Annotations: 3LAQ

Structure-based engineering of species selectivity in the uPA-uPAR interaction

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
D [auth V]	TGF_beta	e3laqV7	A: beta barrels	X: PH domain-like	H: PH domain-like	T: PH domain-like	F: TGF_beta	ECOD (v294.2)
B [auth U]	TGF_beta	e3laqU7	A: beta barrels	X: PH domain-like	H: PH domain-like	T: PH domain-like	F: TGF_beta	ECOD (v294.2)
C [auth B]	adh_short	e3laqB1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: adh_short	ECOD (v294.2)
A		e3laqA1	A: beta barrels	X: EGF-like	H: EGF-related	T: EGF/Laminin	F:	ECOD (v294.2)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D [auth V]	2.10.60.10	Mainly Beta	Ribbon	CD59	CD59	CATH (4.3.0)
B [auth U]	2.10.60.10	Mainly Beta	Ribbon	CD59	CD59	CATH (4.3.0)
C [auth B]	2.10.25.10	Mainly Beta	Ribbon	Laminin	Laminin	CATH (4.3.0)
C [auth B]	2.40.20.10	Mainly Beta	Beta Barrel	Plasminogen Kringle 4	Plasminogen Kringle 4	CATH (4.3.0)
A	2.10.25.10	Mainly Beta	Ribbon	Laminin	Laminin	CATH (4.3.0)
A	2.40.20.10	Mainly Beta	Beta Barrel	Plasminogen Kringle 4	Plasminogen Kringle 4	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B [auth U], D [auth V]	PF00021	u-PAR/Ly-6 domain (UPAR_LY6)	u-PAR/Ly-6 domain	This extracellular disulphide bond rich domain is related to Pfam:PF00087.	Domain
A, C [auth B]	PF00051	Kringle domain (Kringle)	Kringle domain	Kringle domains have been found in plasminogen, hepatocyte growth factors, prothrombin, and apolipoprotein A. Structure is disulfide-rich, nearly all-beta.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B [auth U], D [auth V]	Urokinase plasminogen activator surface receptor	protein binding binding protein domain specific binding signaling receptor binding enzyme binding	regulation of protein maturation regulation of cellular process protein maturation regulation of primary metabolic process regulation of proteolysis proteolysis regulation of plasminogen activation protein metabolic process plasminogen activation zymogen activation regulation of biosynthetic process regulation of biological process regulation of protein metabolic process biological regulation regulation of protein maturation regulation of cellular process protein maturation regulation of primary metabolic process regulation of proteolysis proteolysis regulation of plasminogen activation protein metabolic process plasminogen activation zymogen activation regulation of biosynthetic process regulation of biological process regulation of protein metabolic process biological regulation primary metabolic process regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process regulation of gene expression biosynthetic process regulation of protein processing protein processing metabolic process cellular process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of metabolic process developmental process cellular developmental process cell differentiation animal organ development anatomical structure development mesenchyme development mesenchymal cell differentiation tissue development cell adhesion regulation of cell adhesion epithelial cell differentiation involved in prostate gland development multicellular organismal process epithelium development reproductive system development prostate gland development reproductive process gland development urogenital system development developmental process involved in reproduction epithelial cell differentiation multicellular organism development reproductive structure development system development cellular response to stimulus positive regulation of organelle organization regulation of cellular component organization positive regulation of cellular component organization response to stimulus signaling apoptotic mitochondrial changes positive regulation of biological process regulation of release of cytochrome c from mitochondria cell communication cellular component organization positive regulation of release of cytochrome c from mitochondria cellular component organization or biogenesis signal transduction positive regulation of cellular process mitochondrion organization cell death regulation of organelle organization apoptotic signaling pathway release of cytochrome c from mitochondria organelle organization regulation of mitochondrion organization apoptotic process programmed cell death regulation of body fluid levels regulation of response to external stimulus negative regulation of biological process regulation of coagulation regulation of response to wounding response to stress regulation of response to stress coagulation regulation of multicellular organismal process regulation of biological quality response to wounding regulation of hemostasis wound healing negative regulation of response to stimulus regulation of blood coagulation negative regulation of wound healing hemostasis negative regulation of blood coagulation response to external stimulus negative regulation of response to wounding blood coagulation negative regulation of hemostasis fibrinolysis regulation of fibrinolysis negative regulation of coagulation regulation of response to stimulus negative regulation of response to external stimulus regulation of wound healing negative