6JD0

Structure of mutant human cathepsin L, engineered for GAG binding

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)
A	d6jd0a_	Alpha and beta proteins (a+b)	Cysteine proteinases	Cysteine proteinases	Papain-like	automated matches	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)
A	SCOP2B Superfamily	Cysteine proteinases	8034025	3001808	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	Inhibitor_I29	e6jd0A2	A: alpha arrays	X: Peptidase inhibitors family I29 (From Topology)	H: Peptidase inhibitors family I29 (From Topology)	T: Peptidase inhibitors family I29	F: Inhibitor_I29	ECOD (1.6)
A	Peptidase_C1	e6jd0A1	A: a+b complex topology	X: Cysteine proteinases-like	H: Cysteine proteinases (From Topology)	T: Cysteine proteinases	F: Peptidase_C1	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.90.70.10	Alpha Beta	Alpha-Beta Complex	Cathepsin B	Chain A	CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF08246	Cathepsin propeptide inhibitor domain (I29) (Inhibitor_I29)	Cathepsin propeptide inhibitor domain (I29)	This domain is found at the N-terminus of some C1 peptidases such as Cathepsin L where it acts as a propeptide. There are also a number of proteins that are composed solely of multiple copies of this domain such as the peptidase inhibitor salarin Sw ...	This domain is found at the N-terminus of some C1 peptidases such as Cathepsin L where it acts as a propeptide. There are also a number of proteins that are composed solely of multiple copies of this domain such as the peptidase inhibitor salarin Swiss:Q70SU8. This family is classified as I29 by MEROPS.	Domain
A	PF00112	Papain family cysteine protease (Peptidase_C1)	Papain family cysteine protease	-	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Cathepsin L1	protein binding binding histone binding serpin family protein binding cysteine-type peptidase activity peptidase activity catalytic activity, acting on a protein hydrolase activity catalytic activity enzyme regulator activity enzyme activator activity peptidase regulator activity molecular function activator activity cysteine-type endopeptidase activator activity involved in apoptotic process protein binding binding histone binding serpin family protein binding cysteine-type peptidase activity peptidase activity catalytic activity, acting on a protein hydrolase activity catalytic activity enzyme regulator activity enzyme activator activity peptidase regulator activity molecular function activator activity cysteine-type endopeptidase activator activity involved in apoptotic process molecular function regulator activity cysteine-type endopeptidase regulator activity involved in apoptotic process peptidase activator activity peptidase activator activity involved in apoptotic process fibronectin binding cysteine-type endopeptidase activity endopeptidase activity collagen binding protein-containing complex binding proteoglycan binding carbohydrate derivative binding	primary metabolic process gene expression macromolecule biosynthetic process protein maturation protein autoprocessing biosynthetic process proteolysis protein processing metabolic process cellular process protein metabolic process macromolecule metabolic process response to stimulus immune response primary metabolic process gene expression macromolecule biosynthetic process protein maturation protein autoprocessing biosynthetic process proteolysis protein processing metabolic process cellular process protein metabolic process macromolecule metabolic process response to stimulus immune response immune system process adaptive immune response cellular response to stimulus positive regulation of cell communication regulation of cellular process positive regulation of signal transduction signaling positive regulation of biological process regulation of signal transduction regulation of programmed cell death positive regulation of apoptotic signaling pathway cell communication positive regulation of response to stimulus signal transduction positive regulation of cellular process regulation of biological process regulation of signaling positive regulation of programmed cell death regulation of apoptotic process biological regulation cell death positive regulation of apoptotic process apoptotic signaling pathway regulation of response to stimulus regulation of cell communication apoptotic process programmed cell death positive regulation of signaling regulation of apoptotic signaling pathway biological process involved in interspecies interaction between organisms symbiont entry into host cell viral process symbiont entry into host viral life cycle biological process involved in interaction with host biological process involved in symbiotic interaction catabolic process proteolysis involved in protein catabolic process protein catabolic process macromolecule catabolic process response to thyroid hormone response to endogenous stimulus cellular response to endogenous stimulus cellular response to chemical stimulus response to hormone response to chemical cellular response to thyroid hormone stimulus cellular response to hormone stimulus fusion of virus membrane with host endosome membrane membrane fusion involved in viral entry into host cell collagen catabolic process collagen metabolic process peptide hormone processing regulation of hormone levels enkephalin processing signaling receptor ligand precursor processing hormone metabolic process amide metabolic process regulation of biological quality import into cell receptor-mediated endocytosis of virus by host cell transport establishment of localization vesicle-mediated transport localization endocytosis involved in viral entry into host cell endocytosis receptor-mediated endocytosis transport of virus antigen processing and presentation of exogenous peptide antigen via MHC class II antigen processing and presentation antigen processing and presentation of peptide or polysaccharide antigen via MHC class II antigen processing and presentation of peptide antigen via MHC class II antigen processing and presentation of exogenous peptide antigen antigen processing and presentation of peptide antigen antigen processing and presentation of exogenous antigen membrane organization cellular component organization membrane fusion fusion of virus membrane with host plasma membrane cellular component organization or biogenesis carbohydrate derivative catabolic process glycoprotein catabolic process elastin catabolic process carbohydrate derivative metabolic process glycoprotein metabolic process elastin metabolic process CD4-positive or CD8-positive, alpha-beta T cell lineage commitment multicellular organismal process cellular developmental process cell development mononuclear cell differentiation lymphocyte activation lymphocyte differentiation CD4-positive, alpha-beta T cell differentiation leukocyte activation alpha-beta T cell differentiation T cell activation cell differentiation CD4-positive, alpha-beta T cell activation anatomical structure development alpha-beta T cell activation T cell differentiation CD4-positive, alpha-beta T cell lineage commitment developmental process alpha-beta T cell lineage commitment hemopoiesis cell activation T cell lineage commitment positive T cell selection T cell selection cell fate commitment leukocyte differentiation macrophage apoptotic process myeloid cell apoptotic process leukocyte apoptotic process inflammatory cell apoptotic process zymogen activation	extracellular exosome membrane-bounded organelle extracellular vesicle cellular anatomical structure extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle cell periphery extracellular matrix external encapsulating structure collagen-containing extracellular matrix extracellular exosome membrane-bounded organelle extracellular vesicle cellular anatomical structure extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle cell periphery extracellular matrix external encapsulating structure collagen-containing extracellular matrix intracellular anatomical structure intracellular vesicle membrane-enclosed lumen lytic vacuole vacuolar lumen endomembrane system intracellular organelle lumen intracellular organelle endolysosome cytoplasmic vesicle endosome lumen lysosome endosome vacuole intracellular membrane-bounded organelle lysosomal lumen organelle lumen endolysosome lumen cytoplasm Golgi apparatus chromaffin granule secretory granule secretory vesicle apical part of cell membrane plasma membrane plasma membrane region apical plasma membrane late endosome multivesicular body endocytic vesicle lumen endocytic vesicle nucleus

