 in complex with R-spondin-1 (Fu1Fu2) in P21 crystal form

External Resource: Annotation

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: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
H	SCOP2B Superfamily	Growth factor receptor domain-like	8052293	3000398	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	Growth factor receptor domain-like	8052293	3000398	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Growth factor receptor domain-like	8052293	3000398	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Growth factor receptor domain-like	8052293	3000398	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)
H	Mur_ligase_M	e4bssH1	A: a/b three-layered sandwiches	X: Family A G protein-coupled receptor-like	H: Family A G protein-coupled receptor-like	T: Family A G protein-coupled receptor-like	F: Mur_ligase_M	ECOD (v294.1)
G	Mur_ligase_M	e4bssG1	A: a/b three-layered sandwiches	X: Family A G protein-coupled receptor-like	H: Family A G protein-coupled receptor-like	T: Family A G protein-coupled receptor-like	F: Mur_ligase_M	ECOD (v294.1)
D	Mur_ligase_M	e4bssD1	A: a/b three-layered sandwiches	X: Family A G protein-coupled receptor-like	H: Family A G protein-coupled receptor-like	T: Family A G protein-coupled receptor-like	F: Mur_ligase_M	ECOD (v294.1)
C	Mur_ligase_M	e4bssC1	A: a/b three-layered sandwiches	X: Family A G protein-coupled receptor-like	H: Family A G protein-coupled receptor-like	T: Family A G protein-coupled receptor-like	F: Mur_ligase_M	ECOD (v294.1)
F	CBM_6	e4bssF1	A: a/b three-layered sandwiches	X: PBZ domain	H: PBZ domain	T: PBZ domain	F: CBM_6	ECOD (v294.1)
E		e4bssE4	A: a/b three-layered sandwiches	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F:	ECOD (v294.1)
B		e4bssB5	A: a/b three-layered sandwiches	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F:	ECOD (v294.1)
A		e4bssA5	A: a/b three-layered sandwiches	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F:	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
H	2.10.220.10	Mainly Beta	Ribbon	Hormone Receptor, Insulin-like Growth Factor Receptor 1	Chain A domain 2	CATH (4.3.0)
G	2.10.220.10	Mainly Beta	Ribbon	Hormone Receptor, Insulin-like Growth Factor Receptor 1	Chain A domain 2	CATH (4.3.0)
D	2.10.220.10	Mainly Beta	Ribbon	Hormone Receptor, Insulin-like Growth Factor Receptor 1	Chain A domain 2	CATH (4.3.0)
C	2.10.220.10	Mainly Beta	Ribbon	Hormone Receptor, Insulin-like Growth Factor Receptor 1	Chain A domain 2	CATH (4.3.0)
F	3.80.10.10	Alpha Beta	Alpha-Beta Horseshoe	Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)	Ribonuclease Inhibitor	CATH (4.3.0)
E	3.80.10.10	Alpha Beta	Alpha-Beta Horseshoe	Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)	Ribonuclease Inhibitor	CATH (4.3.0)
B	3.80.10.10	Alpha Beta	Alpha-Beta Horseshoe	Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)	Ribonuclease Inhibitor	CATH (4.3.0)
A	3.80.10.10	Alpha Beta	Alpha-Beta Horseshoe	Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)	Ribonuclease Inhibitor	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
C, D, G, H	PF15913	Furin-like repeat, cysteine-rich (Furin-like_2)	Furin-like repeat, cysteine-rich	The furin-like cysteine rich region has been found in a variety of proteins from eukaryotes that are involved in the mechanism of signal transduction by receptor tyrosine kinases, which involves receptor aggregation.	Domain
A, B, E, F	PF13855	Leucine rich repeat (LRR_8)	Leucine rich repeat	-	Repeat
A, B, E, F	PF01462	Leucine rich repeat N-terminal domain (LRRNT)	Leucine rich repeat N-terminal domain	-	Family
A, B, E, F	PF12799	Leucine Rich repeats (2 copies) (LRR_4)	Leucine Rich repeats (2 copies)	-	Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
C, D, G, H	R-SPONDIN-1	protein binding binding signaling receptor binding G protein-coupled receptor binding heparin binding glycosaminoglycan binding carbohydrate derivative binding sulfur compound binding	cellular response to stimulus positive regulation of cell communication regulation of cellular process positive regulation of signal transduction response to stimulus signaling positive regulation of biological process regulation of signal transduction cell communication positive regulation of response to stimulus positive regulation of Wnt signaling pathway signal transduction Wnt signaling pathway positive regulation of cellular process cellular response to stimulus positive regulation of cell communication regulation of cellular process positive regulation of signal transduction response to stimulus signaling positive regulation of biological process regulation of signal transduction cell communication positive regulation of response to stimulus positive regulation of Wnt signaling pathway signal transduction Wnt signaling pathway positive regulation of cellular process regulation of biological process regulation of signaling cell surface receptor signaling pathway regulation of Wnt signaling pathway biological regulation regulation of response to stimulus regulation of cell communication cellular process positive regulation of signaling positive regulation of phosphorylation regulation of protein modification process regulation of protein phosphorylation positive regulation of protein metabolic process positive regulation of phosphate metabolic process regulation of primary metabolic process positive regulation of metabolic process positive regulation of protein modification 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 protein phosphorylation positive regulation of phosphorus metabolic process phosphorylation regulation of protein metabolic process primary metabolic process regulation of macromolecule metabolic process macromolecule modification metabolic process regulation of phosphorus metabolic process regulation of phosphorylation macromolecule metabolic process regulation of metabolic process regulation of canonical Wnt signaling pathway canonical Wnt signaling pathway positive regulation of canonical Wnt signaling pathway regulation of localization import into cell regulation of cellular component organization receptor internalization regulation of transport transport regulation of receptor-mediated endocytosis regulation of vesicle-mediated transport regulation of receptor internalization establishment of localization vesicle-mediated transport cellular component organization localization cellular component organization or biogenesis endocytosis receptor-mediated endocytosis regulation of endocytosis	cellular anatomical structure extracellular region membrane-bounded organelle intracellular organelle intracellular anatomical structure organelle nucleus intracellular membrane-bounded organelle
