Annotations: 1MG8

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d1mg8a_	Alpha and beta proteins (a+b)	beta-Grasp (ubiquitin-like)	Ubiquitin-like	Ubiquitin-related	Ubiquitin-like domain of parkin	(Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Ubiquitin-like	8038403	3000157	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	ubiquitin_2	e1mg8A1	A: a+b two layers	X: beta-Grasp	H: Ubiquitin-related	T: Ubiquitin-like	F: ubiquitin_2	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.10.20.90	Alpha Beta	Roll	Ubiquitin-like (UB roll)	Phosphatidylinositol 3-kinase Catalytic Subunit	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF00240	Ubiquitin family (ubiquitin)	Ubiquitin family	This family contains a number of ubiquitin-like proteins: SUMO (smt3 homologue) (see Swiss:Q02724), Nedd8 (see Swiss:P29595), Elongin B (see Swiss:Q15370), Rub1 (see Swiss:Q9SHE7), and Parkin (see Swiss:O60260). A number of them are thought to carry ...	This family contains a number of ubiquitin-like proteins: SUMO (smt3 homologue) (see Swiss:Q02724), Nedd8 (see Swiss:P29595), Elongin B (see Swiss:Q15370), Rub1 (see Swiss:Q9SHE7), and Parkin (see Swiss:O60260). A number of them are thought to carry a distinctive five-residue motif termed the proteasome-interacting motif (PIM), which may have a biologically significant role in protein delivery to proteasomes and recruitment of proteasomes to transcription sites [5].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Parkin	histone deacetylase binding protein binding binding enzyme binding protein-containing complex binding ubiquitin protein ligase binding ubiquitin-like protein ligase binding cullin family protein binding PDZ domain binding protein domain specific binding ubiquitin binding ubiquitin-like protein binding transcription corepressor activity transcription regulator activity histone deacetylase binding protein binding binding enzyme binding protein-containing complex binding ubiquitin protein ligase binding ubiquitin-like protein ligase binding cullin family protein binding PDZ domain binding protein domain specific binding ubiquitin binding ubiquitin-like protein binding transcription corepressor activity transcription regulator activity transcription coregulator activity protein-macromolecule adaptor activity molecular adaptor activity ubiquitin-like protein conjugating enzyme binding ubiquitin conjugating enzyme binding kinase binding protein kinase binding beta-catenin binding signaling receptor binding G protein-coupled receptor binding F-box domain binding aminoacyltransferase activity ubiquitin-like protein transferase activity catalytic activity, acting on a protein acyltransferase activity ubiquitin-like protein ligase activity ubiquitin protein ligase activity transferase activity catalytic activity ubiquitin-protein transferase activity ubiquitin-specific protease binding protease binding identical protein binding phospholipase binding cytoskeletal protein binding tubulin binding Hsp70 protein binding protein-folding chaperone binding heat shock protein binding actin binding cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding	cellular response to stimulus positive regulation of cell communication regulation of cellular process positive regulation of signal transduction response to stimulus signaling positive regulation of biological process response to cytokine regulation of signal transduction positive regulation of response to cytokine stimulus cytokine-mediated signaling pathway cell communication positive regulation of tumor necrosis factor-mediated signaling pathway positive regulation of response to stimulus cellular response to tumor necrosis factor cellular response to stimulus positive regulation of cell communication regulation of cellular process positive regulation of signal transduction response to stimulus signaling positive regulation of biological process response to cytokine regulation of signal transduction positive regulation of response to cytokine stimulus cytokine-mediated signaling pathway cell communication positive regulation of tumor necrosis factor-mediated signaling pathway positive regulation of response to stimulus cellular response to tumor necrosis factor tumor necrosis factor-mediated signaling pathway cellular response to cytokine stimulus signal transduction positive regulation of cellular process regulation of biological process regulation of signaling cell surface receptor signaling pathway regulation of tumor necrosis factor-mediated signaling pathway regulation of cytokine-mediated signaling pathway biological regulation response to peptide regulation of response to cytokine stimulus regulation of response to stimulus response to chemical regulation of cell communication cellular process response to tumor necrosis factor positive regulation of cytokine-mediated signaling pathway positive regulation of signaling regulation of protein stability regulation of biological quality protein stabilization import into cell regulation of localization positive regulation of neurotransmitter transport transport regulation of transport regulation of neurotransmitter transport neurotransmitter transport establishment of localization localization positive regulation of transport positive regulation of neurotransmitter uptake neurotransmitter uptake regulation of neurotransmitter uptake regulation of amine metabolic process dopamine metabolic process primary metabolic process catechol-containing compound metabolic process regulation of primary metabolic process amine metabolic process catecholamine metabolic process phenol-containing compound metabolic process metabolic process regulation of catecholamine metabolic process regulation of metabolic process biogenic amine metabolic process regulation of dopamine metabolic process negative regulation of signaling negative regulation of intracellular signal transduction negative regulation