1DEU

CRYSTAL STRUCTURE OF HUMAN PROCATHEPSIN X: A CYSTEINE PROTEASE WITH THE PROREGION COVALENTLY LINKED TO THE ACTIVE SITE CYSTEINE

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations
Structure Motif: Primary M-CSA Annotation

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d1deua_	Alpha and beta proteins (a+b)	Cysteine proteinases	Cysteine proteinases	Papain-like	(Pro)cathepsin X	(Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d1deub_	Alpha and beta proteins (a+b)	Cysteine proteinases	Cysteine proteinases	Papain-like	(Pro)cathepsin X	(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	SCOP2 Family	Papain-like	8021666	4000859	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Cysteine proteinases	8034046	3001808	SCOP2 (2022-06-29)
B	SCOP2B Superfamily	Cysteine proteinases	8034046	3001808	SCOP2B (2022-06-29)

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 (4.3.0)
B	3.90.70.10	Alpha Beta	Alpha-Beta Complex	Cathepsin B	Chain A	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	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, B	PROCATHEPSIN X	cysteine-type peptidase activity peptidase activity catalytic activity, acting on a protein cysteine-type endopeptidase activity hydrolase activity catalytic activity endopeptidase activity exopeptidase activity carboxypeptidase activity	regulation of systemic arterial blood pressure by renin-angiotensin regulation of systemic arterial blood pressure by hormone multicellular organismal process peptide hormone processing regulation of systemic arterial blood pressure mediated by a chemical signal system process cellular biosynthetic process signaling receptor ligand precursor processing protein maturation organic substance metabolic process circulatory system process proteolysis organic substance biosynthetic process amide metabolic process regulation of systemic arterial blood pressure by renin-angiotensin regulation of systemic arterial blood pressure by hormone multicellular organismal process peptide hormone processing regulation of systemic arterial blood pressure mediated by a chemical signal system process cellular biosynthetic process signaling receptor ligand precursor processing protein maturation organic substance metabolic process circulatory system process proteolysis organic substance biosynthetic process amide metabolic process protein metabolic process regulation of biological quality blood circulation organonitrogen compound metabolic process regulation of blood pressure regulation of hormone levels cellular metabolic process biological regulation regulation of systemic arterial blood pressure by circulatory renin-angiotensin primary metabolic process gene expression macromolecule biosynthetic process hormone metabolic process regulation of systemic arterial blood pressure endocrine process biosynthetic process regulation of angiotensin levels in blood protein processing metabolic process cellular process macromolecule metabolic process angiotensin maturation branching morphogenesis of an epithelial tube respiratory tube development multicellular organism development tube morphogenesis anatomical structure development lung morphogenesis lung development respiratory system development animal organ morphogenesis epithelial tube morphogenesis system development developmental process epithelium development tube development animal organ development morphogenesis of an epithelium tissue development tissue morphogenesis anatomical structure morphogenesis morphogenesis of a branching structure epithelial tube branching involved in lung morphogenesis morphogenesis of a branching epithelium organonitrogen compound catabolic process catabolic process proteolysis involved in protein catabolic process protein catabolic process macromolecule catabolic process organic substance catabolic process regulation of protein maturation negative regulation of plasminogen activation negative regulation of proteolysis regulation of cellular process negative regulation of biological process negative regulation of cellular metabolic process regulation of primary metabolic process regulation of proteolysis plasminogen activation negative regulation of protein metabolic process zymogen activation regulation of biological process regulation of protein metabolic process negative regulation of metabolic process regulation of cellular metabolic process negative regulation of cellular biosynthetic process regulation of gene expression negative regulation of gene expression negative regulation of macromolecule biosynthetic process regulation of protein processing regulation of macromolecule biosynthetic process regulation of metabolic process negative regulation of protein maturation negative regulation of cellular process regulation of plasminogen activation negative regulation of macromolecule metabolic process regulation of biosynthetic process regulation of macromolecule metabolic process regulation of cellular biosynthetic process negative regulation of biosynthetic process negative regulation of protein processing	cell periphery cell cortex intracellular anatomical structure cytoplasm cellular anatomical entity extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle cell periphery cell cortex intracellular anatomical structure cytoplasm cellular anatomical entity extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle extracellular matrix external encapsulating structure collagen-containing extracellular matrix plasma membrane membrane intracellular organelle intracellular membrane-bounded organelle intracellular vesicle COPII-coated ER to Golgi transport vesicle cytoplasmic vesicle coated vesicle membrane-enclosed lumen ficolin-1-rich granule endomembrane system intracellular organelle lumen organelle lumen ficolin-1-rich granule lumen secretory granule secretory vesicle lytic vacuole vacuole lysosome endoplasmic reticulum lumen endoplasmic reticulum bounding membrane of organelle endoplasmic reticulum-Golgi intermediate compartment membrane endoplasmic reticulum-Golgi intermediate compartment organelle membrane vesicle lumen cytoplasmic vesicle lumen secretory granule lumen specific granule lumen specific granule

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR025661	Cysteine peptidase, asparagine active site	Active Site
A, B	IPR038765	Papain-like cysteine peptidase superfamily	Homologous Superfamily
A, B	IPR033157	Cathepsin Z	Family
A, B	IPR013128	Peptidase C1A	Family
A, B	IPR000668	Peptidase C1A, papain C-terminal	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B	Pharos: Q9UBR2	acute myeloid leukemia Liver Cirrhosis, Experimental plasma cell myeloma tuberculosis atrial fibrillation diabetes mellitus glioblastoma invasive ductal breast carcinoma lung carcinoma osteosarcoma rheumatoid arthritis atypical teratoid rhabdoid tumor esophageal adenocarcinoma interstitial cystitis large cell medulloblastoma acute myeloid leukemia Liver Cirrhosis, Experimental plasma cell myeloma tuberculosis atrial fibrillation diabetes mellitus glioblastoma invasive ductal breast carcinoma lung carcinoma osteosarcoma rheumatoid arthritis atypical teratoid rhabdoid tumor esophageal adenocarcinoma interstitial cystitis large cell medulloblastoma malignant mesothelioma ovarian cancer subependymal giant cell astrocytoma colorectal cancer gastric carcinoma interstitial lung disease oligodendroglioma

Structure Motif Annotation: Mechanism and Catalytic Site Atlas M-CSA Database Homepage

Chains	Enzyme Name	Description	Catalytic Residues
A	cathepsin X M-CSA #953	Cathepsin X is a widespread, abundantly expressed papain-like mammalian lysosomal cysteine protease. It exhibits carboxy-monopeptidase as well as carboxy-dipeptidase activity and shares a similar activity profile with cathepsin B. Atypically, the mature enzyme is primarily a carboxypeptidase and has extremely poor endopeptidase activity. Cathepsin X is synthesised as an inactive zymogen, but the propeptide lacks the ERFNIN motif characteristic of lysosomal cysteine peptidases. A novel disulfide bridge can be formed between the proregion and the enzyme active site (Cys10p and Cys31) which leads to inactivation of the zymogen by the formation of a reversible covalent bond with the active site residue [PMID:10656802]. Cathepsin X deficiency leads to accelerated cell senescence [PMID:21616554] and it also regulates the immune response to Helicobacter pylori infection [PMID:16025436, PMID:19446361].	Defined by 4 residues: GLN:A-57 [auth A-22]CYS:A-66 [auth A-31]HIS:A-215 [auth A-180]ASN:A-235 [auth A-200] \| Explore in 3D: M-CSA Motif Definition Search M-CSA Motif

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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.