7FQL | pdb_00007fql

Crystal Structure of human Legumain in complex with (2S)-N-[(1S)-3-amino-1-cyano-3-oxopropyl]-1-[1-[4-[(2,4-difluorophenyl)methoxy]phenyl]cyclopropanecarbonyl]pyrrolidine-2-carboxamide

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations
Protein Modification Annotation

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Caspase-like	8104071	3001096	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Caspase-like	8104071	3001096	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Caspase-like	8104071	3001096	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Caspase-like	8104071	3001096	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Caspase-like	8104071	3001096	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Caspase-like	8104071	3001096	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	Caspase-like	8104071	3001096	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	Caspase-like	8104071	3001096	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	Glyco_hydro_43	e7fqlA1	A: beta barrels	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Glyco_hydro_43	ECOD (v294.2)
B	Glyco_hydro_43	e7fqlB1	A: beta barrels	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Glyco_hydro_43	ECOD (v294.2)
C	Glyco_hydro_43	e7fqlC1	A: beta barrels	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Glyco_hydro_43	ECOD (v294.2)
D	Glyco_hydro_43	e7fqlD1	A: beta barrels	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Glyco_hydro_43	ECOD (v294.2)
E	Glyco_hydro_43	e7fqlE1	A: beta barrels	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Glyco_hydro_43	ECOD (v294.2)
F	Glyco_hydro_43	e7fqlF1	A: beta barrels	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Glyco_hydro_43	ECOD (v294.2)
G	Glyco_hydro_43	e7fqlG1	A: beta barrels	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Glyco_hydro_43	ECOD (v294.2)
H	Glyco_hydro_43	e7fqlH1	A: beta barrels	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Glyco_hydro_43	ECOD (v294.2)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E A, B, C, D, E, F, G, H	PF01650	Peptidase C13 family (Peptidase_C13)	Peptidase C13 family	Members of this family are asparaginyl peptidases [1]. The blood fluke parasite Schistosoma mansoni has at least five Clan CA cysteine peptidases in its digestive tract including cathepsins B (2 isoforms), C, F and L. All have been recombinantly expr ...	Members of this family are asparaginyl peptidases [1]. The blood fluke parasite Schistosoma mansoni has at least five Clan CA cysteine peptidases in its digestive tract including cathepsins B (2 isoforms), C, F and L. All have been recombinantly expressed as active enzymes, albeit in various stages of activation [2]. In addition, a Clan CD peptidase, termed asparaginyl endopeptidase or 'legumain' has been identified. This has formerly been characterised as a 'haemoglobinase', but this term is probably incorrect [2]. Two cDNAs have been described for Schistosoma mansoni legumain; one encodes an active enzyme whereas the active site cysteine residue encoded by the second cDNA is substituted by an asparagine residue. Both forms have been recombinantly expressed [3].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E A, B, C, D, E, F, G, H	Legumain	peptidase activity catalytic activity, acting on a protein hydrolase activity catalytic activity cysteine-type peptidase activity cysteine-type endopeptidase activity endopeptidase activity cytoskeletal protein binding protein binding binding tau protein binding endopeptidase activator activity enzyme regulator activity enzyme activator activity peptidase activity catalytic activity, acting on a protein hydrolase activity catalytic activity cysteine-type peptidase activity cysteine-type endopeptidase activity endopeptidase activity cytoskeletal protein binding protein binding binding tau protein binding endopeptidase activator activity enzyme regulator activity enzyme activator activity peptidase regulator activity molecular function activator activity molecular function regulator activity peptidase activator activity endopeptidase regulator activity	multicellular organismal process renal system process system process primary metabolic process gene expression macromolecule biosynthetic process protein maturation biosynthetic process proteolysis protein processing metabolic process cellular process protein metabolic process macromolecule metabolic process multicellular organismal process renal system process system process primary metabolic process gene expression macromolecule biosynthetic process protein maturation biosynthetic process proteolysis protein processing metabolic process cellular process protein metabolic process macromolecule metabolic process vacuolar protein processing positive regulation of cell communication regulation of cellular process modulation of chemical synaptic transmission signaling positive regulation of biological process cell communication long-term synaptic potentiation synaptic signaling positive regulation of long-term synaptic potentiation regulation of biological quality positive regulation of cellular process regulation of synaptic plasticity trans-synaptic signaling regulation of biological process regulation of signaling biological regulation cell-cell signaling positive regulation of synaptic transmission chemical synaptic transmission regulation of trans-synaptic signaling anterograde trans-synaptic signaling regulation of long-term synaptic potentiation regulation of cell communication positive regulation of signaling 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 immune system process 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 behavior learning or memory nervous system process cognition memory neuron apoptotic process negative regulation of neuron apoptotic process negative regulation of programmed cell death regulation of apoptotic process negative regulation of biological process regulation of programmed cell death cell death negative regulation of apoptotic process negative regulation of cellular process apoptotic process programmed cell death regulation of neuron apoptotic process cellular response to stimulus cellular response to metal ion cellular response to chemical stimulus response to stimulus response to metal ion response to chemical cellular response to calcium ion response to calcium ion cell population proliferation positive regulation of cell population proliferation regulation of cell population proliferation positive regulation of locomotion regulation of cell motility regulation of response to external stimulus endothelial cell migration positive regulation of chemotaxis positive regulation of cell migration positive regulation of response to stimulus positive regulation of response to external stimulus taxis positive regulation of cell motility regulation of cell migration positive regulation of endothelial cell chemotaxis regulation of endothelial cell migration cell migration endothelial cell chemotaxis cell motility locomotion cell chemotaxis chemotaxis regulation of endothelial cell chemotaxis response to external stimulus regulation of chemotaxis regulation of response to stimulus regulation of locomotion positive regulation of endothelial cell migration cellular component organization cell junction organization dendritic spine organization postsynapse organization plasma membrane bounded cell projection organization cell projection organization neuron projection organization synapse organization cellular component organization or biogenesis positive regulation of monocyte chemotaxis regulation of monocyte chemotaxis myeloid leukocyte migration positive regulation of mononuclear cell migration regulation of immune system process regulation of mononuclear cell migration positive regulation of immune system process regulation of leukocyte chemotaxis regulation of leukocyte migration positive regulation of leukocyte migration positive regulation of leukocyte chemotaxis monocyte chemotaxis leukocyte migration mononuclear cell migration leukocyte chemotaxis learning associative learning negative regulation of signaling negative regulation of ERBB signaling pathway regulation of signal transduction cell surface receptor protein tyrosine kinase signaling pathway negative regulation of cell communication signal transduction enzyme-linked receptor protein signaling pathway regulation of ERBB signaling pathway cell surface receptor signaling pathway negative regulation of response to stimulus negative regulation of signal transduction ERBB signaling pathway cellular response to endogenous stimulus response to hepatocyte growth factor cellular response to growth factor stimulus cellular response to hepatocyte growth factor stimulus response to endogenous stimulus response to growth factor regulation of biosynthetic process negative regulation of metabolic process regulation of macromolecule metabolic process regulation of gene expression negative regulation of gene expression negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process regulation of macromolecule biosynthetic process regulation of metabolic process negative regulation of macromolecule metabolic process positive regulation of cell cycle mitotic cell cycle regulation of mitotic cell cycle positive regulation of mitotic cell cycle cell cycle regulation of cell cycle steroid metabolic process vitamin D metabolic process lipid metabolic process response to pH response to abiotic stimulus response to acidic pH cellular response to nitrogen compound response to oxygen-containing compound response to nitrogen compound cellular response to amyloid-beta cellular response to oxygen-containing compound response to amyloid-beta receptor catabolic process catabolic process receptor metabolic process macromolecule catabolic process	cellular anatomical structure apical part of cell membrane-bounded organelle intracellular anatomical structure membrane-enclosed lumen lytic vacuole vacuolar lumen vacuole intracellular membrane-bounded organelle lysosomal lumen intracellular organelle lumen intracellular organelle organelle lumen organelle cellular anatomical structure apical part of cell membrane-bounded organelle intracellular anatomical structure membrane-enclosed lumen lytic vacuole vacuolar lumen vacuole intracellular membrane-bounded organelle lysosomal lumen intracellular organelle lumen intracellular organelle organelle lumen organelle cytoplasm lysosome extracellular exosome extracellular vesicle extracellular organelle extracellular region vesicle extracellular membrane-bounded organelle intracellular vesicle endomembrane system endolysosome cytoplasmic vesicle endosome lumen endosome endolysosome lumen perinuclear region of cytoplasm late endosome