regulation of multicellular organismal process negative regulation of programmed cell death regulation of apoptotic process regulation of programmed cell death negative regulation of apoptotic process negative regulation of cellular process regulation of homotypic cell-cell adhesion positive regulation of cell adhesion homotypic cell-cell adhesion positive regulation of cell-cell adhesion cell-cell adhesion positive regulation of homotypic cell-cell adhesion regulation of cell-cell adhesion cell surface receptor signaling pathway urokinase plasminogen activator signaling pathway positive regulation of cell communication positive regulation of signal transduction regulation of signal transduction cell surface receptor protein tyrosine kinase signaling pathway positive regulation of response to stimulus positive regulation of ERBB signaling pathway regulation of epidermal growth factor receptor signaling pathway epidermal growth factor receptor signaling pathway enzyme-linked receptor protein signaling pathway positive regulation of epidermal growth factor receptor signaling pathway regulation of ERBB signaling pathway regulation of signaling ERBB signaling pathway regulation of cell communication positive regulation of signaling negative regulation of signaling negative regulation of intracellular signal transduction regulation of intrinsic apoptotic signaling pathway intracellular signal transduction negative regulation of cell communication regulation of intracellular signal transduction negative regulation of apoptotic signaling pathway intrinsic apoptotic signaling pathway negative regulation of signal transduction negative regulation of intrinsic apoptotic signaling pathway regulation of apoptotic signaling pathway	cell periphery cellular anatomical structure cell surface membrane plasma membrane external side of plasma membrane side of membrane extracellular region protein-containing complex catalytic complex peptidase complex endopeptidase complex serine-type endopeptidase complex serine-type peptidase complex cell periphery cellular anatomical structure cell surface membrane plasma membrane external side of plasma membrane side of membrane extracellular region protein-containing complex catalytic complex peptidase complex endopeptidase complex serine-type endopeptidase complex serine-type peptidase complex protein complex involved in cell-matrix adhesion protein complex involved in cell adhesion
A, C [auth B]	Urokinase-type plasminogen activator	peptidase activity catalytic activity, acting on a protein hydrolase activity catalytic activity molecular function activator activity molecular function regulator activity signaling receptor regulator activity receptor ligand activity signaling receptor activator activity serine hydrolase activity serine-type peptidase activity serine-type endopeptidase activity endopeptidase activity	regulation of biological process cell adhesion regulation of cellular process regulation of cell adhesion biological regulation cellular process muscle cell migration cell migration cell motility smooth muscle cell migration cell adhesion mediated by integrin regulation of cell adhesion mediated by integrin developmental process multicellular organismal process regulation of biological process cell adhesion regulation of cellular process regulation of cell adhesion biological regulation cellular process muscle cell migration cell migration cell motility smooth muscle cell migration cell adhesion mediated by integrin regulation of cell adhesion mediated by integrin developmental process multicellular organismal process blood vessel morphogenesis tube development angiogenesis vasculature development circulatory system development anatomical structure morphogenesis multicellular organism development tube morphogenesis anatomical structure formation involved in morphogenesis anatomical structure development blood vessel development system development regulation of hepatocyte proliferation cell population proliferation hepatocyte proliferation regulation of cell population proliferation regulation of epithelial cell proliferation epithelial cell proliferation regulation of body fluid levels response to stimulus regulation of response to external stimulus negative regulation of biological process regulation of response to wounding regulation of coagulation response to stress regulation of response to stress coagulation regulation of multicellular organismal process regulation of biological quality response to wounding regulation of hemostasis wound healing negative regulation of response to stimulus negative regulation of wound healing regulation of blood coagulation negative regulation of blood coagulation hemostasis response to external stimulus negative regulation of response to wounding blood coagulation negative regulation of hemostasis fibrinolysis negative regulation of coagulation regulation of response to stimulus negative regulation of response to external stimulus regulation of wound healing negative regulation of multicellular organismal process zymogen activation primary metabolic process gene expression macromolecule biosynthetic process protein maturation