5YJ9 | pdb_00005yj9

Crystal structure of Tribolium castaneum PINK1 kinase domain in complex with AMP-PNP

External Resource: Annotation

Domain Annotation: ECOD Classification
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A [auth D]	Abhydrolase_6	e5yj9D1	A: a/b three-layered sandwiches	X: PriB N-terminal domain-like	H: ADP-ribosylation	T: ADP-ribosylation	F: Abhydrolase_6	ECOD (v294.1)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth D]	Serine/threonine-protein kinase PINK1, mitochondrial-like Protein	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding protein serine/threonine kinase activity catalytic activity, acting on a protein kinase activity protein kinase activity transferase activity catalytic activity phosphotransferase activity, alcohol group as acceptor transferase activity, transferring phosphorus-containing groups ubiquitin protein ligase binding protein binding ubiquitin-like protein ligase binding enzyme binding cation binding metal ion binding	catabolic process autophagy cellular process metabolic process autophagy of mitochondrion process utilizing autophagic mechanism positive regulation of organelle organization regulation of cellular component organization regulation of cellular process positive regulation of cellular component organization regulation of developmental process positive regulation of biological process cellular component organization positive regulation of developmental process catabolic process autophagy cellular process metabolic process autophagy of mitochondrion process utilizing autophagic mechanism positive regulation of organelle organization regulation of cellular component organization regulation of cellular process positive regulation of cellular component organization regulation of developmental process positive regulation of biological process cellular component organization positive regulation of developmental process anatomical structure development cellular component organization or biogenesis positive regulation of cellular process regulation of anatomical structure morphogenesis mitochondrion organization developmental process regulation of biological process organelle fission biological regulation mitochondrial fission regulation of organelle organization anatomical structure morphogenesis organelle organization regulation of mitochondrial fission regulation of mitochondrion organization positive regulation of mitochondrial fission regulation of protein modification process positive regulation of protein metabolic process regulation of protein ubiquitination positive regulation of post-translational protein modification regulation of primary metabolic process positive regulation of metabolic process positive regulation of protein modification process protein ubiquitination positive regulation of macromolecule metabolic process protein metabolic process regulation of protein modification by small protein conjugation or removal protein modification process positive regulation of protein modification by small protein conjugation or removal positive regulation of protein ubiquitination regulation of post-translational protein modification regulation of protein metabolic process primary metabolic process regulation of macromolecule metabolic process macromolecule modification macromolecule metabolic process post-translational protein modification regulation of metabolic process protein modification by small protein conjugation protein modification by small protein conjugation or removal regulation of apoptotic process apoptotic process regulation of programmed cell death cell death programmed cell death homeostatic process cellular component biogenesis regulation of protein-containing complex assembly positive regulation of protein-containing complex assembly cellular component assembly positive regulation of protein polymerization protein-containing complex assembly protein polymerization protein-containing complex organization positive regulation of cellular component biogenesis free ubiquitin chain polymerization regulation of free ubiquitin chain polymerization regulation of cellular component biogenesis cellular homeostasis positive regulation of free ubiquitin chain polymerization regulation of protein polymerization ubiquitin recycling protein phosphorylation protein autophosphorylation phosphorylation phosphate-containing compound metabolic process phosphorus metabolic process	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle mitochondrial membrane organelle inner membrane membrane mitochondrial inner membrane organelle envelope mitochondrial envelope membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle mitochondrial membrane organelle inner membrane membrane mitochondrial inner membrane organelle envelope mitochondrial envelope organelle membrane cytosol organelle outer membrane bounding membrane of organelle mitochondrial outer membrane outer membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth D]	IPR011009	Protein kinase-like domain superfamily	Homologous Superfamily
A [auth D]	IPR000719	Protein kinase domain	Domain
A [auth D]	IPR051511	Mitochondrial Quality Control and Scaffold Kinases	Family
A [auth D]	IPR008271	Serine/threonine-protein kinase, 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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.