1THE

CRYSTAL STRUCTURES OF RECOMBINANT RAT CATHEPSIN B AND A CATHEPSIN B-INHIBITOR COMPLEX: IMPLICATIONS FOR STRUCTURE-BASED INHIBITOR DESIGN

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

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d1thea_	Alpha and beta proteins (a+b)	Cysteine proteinases	Cysteine proteinases	Papain-like	(Pro)cathepsin B	brown rat,rat,rats (Rattus norvegicus ) [TaxId: 10116 ],	SCOPe (2.08)
B	d1theb_	Alpha and beta proteins (a+b)	Cysteine proteinases	Cysteine proteinases	Papain-like	(Pro)cathepsin B	brown rat,rat,rats (Rattus norvegicus ) [TaxId: 10116 ],	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	8021639	4000859	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Cysteine proteinases	8034019	3001808	SCOP2 (2022-06-29)
B	SCOP2B Superfamily	Cysteine proteinases	8034019	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	Peptidase_C1	e1theA1	A: a+b complex topology	X: Cysteine proteinases-like	H: Cysteine proteinases (From Topology)	T: Cysteine proteinases	F: Peptidase_C1	ECOD (1.6)
B	Peptidase_C1	e1theB1	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 (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	Cathepsin B	cysteine-type peptidase activity peptidase activity catalytic activity, acting on a protein hydrolase activity catalytic activity protein-containing complex binding binding endopeptidase activity protein binding kininogen binding identical protein binding cysteine-type endopeptidase activity collagen binding proteoglycan binding cysteine-type peptidase activity peptidase activity catalytic activity, acting on a protein hydrolase activity catalytic activity protein-containing complex binding binding endopeptidase activity protein binding kininogen binding identical protein binding cysteine-type endopeptidase activity collagen binding proteoglycan binding carbohydrate derivative binding peptide binding	developmental process spermatogenesis sexual reproduction reproductive process multicellular organismal reproductive process developmental process involved in reproduction male gamete generation gamete generation regulation of hormone levels organic hydroxy compound metabolic process cellular metabolic process biological regulation hormone metabolic process cellular modified amino acid metabolic process developmental process spermatogenesis sexual reproduction reproductive process multicellular organismal reproductive process developmental process involved in reproduction male gamete generation gamete generation regulation of hormone levels organic hydroxy compound metabolic process cellular metabolic process biological regulation hormone metabolic process cellular modified amino acid metabolic process thyroid hormone metabolic process phenol-containing compound metabolic process metabolic process cellular process regulation of biological quality thyroid hormone generation 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 cellular catabolic process catabolic process autophagy process utilizing autophagic mechanism primary metabolic process protein catabolic process protein metabolic process macromolecule metabolic process macromolecule catabolic process proteolysis involved in protein catabolic process proteolysis epithelium development cellular developmental process cell differentiation anatomical structure development tissue development epithelial cell differentiation response to ketone response to lipid response to stimulus response to endogenous stimulus response to glucocorticoid response to oxygen-containing compound response to corticosteroid response to hormone response to steroid hormone response to chemical response to dexamethasone response to organic cyclic compound cellular response to stimulus response to thyroid hormone cellular response to endogenous stimulus cellular response to chemical stimulus cellular response to thyroid hormone stimulus cellular response to hormone stimulus collagen catabolic process collagen metabolic process response to peptide hormone response to nitrogen compound muscle structure development skeletal muscle organ development skeletal muscle tissue development animal organ development muscle tissue development muscle organ development striated muscle tissue development response to peptide response to cytokine response to hexose response to monosaccharide response to carbohydrate response to glucose response to alcohol response to ethanol response to interleukin-4 response to mechanical stimulus response to abiotic stimulus response to external stimulus cellular response to mechanical stimulus cellular response to abiotic stimulus cellular response to external stimulus cellular response to environmental stimulus neuron apoptotic process apoptotic process cell death programmed cell death multi-multicellular organism process multicellular organismal process placenta development maternal process involved in female pregnancy maternal placenta development female pregnancy multi-organism reproductive process decidualization response to amine	cell periphery cell surface membrane plasma membrane cellular anatomical entity external side of plasma membrane side of membrane sarcolemma protein-containing complex peptidase inhibitor complex intracellular anatomical structure perinuclear region of cytoplasm cytoplasm extracellular region cell periphery cell surface membrane plasma membrane cellular anatomical entity external side of plasma membrane side of membrane sarcolemma protein-containing complex peptidase inhibitor complex intracellular anatomical structure perinuclear region of cytoplasm cytoplasm extracellular region extracellular space membrane-bounded organelle pigment granule intracellular vesicle intracellular membrane-bounded organelle intracellular organelle melanosome cytoplasmic vesicle organelle vesicle apical part of cell plasma membrane region apical plasma membrane membrane microdomain membrane raft plasma membrane raft caveola lytic vacuole vacuole lysosome

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	IPR012599	Peptidase C1A, propeptide	Domain
A, B	IPR000169	Cysteine peptidase, cysteine active site	Active Site
A, B	IPR013128	Peptidase C1A	Family
A, B	IPR000668	Peptidase C1A, papain C-terminal	Domain
A, B	IPR025660	Cysteine peptidase, histidine active site	Active Site

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.