2UX2 | pdb_00002ux2

High resolution structure of human CD59

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)
C	d2ux2c2	Small proteins	Snake toxin-like	Snake toxin-like	Extracellular domain of cell surface receptors	CD59	HUMAN (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C	d2ux2c3	Artifacts	Tags	Tags	Tags	N-terminal Tags	HUMAN (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d2ux2b2	Small proteins	Snake toxin-like	Snake toxin-like	Extracellular domain of cell surface receptors	CD59	HUMAN (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d2ux2b3	Artifacts	Tags	Tags	Tags	N-terminal Tags	HUMAN (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d2ux2a2	Small proteins	Snake toxin-like	Snake toxin-like	Extracellular domain of cell surface receptors	CD59	HUMAN (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d2ux2a3	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)
C	SCOP2B Superfamily	Snake toxin-like	8034633	3000545	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Snake toxin-like	8034633	3000545	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Snake toxin-like	8034633	3000545	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)
C	UPAR_LY6	e2ux2C1	A: alpha bundles	X: EGF-like	H: LDL receptor-like module	T: LDL receptor-like module	F: UPAR_LY6	ECOD (develop294)
B	UPAR_LY6	e2ux2B1	A: alpha bundles	X: EGF-like	H: LDL receptor-like module	T: LDL receptor-like module	F: UPAR_LY6	ECOD (develop294)
A	UPAR_LY6	e2ux2A1	A: alpha bundles	X: EGF-like	H: LDL receptor-like module	T: LDL receptor-like module	F: UPAR_LY6	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
C	2.10.60.10	Mainly Beta	Ribbon	CD59	CD59	CATH (4.3.0)
B	2.10.60.10	Mainly Beta	Ribbon	CD59	CD59	CATH (4.3.0)
A	2.10.60.10	Mainly Beta	Ribbon	CD59	CD59	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C	PF25152	CD59 glycoprotein (CD59)	CD59 glycoprotein	This entry represents the human CD59 glycoprotein and related proteins. CD59 is a cell-surface glycoprotein that protects host cells from complement-mediated lysis. It binds to and prevents the normal functioning of the complement proteins C8 and C9 ...	This entry represents the human CD59 glycoprotein and related proteins. CD59 is a cell-surface glycoprotein that protects host cells from complement-mediated lysis. It binds to and prevents the normal functioning of the complement proteins C8 and C9 which form part of a membrane penetrating assembly called the membrane attack complex. CD59 folds into a compact domain with a central three-stranded antiparallel beta-sheet and a two-stranded antiparallel beta-sheet located on one side of it. This structure is stabilised by disulfide bonds and has a significant similarity to the snake venom neurotoxins and other members of the uPAR/Ly6/CD59/snake toxin-receptor superfamily [1]. CD59 binds the pore-forming beta-hairpins of C8 to form an intermolecular beta-sheet that prevents membrane perforation. While bound to C8, CD59 deflects the cascading C9 beta-hairpins, rerouting their trajectory into the membrane [2].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C	CD59 GLYCOPROTEIN	protein binding binding complement binding molecular sequestering activity protein sequestering activity	multicellular organismal process regulation of body fluid levels wound healing response to stimulus hemostasis biological regulation blood coagulation response to stress coagulation regulation of biological quality response to wounding regulation of humoral immune response regulation of immune effector process humoral immune response multicellular organismal process regulation of body fluid levels wound healing response to stimulus hemostasis biological regulation blood coagulation response to stress coagulation regulation of biological quality response to wounding regulation of humoral immune response regulation of immune effector process humoral immune response positive regulation of biological process negative regulation of biological process negative regulation of complement activation positive regulation of response to stimulus complement activation positive regulation of immune response regulation of immune system process positive regulation of immune system process regulation of biological process immune response negative regulation of response to stimulus negative regulation of immune response negative regulation of immune effector process negative regulation of humoral immune response immune effector process regulation of response to stimulus negative regulation of immune system process immune system process regulation of immune response regulation of complement activation activation of immune response regulation of cellular process regulation of complement-dependent cytotoxicity cellular process regulation of cell killing complement-dependent cytotoxicity cell killing negative regulation of cellular process negative regulation of complement-dependent cytotoxicity negative regulation of cell killing cellular response to stimulus cell surface receptor signaling pathway signaling signal transduction cell communication activation of membrane attack complex negative regulation of activation of membrane attack complex regulation of activation of membrane attack complex	membrane-bounded organelle intracellular anatomical structure tertiary granule membrane membrane intracellular vesicle intracellular membrane-bounded organelle endomembrane system tertiary granule intracellular organelle cytoplasmic vesicle membrane cellular anatomical structure bounding membrane of organelle vesicle membrane cytoplasmic vesicle membrane-bounded organelle intracellular anatomical structure tertiary granule membrane membrane intracellular vesicle intracellular membrane-bounded organelle endomembrane system tertiary granule intracellular organelle cytoplasmic vesicle membrane cellular anatomical structure bounding membrane of organelle vesicle membrane cytoplasmic vesicle organelle secretory granule secretory vesicle cytoplasm vesicle organelle membrane secretory granule membrane anchoring junction cell junction focal adhesion cell-substrate junction specific granule membrane specific granule cell periphery cell surface plasma membrane external side of plasma membrane side of membrane extracellular exosome extracellular vesicle extracellular organelle extracellular region extracellular space extracellular membrane-bounded organelle transport vesicle organelle subcompartment endoplasmic reticulum subcompartment nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum endoplasmic reticulum membrane Golgi membrane Golgi apparatus endoplasmic reticulum-Golgi intermediate compartment membrane endoplasmic reticulum-Golgi intermediate compartment transport vesicle membrane coated vesicle membrane COPII-coated ER to Golgi transport vesicle ER to Golgi transport vesicle membrane coated vesicle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C	IPR045860	Snake toxin-like superfamily	Homologous Superfamily
A, B, C	IPR016054	Ly-6 antigen/uPA receptor-like	Domain
A, B, C	IPR018363	CD59 antigen, conserved site	Conserved Site
A, B, C	IPR056949	CD59 glycoprotein	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B, C	Pharos: P13987	primary CD59 deficiency familial hemolytic anemia psoriasis acute myeloid leukemia congenital anemia esophageal adenocarcinoma hemolytic anemia malignant mesothelioma ovarian cancer spina bifida breast cancer Cytopenia large cell medulloblastoma medulloblastoma pilocytic astrocytoma primary CD59 deficiency familial hemolytic anemia psoriasis acute myeloid leukemia congenital anemia esophageal adenocarcinoma hemolytic anemia malignant mesothelioma ovarian cancer spina bifida breast cancer Cytopenia large cell medulloblastoma medulloblastoma pilocytic astrocytoma proteinuria breast carcinoma Down syndrome glioblastoma lung cancer osteosarcoma plasma cell myeloma

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.