1EH5

CRYSTAL STRUCTURE OF PALMITOYL PROTEIN THIOESTERASE 1 COMPLEXED WITH PALMITATE

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
Membrane Protein Annotation: OPM
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	d1eh5a_	Alpha and beta proteins (a/b)	alpha/beta-Hydrolases	alpha/beta-Hydrolases	Thioesterases	Palmitoyl protein thioesterase 1	cattle (Bos taurus ) [TaxId: 9913 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	alpha/beta-Hydrolases	8032557	3000102	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	Palm_thioest	e1eh5A1	A: a/b three-layered sandwiches	X: alpha/beta-Hydrolases (From Topology)	H: alpha/beta-Hydrolases (From Topology)	T: alpha/beta-Hydrolases	F: Palm_thioest	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.40.50.1820	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Alpha/Beta hydrolase fold, catalytic domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF02089	Palmitoyl protein thioesterase (Palm_thioest)	Palmitoyl protein thioesterase	-	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	PALMITOYL PROTEIN THIOESTERASE 1	palmitoyl-(protein) hydrolase activity palmitoyl hydrolase activity catalytic activity, acting on a protein hydrolase activity, acting on ester bonds thiolester hydrolase activity hydrolase activity catalytic activity deacylase activity fatty acyl-CoA hydrolase activity long-chain fatty acyl-CoA hydrolase activity acyl-CoA hydrolase activity binding lipid binding sulfatide binding palmitoyl-(protein) hydrolase activity palmitoyl hydrolase activity catalytic activity, acting on a protein hydrolase activity, acting on ester bonds thiolester hydrolase activity hydrolase activity catalytic activity deacylase activity fatty acyl-CoA hydrolase activity long-chain fatty acyl-CoA hydrolase activity acyl-CoA hydrolase activity binding lipid binding sulfatide binding glycolipid binding carbohydrate derivative binding	developmental process multicellular organism development multicellular organismal process head development central nervous system development anatomical structure development animal organ development brain development nervous system development system development membrane organization cellular component organization cellular process membrane raft organization developmental process multicellular organism development multicellular organismal process head development central nervous system development anatomical structure development animal organ development brain development nervous system development system development membrane organization cellular component organization cellular process membrane raft organization cellular component organization or biogenesis regulation of biological process regulation of cellular process negative regulation of programmed cell death regulation of apoptotic process biological regulation 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 protein localization establishment of protein localization cellular localization nitrogen compound transport transport establishment of localization localization protein transport cellular macromolecule localization macromolecule localization catabolic process lipoprotein metabolic process primary metabolic process macromolecule deacylation protein catabolic process macromolecule catabolic process protein deacylation macromolecule modification macromolecule depalmitoylation metabolic process protein depalmitoylation macromolecule metabolic process protein metabolic process protein modification process lipoprotein catabolic process regulation of growth regulation of cellular component organization growth negative regulation of cell growth regulation of cell growth cell growth negative regulation of growth regulation of localization import into cell positive regulation of cellular component organization positive regulation of biological process vesicle-mediated transport positive regulation of endocytosis positive regulation of cellular process regulation of endocytosis positive regulation of pinocytosis regulation of transport regulation of vesicle-mediated transport positive regulation of transport regulation of pinocytosis pinocytosis endocytosis neuron apoptotic process negative regulation of neuron apoptotic process regulation of neuron apoptotic process homeostatic process intracellular pH reduction regulation of intracellular pH lysosome organization vacuolar acidification lysosomal lumen acidification intracellular monoatomic cation homeostasis regulation of pH monoatomic ion homeostasis intracellular chemical homeostasis regulation of biological quality monoatomic cation homeostasis regulation of lysosomal lumen pH regulation of cellular pH intracellular monoatomic ion homeostasis vacuole organization lytic vacuole organization organelle organization cellular homeostasis chemical homeostasis lipid catabolic process lipid metabolic process positive regulation of receptor-mediated endocytosis regulation of receptor-mediated endocytosis receptor-mediated endocytosis	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane microdomain membrane raft membrane membrane-bounded organelle intracellular organelle organelle lytic vacuole vacuole intracellular membrane-bounded organelle lysosome cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane microdomain membrane raft membrane membrane-bounded organelle intracellular organelle organelle lytic vacuole vacuole intracellular membrane-bounded organelle lysosome Golgi apparatus endomembrane system extracellular region axon cell projection neuron projection plasma membrane bounded cell projection transport vesicle synapse intracellular vesicle presynapse cytoplasmic vesicle synaptic vesicle cell junction secretory vesicle vesicle exocytic vesicle nucleus

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR002472	Palmitoyl protein thioesterase	Family
A	IPR029058	Alpha/Beta hydrolase fold	Homologous Superfamily

Membrane Protein Annotation: OPM OPM Database Homepage

Chains	External Link	Type	Class	Superfamily	Family
A	OPM	Monotopic/peripheral	Alpha/Beta monotopic/peripheral	Alpha/beta-hydrolases	Thioesterases

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

Chains	Enzyme Name	Description	Catalytic Residues
A	palmitoyl[protein] hydrolase (type 1) M-CSA #522	Palmitoyl-protein thioesterase I (PPT1) is a lysosomal enzyme which is implicated in the degredation of lipid modified proteins, removing fatty acid groups from cysteine residues. The accumulation of undisgested substrate when a mutant enzyme is present leads to the formation of neuronal storage bodies that are associated with the clinical symptoms of infantile ceroid lipofuscinosis.	Defined by 5 residues: MET:A-14 [auth A-41]SER:A-88 [auth A-115]GLN:A-89 [auth A-116]ASP:A-206 [auth A-233]HIS:A-262 [auth A-289] \| Explore in 3D: M-CSA Motif Definition Search M-CSA Motif EC: 3.1.2.22 (PDB Primary Data) Search M-CSA Motif + EC 3.1.2.22

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.