1LCY

Crystal Structure of the Mitochondrial Serine Protease HtrA2

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
Membrane Protein Annotation: OPM

Domain Annotation: SCOP/SCOPe Classification SCOP Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d1lcya1	All beta proteins	PDZ domain-like	PDZ domain-like	HtrA-like serine proteases	Mitochondrial serine protease HtrA2	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d1lcya2	All beta proteins	Trypsin-like serine proteases	Trypsin-like serine proteases	Prokaryotic proteases	Mitochondrial serine protease HtrA2, catalytic domain	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	SCOP2 Family	Prokaryotic proteases	8028851	4002151	SCOP2 (2022-06-29)
A	SCOP2 Family	HtrA-like serine proteases	8028850	4002154	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Trypsin-like serine proteases	8041230	3000114	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	PDZ domain-like	8041229	3000388	SCOP2 (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	Trypsin_2	e1lcyA1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: FMN-binding split barrel	F: Trypsin_2	ECOD (1.6)
A	PDZ_2	e1lcyA2	A: beta barrels	X: PDZ domain (From Topology)	H: PDZ domain (From Topology)	T: PDZ domain	F: PDZ_2	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.40.10.10	Mainly Beta	Beta Barrel	Thrombin, subunit H	Trypsin-like serine proteases	CATH (4.3.0)
A	2.30.42.10	Mainly Beta	Roll	Pdz3 Domain	PDZ domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF17820	PDZ domain (PDZ_6)	PDZ domain	This entry represents the PDZ domain from a wide variety of proteins.	Domain
A	PF13365	Trypsin-like peptidase domain (Trypsin_2)	Trypsin-like peptidase domain	This family includes trypsin-like peptidase domains.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	HtrA2 serine protease	peptidase activity catalytic activity, acting on a protein serine hydrolase activity serine-type peptidase activity hydrolase activity serine-type endopeptidase activity catalytic activity endopeptidase activity identical protein binding protein binding binding unfolded protein binding	catabolic process regulation of cellular process regulation of cellular component organization autophagy regulation of autophagy cellular catabolic process cellular component organization organelle disassembly regulation of autophagy of mitochondrion cellular component organization or biogenesis process utilizing autophagic mechanism mitochondrion organization cellular component disassembly regulation of biological process catabolic process regulation of cellular process regulation of cellular component organization autophagy regulation of autophagy cellular catabolic process cellular component organization organelle disassembly regulation of autophagy of mitochondrion cellular component organization or biogenesis process utilizing autophagic mechanism mitochondrion organization cellular component disassembly regulation of biological process cellular metabolic process biological regulation regulation of cellular metabolic process regulation of catabolic process regulation of organelle organization organelle organization regulation of cellular catabolic process regulation of mitochondrion organization metabolic process cellular process regulation of metabolic process autophagy of mitochondrion organonitrogen compound metabolic process cellular biosynthetic process primary metabolic process gene expression macromolecule biosynthetic process protein maturation organic substance metabolic process protein autoprocessing biosynthetic process proteolysis organic substance biosynthetic process protein processing protein metabolic process macromolecule metabolic process cellular response to stimulus response to stimulus macroautophagy negative regulation of mitophagy in response to mitochondrial depolarization mitophagy cellular response to stress response to stress regulation of autophagy of mitochondrion in response to mitochondrial depolarization response to mitochondrial depolarisation positive regulation of cell communication positive regulation of signal transduction signal transduction in absence of ligand signaling positive regulation of biological process regulation of signal transduction regulation of programmed cell death positive regulation of extrinsic apoptotic signaling pathway in absence of ligand extrinsic apoptotic signaling pathway cell communication positive regulation of apoptotic signaling pathway positive regulation of response to stimulus extrinsic apoptotic signaling pathway in absence of ligand signal transduction positive regulation of cellular process regulation of signaling positive regulation of programmed cell death cell surface receptor signaling pathway regulation of apoptotic process positive regulation of extrinsic apoptotic signaling pathway cell death positive regulation of apoptotic process regulation of extrinsic apoptotic signaling pathway apoptotic signaling pathway regulation of response to stimulus regulation of extrinsic apoptotic signaling pathway in absence of ligand regulation of cell communication apoptotic process programmed cell death regulation of apoptotic signaling pathway positive regulation of signaling cellular response to heat response to heat response to abiotic stimulus response to temperature stimulus negative regulation of cellular process negative regulation of biological process negative regulation of cell cycle cell cycle regulation of cell cycle organonitrogen compound catabolic process protein catabolic process macromolecule catabolic process organic substance catabolic process response to organic substance response to lipid response to oxygen-containing compound cellular response to oxygen-containing compound response to retinoic acid cellular response to chemical stimulus cellular response to retinoic acid response to chemical cellular response to lipid cellular response to organic substance response to interferon-beta response to cytokine cellular response to interferon-beta cellular response to cytokine stimulus response to oxidative stress cellular response to oxidative stress cellular response to chemical stress regulation of multicellular organism growth developmental process multicellular organismal process regulation of growth regulation of developmental growth regulation of developmental process developmental growth growth multicellular organism growth regulation of multicellular organismal process regulation of catalytic activity positive regulation of