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F, G, H	IPR046427	Legumain prodomain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H	IPR048501	Legumain, prodomain	Domain
A, B, C, D, E A, B, C, D, E, F, G, H	IPR001096	Peptidase C13, legumain	Family
A, B, C, D, E A, B, C, D, E, F, G, H	IPR043577	Asparaginyl endopeptidase	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B, C, D, E A, B, C, D, E, F, G, H	: Q99538	Liver Cirrhosis, Experimental tuberculosis acute myeloid leukemia breast carcinoma cutaneous lupus erythematosus Duchenne muscular dystrophy limb-girdle muscular dystrophy myopathy primary biliary cholangitis Becker muscular dystrophy chronic obstructive pulmonary disease dermatomyositis glioblastoma ovarian cancer psoriasis Liver Cirrhosis, Experimental tuberculosis acute myeloid leukemia breast carcinoma cutaneous lupus erythematosus Duchenne muscular dystrophy limb-girdle muscular dystrophy myopathy primary biliary cholangitis Becker muscular dystrophy chronic obstructive pulmonary disease dermatomyositis glioblastoma ovarian cancer psoriasis bone Paget disease colorectal cancer diabetes mellitus juvenile dermatomyositis malignant mesothelioma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
A, B, C, D, E A, B, C, D, E, F, G, H	SNN	Parent Component: ASN : AA0302 , AA0593 : L-aspartimide MOD:00307 , 2-(2-aminosuccinimidyl)pentanedioic acid (Asn) MOD:01940 , 2-(2-aminosuccinimidyl)pentanedioic acid (Asp) MOD:01941

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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.