A, B, E, F	LEUCINE-RICH REPEAT-CONTAINING G-PROTEIN COUPLED RECEPTOR 5	molecular transducer activity G protein-coupled receptor activity transmembrane signaling receptor activity signaling receptor activity protein-hormone receptor activity	developmental process multicellular organismal process epithelium development cell population proliferation tube development morphogenesis of an epithelium tissue development renal system development epithelial cell proliferation involved in renal tubule morphogenesis tissue morphogenesis anatomical structure morphogenesis multicellular organism development tube morphogenesis anatomical structure development renal tubule development developmental process multicellular organismal process epithelium development cell population proliferation tube development morphogenesis of an epithelium tissue development renal system development epithelial cell proliferation involved in renal tubule morphogenesis tissue morphogenesis anatomical structure morphogenesis multicellular organism development tube morphogenesis anatomical structure development renal tubule development cellular process epithelial tube morphogenesis epithelial cell proliferation renal tubule morphogenesis system development sexual reproduction cellular developmental process reproductive process oogenesis multicellular organismal reproductive process cell development cellular process involved in reproduction in multicellular organism developmental process involved in reproduction female gamete generation gamete generation cell differentiation germ cell development oocyte differentiation ear development sensory organ development inner ear development animal organ development regulation of biological process regulation of cellular process regulation of cell population proliferation biological regulation cellular response to stimulus response to stimulus signaling G protein-coupled receptor signaling pathway signal transduction cell communication epidermis development molting cycle process hair cycle skin development skin epidermis development hair follicle development molting cycle hair cycle process positive regulation of cell communication positive regulation of signal transduction regulation of canonical Wnt signaling pathway canonical Wnt signaling pathway positive regulation of biological process regulation of signal transduction positive regulation of response to stimulus positive regulation of Wnt signaling pathway Wnt signaling pathway positive regulation of cellular process positive regulation of canonical Wnt signaling pathway regulation of signaling cell surface receptor signaling pathway regulation of Wnt signaling pathway regulation of response to stimulus regulation of cell communication positive regulation of signaling	membrane-bounded organelle intracellular anatomical structure Golgi apparatus subcompartment Golgi apparatus organelle subcompartment membrane trans-Golgi network membrane intracellular membrane-bounded organelle endomembrane system intracellular organelle cellular anatomical structure organelle trans-Golgi network cytoplasm membrane-bounded organelle intracellular anatomical structure Golgi apparatus subcompartment Golgi apparatus organelle subcompartment membrane trans-Golgi network membrane intracellular membrane-bounded organelle endomembrane system intracellular organelle cellular anatomical structure organelle trans-Golgi network cytoplasm organelle membrane cell periphery plasma membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C, D, G, H	IPR000884	Thrombospondin type-1 (TSP1) repeat	Repeat
C, D, G, H	IPR043601	R-spondin, Fu-CRD domain	Domain
C, D, G, H	IPR036383	Thrombospondin type-1 repeat superfamily	Homologous Superfamily
C, D, G, H	IPR051514	R-spondin domain-containing protein	Family
C, D, G, H	IPR006212	Furin-like repeat	Repeat
C, D, G, H	IPR009030	Growth factor receptor cysteine-rich domain superfamily	Homologous Superfamily
A, B, E, F	IPR000372	Leucine-rich repeat N-terminal domain	Domain
A, B, E, F	IPR001611	Leucine-rich repeat	Repeat
A, B, E, F	IPR003591	Leucine-rich repeat, typical subtype	Repeat
A, B, E, F	IPR000276	G protein-coupled receptor, rhodopsin-like	Family
A, B, E, F	IPR032675	Leucine-rich repeat domain superfamily	Homologous Superfamily
A, B, E, F	IPR002131	Glycoprotein hormone receptor family	Family
A, B, E, F	IPR017452	GPCR, rhodopsin-like, 7TM	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
C, D, G, H	Pharos: Q2MKA7	palmoplantar keratosis Palmoplantar Hyperkeratosis with Squamous Cell Carcinoma of Skin and Sex Reversal palmoplantar keratoderma-XX sex reversal-predisposition to squamous cell carcinoma syndrome breast cancer erythrokeratoderma ovarian cancer breast carcinoma endometrial carcinoma lung adenocarcinoma ovarian carcinoma osteosarcoma
A, B, E, F	Pharos: O75473	malignant colon neoplasm colorectal cancer nasopharyngeal carcinoma Pick disease Sjogren syndrome atopic eczema colonic neoplasm Colorectal Neoplasms digestive system disease large cell medulloblastoma lung carcinoma malignant pancreatic neoplasm ovarian cancer progressive supranuclear palsy benign colon neoplasm malignant colon neoplasm colorectal cancer nasopharyngeal carcinoma Pick disease Sjogren syndrome atopic eczema colonic neoplasm Colorectal Neoplasms digestive system disease large cell medulloblastoma lung carcinoma malignant pancreatic neoplasm ovarian cancer progressive supranuclear palsy benign colon neoplasm cutaneous lupus erythematosus Duchenne muscular dystrophy limb-girdle muscular dystrophy medulloblastoma pancreatic intraductal papillary-mucinous neoplasm psoriasis cancer colorectal carcinoma cystic fibrosis head and neck cancer lung cancer malignant ependymoma

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.