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR025661	Cysteine peptidase, asparagine active site	Active Site
A	IPR038765	Papain-like cysteine peptidase superfamily	Homologous Superfamily
A	IPR013201	Cathepsin propeptide inhibitor domain (I29)	Domain
A	IPR000169	Cysteine peptidase, cysteine active site	Active Site
A	IPR013128	Peptidase C1A	Family
A	IPR000668	Peptidase C1A, papain C-terminal	Domain
A	IPR025660	Cysteine peptidase, histidine active site	Active Site
A	IPR039417	Papain-like cysteine endopeptidase	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: P07711	meningioma secretory meningioma fibrous meningioma intraorbital meningioma meningothelial meningioma olfactory groove meningioma angiomatous meningioma cerebral convexity meningioma proteinuria spinal meningioma intraventricular meningioma microcystic meningioma benign meningioma parasagittal meningioma clear cell meningioma meningioma secretory meningioma fibrous meningioma intraorbital meningioma meningothelial meningioma olfactory groove meningioma angiomatous meningioma cerebral convexity meningioma proteinuria spinal meningioma intraventricular meningioma microcystic meningioma benign meningioma parasagittal meningioma clear cell meningioma psammomatous meningioma transitional meningioma large cell medulloblastoma Malignant Meningioma multiple sclerosis pancreatic ductal adenocarcinoma breast cancer COVID-19 psoriasis tuberculosis gastric neoplasm lung carcinoma papillary meningioma cutaneous lupus erythematosus gastric cancer glioblastoma hereditary diffuse gastric adenocarcinoma lymphoplasmacyte-rich meningioma ovarian cancer dermatomyositis gastric carcinoma

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.