of biological process regulation of programmed cell death regulation of intrinsic apoptotic signaling pathway intracellular signal transduction negative regulation of cell communication regulation of intracellular signal transduction negative regulation of apoptotic signaling pathway regulation of signal transduction by p53 class mediator negative regulation of cellular process intrinsic apoptotic signaling pathway negative regulation of signal transduction by p53 class mediator negative regulation of response to stimulus negative regulation of programmed cell death regulation of apoptotic process signal transduction by p53 class mediator cell death negative regulation of signal transduction apoptotic signaling pathway negative regulation of intrinsic apoptotic signaling pathway negative regulation of apoptotic process negative regulation of intrinsic apoptotic signaling pathway by p53 class mediator intrinsic apoptotic signaling pathway by p53 class mediator apoptotic process regulation of intrinsic apoptotic signaling pathway by p53 class mediator programmed cell death regulation of apoptotic signaling pathway protein autoubiquitination protein ubiquitination macromolecule modification protein metabolic process macromolecule metabolic process post-translational protein modification protein modification process protein modification by small protein conjugation protein modification by small protein conjugation or removal catabolic process protein catabolic process macromolecule catabolic process positive regulation of proteasomal protein catabolic process positive regulation of protein metabolic process proteolysis involved in protein catabolic process proteasome-mediated ubiquitin-dependent protein catabolic process regulation of ubiquitin-dependent protein catabolic process positive regulation of metabolic process positive regulation of ubiquitin-dependent protein catabolic process regulation of proteolysis regulation of proteolysis involved in protein catabolic process modification-dependent macromolecule catabolic process proteolysis positive regulation of macromolecule metabolic process regulation of protein metabolic process proteasomal protein catabolic process regulation of macromolecule metabolic process regulation of catabolic process positive regulation of protein catabolic process positive regulation of proteolysis involved in protein catabolic process positive regulation of catabolic process regulation of proteasomal ubiquitin-dependent protein catabolic process modification-dependent protein catabolic process positive regulation of proteolysis regulation of proteasomal protein catabolic process positive regulation of proteasomal ubiquitin-dependent protein catabolic process ubiquitin-dependent protein catabolic process regulation of protein catabolic process cellular localization regulation of cellular component organization synaptic vesicle cycle regulation of synaptic vesicle recycling vesicle-mediated transport presynaptic endocytosis vesicle-mediated transport in synapse cellular component organization synaptic vesicle recycling regulation of synaptic vesicle endocytosis establishment of localization in cell cellular component organization or biogenesis regulation of endocytosis synaptic vesicle endocytosis regulation of vesicle-mediated transport endocytosis protein K6-linked ubiquitination protein polyubiquitination positive regulation of organelle organization positive regulation of cellular component organization regulation of developmental process positive regulation of developmental process anatomical structure development regulation of mitochondrial fusion mitochondrial fusion regulation of anatomical structure morphogenesis positive regulation of mitochondrial fusion mitochondrion organization developmental process regulation of organelle organization organelle fusion anatomical structure morphogenesis organelle organization regulation of mitochondrion organization startle response multicellular organismal process system process nervous system process neuromuscular process response to external stimulus negative regulation of metabolic process reactive oxygen species metabolic process negative regulation of reactive oxygen species metabolic process regulation of reactive oxygen species metabolic process protein K48-linked ubiquitination cellular response to chemical stimulus cellular response to toxic substance response to toxic substance cellular component biogenesis cellular component assembly aggresome assembly inclusion body assembly RNA metabolic process negative regulation of RNA biosynthetic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process regulation of RNA metabolic process transcription by RNA polymerase II negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process negative regulation of macromolecule metabolic process regulation of biosynthetic process regulation of transcription by RNA polymerase II negative regulation of DNA-templated transcription negative regulation of transcription by RNA polymerase II nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of gene expression biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription negative regulation of RNA metabolic process cellular homeostasis neuron cellular homeostasis homeostatic process cellular response to stress response to stress response to endoplasmic reticulum stress regulation of growth developmental growth cell projection organization neuron projection development regulation of cell morphogenesis multicellular organism development cell projection morphogenesis neuron differentiation neuron projection morphogenesis cell differentiation positive regulation of developmental growth system development nervous system development developmental growth involved in morphogenesis generation of neurons positive regulation of dendrite extension cellular developmental process plasma membrane bounded cell projection