protein metabolic process positive regulation of peptidase activity positive regulation of cysteine-type endopeptidase activity involved in apoptotic process regulation of primary metabolic process positive regulation of molecular function positive regulation of metabolic process regulation of cysteine-type endopeptidase activity involved in apoptotic process positive regulation of cysteine-type endopeptidase activity involved in apoptotic signaling pathway regulation of proteolysis regulation of endopeptidase activity positive regulation of macromolecule metabolic process regulation of cysteine-type endopeptidase activity regulation of protein metabolic process regulation of peptidase activity positive regulation of catalytic activity regulation of macromolecule metabolic process regulation of molecular function positive regulation of hydrolase activity positive regulation of cysteine-type endopeptidase activity regulation of hydrolase activity positive regulation of endopeptidase activity positive regulation of proteolysis regulation of cysteine-type endopeptidase activity involved in apoptotic signaling pathway adult walking behavior adult locomotory behavior behavior adult behavior locomotory behavior walking behavior ceramide metabolic process membrane lipid metabolic process sphingolipid metabolic process cellular lipid metabolic process amide metabolic process lipid metabolic process triterpenoid metabolic process pentacyclic triterpenoid metabolic process organic cyclic compound metabolic process terpenoid metabolic process isoprenoid metabolic process execution phase of apoptosis neuron apoptotic process negative regulation of neuron apoptotic process negative regulation of programmed cell death negative regulation of apoptotic process regulation of neuron apoptotic process protein localization regulation of localization establishment of protein localization cellular localization regulation of protein localization protein targeting regulation of protein targeting to mitochondrion positive regulation of establishment of protein localization localization cellular macromolecule localization positive regulation of protein targeting to mitochondrion regulation of establishment of protein localization establishment of localization regulation of establishment of protein localization to mitochondrion establishment of protein localization to organelle regulation of protein targeting regulation of cellular localization macromolecule localization protein localization to organelle protein localization to mitochondrion positive regulation of protein localization protein targeting to mitochondrion establishment of protein localization to mitochondrion positive regulation of establishment of protein localization to mitochondrion head development forebrain development animal organ development brain development nervous system development multicellular organism development central nervous system development anatomical structure development system development intracellular signal transduction DNA damage response intrinsic apoptotic signaling pathway in response to DNA damage intrinsic apoptotic signaling pathway intrinsic apoptotic signaling pathway in response to oxidative stress regulation of oxidative stress-induced intrinsic apoptotic signaling pathway negative regulation of signaling negative regulation of intracellular signal transduction regulation of intrinsic apoptotic signaling pathway negative regulation of cell communication regulation of intracellular signal transduction negative regulation of apoptotic signaling pathway negative regulation of response to stimulus negative regulation of oxidative stress-induced intrinsic apoptotic signaling pathway negative regulation of signal transduction negative regulation of intrinsic apoptotic signaling pathway cellular response to endogenous stimulus cellular response to growth factor stimulus response to endogenous stimulus response to growth factor response to herbicide response to toxic substance cellular developmental process cell development generation of neurons neurogenesis neuron differentiation cell differentiation neuron development	membrane cellular anatomical entity cell periphery protein-containing complex plasma membrane protein complex plasma membrane plasma membrane signaling receptor complex membrane protein complex CD40 receptor complex receptor complex membrane-bounded organelle mitochondrial membrane intracellular anatomical structure mitochondrion membrane cellular anatomical entity cell periphery protein-containing complex plasma membrane protein complex plasma membrane plasma membrane signaling receptor complex membrane protein complex CD40 receptor complex receptor complex membrane-bounded organelle mitochondrial membrane intracellular anatomical structure mitochondrion intracellular membrane-bounded organelle intracellular organelle organelle envelope mitochondrial envelope organelle cytoplasm organelle membrane cytosol protein-DNA complex intracellular non-membrane-bounded organelle chromatin chromosome non-membrane-bounded organelle cytoskeleton catalytic complex peptidase complex endopeptidase complex serine-type endopeptidase complex serine-type peptidase complex mitochondrial intermembrane space membrane-enclosed lumen intracellular organelle lumen organelle envelope lumen organelle lumen organelle subcompartment endomembrane system endoplasmic reticulum subcompartment nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum endoplasmic reticulum membrane cytoplasmic side of plasma membrane cytoplasmic side of membrane side of membrane nucleus

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR009003	Peptidase S1, PA clan	Homologous Superfamily
A	IPR001940	Peptidase S1C	Family
A	IPR041489	PDZ domain 6	Domain
A	IPR036034	PDZ superfamily	Homologous Superfamily
A	IPR001478	PDZ domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: O43464	Parkinson disease 13, autosomal dominant, susceptibility to 3-methylglutaconic aciduria type 8 Parkinson disease transient ischemic attack parkinsonian disorder Parkinsonism, Juvenile autosomal recessive juvenile Parkinson disease 2 neurodegenerative disease cataract epilepsy intellectual disability osteosarcoma psoriasis ovarian cancer

Membrane Protein Annotation: OPM OPM Database Homepage

Chains	External Link	Type	Class	Superfamily	Family
A	OPM	Monotopic/peripheral	All beta monotopic/peripheral	Peptidase clan PA	Prokaryotic proteases

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.