biosynthetic process proteolysis protein processing metabolic process protein metabolic process macromolecule metabolic process plasminogen activation cellular response to stimulus positive regulation of cell communication positive regulation of signal transduction signaling positive regulation of biological process regulation of signal transduction cell surface receptor protein tyrosine kinase signaling pathway cell communication positive regulation of response to stimulus positive regulation of ERBB signaling pathway regulation of epidermal growth factor receptor signaling pathway epidermal growth factor receptor signaling pathway signal transduction enzyme-linked receptor protein signaling pathway positive regulation of cellular process positive regulation of epidermal growth factor receptor signaling pathway regulation of ERBB signaling pathway regulation of signaling cell surface receptor signaling pathway ERBB signaling pathway regulation of cell communication positive regulation of signaling positive regulation of locomotion regulation of cell motility positive regulation of smooth muscle cell migration regulation of smooth muscle cell migration positive regulation of cell migration regulation of locomotion positive regulation of cell motility regulation of cell migration locomotion reactive oxygen species metabolic process positive regulation of reactive oxygen species metabolic process positive regulation of metabolic process regulation of metabolic process regulation of reactive oxygen species metabolic process regulation of protein maturation regulation of primary metabolic process regulation of proteolysis regulation of plasminogen activation regulation of biosynthetic process regulation of protein metabolic process regulation of macromolecule metabolic process regulation of gene expression regulation of protein processing regulation of macromolecule biosynthetic process positive regulation of cell population proliferation positive regulation of coagulation positive regulation of blood coagulation positive regulation of response to external stimulus positive regulation of hemostasis positive regulation of response to wounding positive regulation of wound healing regulation of fibrinolysis positive regulation of multicellular organismal process negative regulation of fibrinolysis negative regulation of plasminogen activation negative regulation of proteolysis negative regulation of protein maturation negative regulation of cellular process negative regulation of protein metabolic process negative regulation of macromolecule metabolic process negative regulation of metabolic process negative regulation of gene expression negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process negative regulation of protein processing response to decreased oxygen levels response to hypoxia response to oxygen levels response to abiotic stimulus tissue regeneration skeletal muscle tissue regeneration developmental growth growth regeneration regulation of cell-substrate adhesion cell-substrate adhesion regulation of smooth muscle cell-matrix adhesion smooth muscle cell-matrix adhesion cell-matrix adhesion regulation of cell-matrix adhesion regulation of integrin-mediated signaling pathway integrin-mediated signaling pathway urokinase plasminogen activator signaling pathway	cell periphery cellular anatomical structure cell surface membrane plasma membrane external side of plasma membrane side of membrane protein-containing complex serine protease inhibitor complex protease inhibitor complex peptidase inhibitor complex catalytic complex peptidase complex endopeptidase complex cell periphery cellular anatomical structure cell surface membrane plasma membrane external side of plasma membrane side of membrane protein-containing complex serine protease inhibitor complex protease inhibitor complex peptidase inhibitor complex catalytic complex peptidase complex endopeptidase complex serine-type endopeptidase complex serine-type peptidase complex protein complex involved in cell-matrix adhesion protein complex involved in cell adhesion

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B [auth U], D [auth V]	IPR045860	Snake toxin-like superfamily	Homologous Superfamily
B [auth U], D [auth V]	IPR016054	Ly-6 antigen/uPA receptor-like	Domain
B [auth U], D [auth V]	IPR018363	CD59 antigen, conserved site	Conserved Site
A, C [auth B]	IPR018056	Kringle, conserved site	Conserved Site
A, C [auth B]	IPR000742	EGF-like domain	Domain
A, C [auth B]	IPR043504	Peptidase_S1_PA_chymotrypsin	Unknown
A, C [auth B]	IPR013806	Kringle-like fold	Homologous Superfamily
A, C [auth B]	IPR038178	Kringle superfamily	Homologous Superfamily
A, C [auth B]	IPR009003	Peptidase S1, PA clan	Homologous Superfamily
A, C [auth B]	IPR001314	Peptidase S1A, chymotrypsin family	Family
A, C [auth B]	IPR033116	Serine proteases, trypsin family, serine active site	Active Site
A, C [auth B]	IPR001254	Serine proteases, trypsin domain	Domain
A, C [auth B]	IPR050127	Serine Proteases (Peptidase S1 Family)	Family
A, C [auth B]	IPR000001	Kringle	Domain

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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.