morphogenesis cell development cell growth cell morphogenesis neurogenesis dendrite extension neuron projection extension regulation of developmental growth plasma membrane bounded cell projection organization developmental cell growth growth regulation of dendrite extension positive regulation of cell growth regulation of cell growth positive regulation of growth neuron development regulation protein catabolic process at synapse regulation protein catabolic process at presynapse positive regulation of canonical NF-kappaB signal transduction intracellular signaling cassette positive regulation of intracellular signal transduction canonical NF-kappaB signal transduction regulation of canonical NF-kappaB signal transduction negative regulation by host of viral genome replication modulation by host of viral process biological process involved in interspecies interaction between organisms viral genome replication viral process viral life cycle negative regulation by host of viral process modulation of process of another organism host-mediated perturbation of symbiont process modulation by host of viral genome replication regulation of mitochondrial membrane potential regulation of membrane potential cellular response to oxidative stress regulation of cellular response to stress cellular response to chemical stress regulation of cellular response to oxidative stress response to oxidative stress regulation of response to stress regulation of response to oxidative stress regulation of response to endoplasmic reticulum stress negative regulation of endoplasmic reticulum stress-induced intrinsic apoptotic signaling pathway intrinsic apoptotic signaling pathway in response to endoplasmic reticulum stress regulation of endoplasmic reticulum stress-induced intrinsic apoptotic signaling pathway negative regulation of response to endoplasmic reticulum stress exosomal secretion establishment of organelle localization negative regulation of transport secretion by cell regulation of secretion by cell negative regulation of secretion negative regulation of exocytosis negative regulation of exosomal secretion organelle localization negative regulation of secretion by cell vesicle localization secretion regulation of exosomal secretion establishment of vesicle localization export from cell extracellular exosome biogenesis regulation of secretion exocytosis extracellular vesicle biogenesis regulation of exocytosis protein localization negative regulation of protein transport establishment of protein localization nitrogen compound transport cellular macromolecule localization negative regulation of hormone secretion regulation of peptide hormone secretion negative regulation of peptide hormone secretion regulation of hormone levels establishment of protein localization to extracellular region negative regulation of establishment of protein localization protein secretion regulation of protein secretion negative regulation of protein secretion regulation of hormone secretion regulation of protein localization regulation of peptide secretion hormone secretion protein localization to extracellular region negative regulation of peptide secretion peptide secretion amide transport signal release negative regulation of protein localization regulation of peptide transport regulation of establishment of protein localization cell-cell signaling regulation of protein transport peptide transport negative regulation of insulin secretion protein transport regulation of cellular localization regulation of insulin secretion peptide hormone secretion macromolecule localization hormone transport insulin secretion vesicle budding from membrane vesicle organization regulation of endosome organization endosome organization endomembrane system organization membrane organization negative regulation of cellular component organization negative regulation of intralumenal vesicle formation intralumenal vesicle formation negative regulation of organelle organization negative regulation of endosome organization regulation of intralumenal vesicle formation mitophagy macroautophagy type 2 mitophagy autophagy autophagy of mitochondrion process utilizing autophagic mechanism protein K63-linked ubiquitination norepinephrine metabolic process organelle fission mitochondrial fission regulation of mitochondrial fission positive regulation of mitochondrial fission protein K11-linked ubiquitination protein localization to organelle protein localization to mitochondrion regulation of protein modification process positive regulation of protein linear polyubiquitination regulation of protein ubiquitination positive regulation of post-translational protein modification positive regulation of protein modification process regulation of protein modification by small protein conjugation or removal positive regulation of protein modification by small protein conjugation or removal regulation of protein linear polyubiquitination positive regulation of protein ubiquitination regulation of protein polyubiquitination regulation of post-translational protein modification positive regulation of protein polyubiquitination protein linear polyubiquitination negative regulation of gene expression behavior learning learning or memory cognition protein destabilization regulation of cytoskeleton organization regulation of actin filament-based process regulation of actin filament bundle assembly actin filament bundle organization actin filament-based process negative regulation of supramolecular fiber organization regulation of actin filament organization actin cytoskeleton organization negative regulation of cytoskeleton organization actin filament organization negative regulation of actin filament bundle assembly regulation of cellular component biogenesis regulation of actin cytoskeleton organization actin filament bundle assembly regulation of supramolecular fiber organization supramolecular fiber organization cytoskeleton organization negative regulation of mitochondrial fusion negative regulation of developmental process intracellular transport mitochondrion to lysosome vesicle-mediated transport lysosomal transport mitochondrion-derived vesicle mediated transport vacuolar transport mitochondrial transport positive regulation of macromolecule biosynthetic process positive regulation of gene expression positive regulation of biosynthetic process regulation of canonical Wnt signaling pathway canonical Wnt signaling pathway negative regulation of Wnt signaling pathway Wnt signaling pathway regulation of Wnt signaling pathway negative regulation of canonical Wnt signaling pathway regulation of type 2 mitophagy positive regulation of type 2 mitophagy regulation of autophagy positive regulation of autophagy of mitochondrion regulation of autophagy of mitochondrion positive regulation of macroautophagy positive regulation of autophagy positive regulation of mitophagy regulation of mitophagy regulation of macroautophagy protein polymerization protein-containing complex organization free ubiquitin chain polymerization protein-containing complex assembly ubiquitin recycling modulation of chemical synaptic transmission negative regulation of neurotransmitter transport regulation of spontaneous neurotransmitter secretion negative regulation of spontaneous neurotransmitter secretion synaptic signaling spontaneous synaptic transmission regulation of spontaneous synaptic transmission trans-synaptic signaling negative regulation of neurotransmitter secretion neurotransmitter secretion chemical synaptic transmission spontaneous neurotransmitter secretion signal release from synapse regulation of trans-synaptic signaling regulation of neurotransmitter secretion anterograde trans-synaptic signaling positive regulation of protein localization to membrane localization within membrane protein localization to membrane positive regulation of protein localization regulation of protein localization to membrane apoptotic mitochondrial changes regulation of release of cytochrome c from mitochondria negative regulation of release of cytochrome c from mitochondria release of cytochrome c from mitochondria synaptic transmission, dopaminergic intrinsic apoptotic signaling pathway in response to oxidative stress neuron apoptotic process regulation of oxidative stress-induced intrinsic apoptotic signaling pathway negative regulation of neuron apoptotic process regulation of oxidative stress-induced neuron intrinsic apoptotic signaling pathway negative regulation of oxidative stress-induced intrinsic apoptotic signaling pathway neuron intrinsic apoptotic signaling pathway in response to oxidative stress negative regulation of oxidative stress-induced neuron intrinsic apoptotic signaling pathway regulation of neuron apoptotic process protein monoubiquitination positive regulation of DNA-templated transcription positive regulation of nucleobase-containing compound metabolic process positive regulation of transcription by RNA polymerase II positive regulation of RNA metabolic process positive regulation of RNA biosynthetic process locomotory behavior adult locomotory behavior adult behavior neuron intrinsic apoptotic signaling pathway in response to endoplasmic reticulum stress regulation of endoplasmic reticulum stress-induced neuron intrinsic apoptotic signaling pathway negative regulation of endoplasmic reticulum stress-induced neuron intrinsic apoptotic signaling pathway negative regulation of JNK cascade JNK cascade regulation of JNK cascade regulation of MAPK cascade MAPK cascade negative regulation of MAPK cascade monoamine transport organic hydroxy compound transport dopamine transport catecholamine uptake dopamine uptake involved in synaptic transmission catecholamine transport neurotransmitter reuptake catecholamine uptake involved in synaptic transmission dopamine uptake synaptic transmission, glutamatergic	membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen nuclear speck nuclear body intracellular organelle cellular anatomical structure nucleoplasm organelle lumen organelle nuclear lumen membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen nuclear speck nuclear body intracellular organelle cellular anatomical structure nucleoplasm organelle lumen organelle nuclear lumen cytoplasm cytosol intracellular vesicle mitochondrion-derived vesicle cytoplasmic vesicle vesicle protein-containing complex ubiquitin ligase complex catalytic complex Parkin-FBXW7-Cul1 ubiquitin ligase complex transferase complex intracellular protein-containing complex synapse cell junction dopaminergic synapse cell projection neuron projection plasma membrane bounded cell projection Golgi apparatus endomembrane system perinuclear region of cytoplasm mitochondrial membrane mitochondrion membrane organelle outer membrane organelle envelope bounding membrane of organelle mitochondrial envelope mitochondrial outer membrane outer membrane organelle membrane presynapse inclusion body aggresome postsynaptic density postsynapse neuron to neuron synapse postsynaptic specialization asymmetric synapse endoplasmic reticulum

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR002867	IBR domain	Domain
A	IPR044066	TRIAD supradomain	Domain
A	IPR047535	E3 ubiquitin-protein ligase parkin, RING finger, HC subclass	Domain
A	IPR029071	Ubiquitin-like domain superfamily	Homologous Superfamily
A	IPR041170	RING/Ubox-like zinc-binding domain	Domain
A	IPR003977	E3 ubiquitin-protein ligase parkin	Family
A	IPR047534	E3 ubiquitin-protein ligase parkin, BRcat domain	Domain
A	IPR015496	Ubiquilin	Family
A	IPR047536	E3 ubiquitin-protein ligase parkin, Rcat domain	Domain
A	IPR041565	Parkin, RING/Ubox like zinc-binding domain	Domain
A	IPR000626	Ubiquitin-like domain	Domain
A	IPR054694	E3 ubiquitin-protein ligase parkin-like, IBR domain	Domain

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.