Entry Database : PDB / ID : 2zeq Structure visualization Downloads & linksTitle Crystal structure of ubiquitin-like domain of murine Parkin ComponentsE3 ubiquitin-protein ligase parkin Details Keywords LIGASE / Parkin / ubiquitin-like domain / Alternative splicing / Cell junction / Cell projection / Cytoplasm / Endoplasmic reticulum / Membrane / Metal-binding / Nucleus / Postsynaptic cell membrane / S-nitrosylation / Synapse / Ubl conjugation / Ubl conjugation pathway / Zinc / Zinc-fingerFunction / homology Function and homology informationFunction Domain/homology Component
positive regulation of neurotransmitter uptake / regulation protein catabolic process at presynapse / negative regulation of endoplasmic reticulum stress-induced neuron intrinsic apoptotic signaling pathway / mitochondrion-derived vesicle / negative regulation of spontaneous neurotransmitter secretion / negative regulation of intralumenal vesicle formation / PINK1-PRKN Mediated Mitophagy / Josephin domain DUBs / mitochondrion to lysosome vesicle-mediated transport / negative regulation of exosomal secretion ... positive regulation of neurotransmitter uptake / regulation protein catabolic process at presynapse / negative regulation of endoplasmic reticulum stress-induced neuron intrinsic apoptotic signaling pathway / mitochondrion-derived vesicle / negative regulation of spontaneous neurotransmitter secretion / negative regulation of intralumenal vesicle formation / PINK1-PRKN Mediated Mitophagy / Josephin domain DUBs / mitochondrion to lysosome vesicle-mediated transport / negative regulation of exosomal secretion / Regulation of necroptotic cell death / positive regulation of mitochondrial fusion / parkin-mediated stimulation of mitophagy in response to mitochondrial depolarization / cellular response to hydrogen sulfide / Aggrephagy / Parkin-FBXW7-Cul1 ubiquitin ligase complex / negative regulation of mitochondrial fusion / free ubiquitin chain polymerization / negative regulation of actin filament bundle assembly / RBR-type E3 ubiquitin transferase / positive regulation of protein linear polyubiquitination / F-box domain binding / negative regulation by host of viral genome replication / mitochondrion localization / positive regulation of mitophagy / cellular response to toxic substance / mitochondrial fragmentation involved in apoptotic process / regulation of cellular response to oxidative stress / regulation of dopamine metabolic process / dopaminergic synapse / negative regulation of excitatory postsynaptic potential / regulation of neurotransmitter secretion / cellular response to L-glutamate / autophagy of mitochondrion / negative regulation of intrinsic apoptotic signaling pathway by p53 class mediator / Antigen processing: Ubiquitination & Proteasome degradation / positive regulation of dendrite extension / protein K6-linked ubiquitination / norepinephrine metabolic process / protein localization to mitochondrion / negative regulation of JNK cascade / positive regulation of protein localization to membrane / negative regulation of synaptic transmission, glutamatergic / protein metabolic process / protein K11-linked ubiquitination / negative regulation of oxidative stress-induced neuron intrinsic apoptotic signaling pathway / synaptic transmission, dopaminergic / positive regulation of tumor necrosis factor-mediated signaling pathway / mitochondrial fission / aggresome assembly / ubiquitin conjugating enzyme binding / regulation of mitochondrion organization / aggresome / positive regulation of mitochondrial membrane potential / regulation of synaptic vesicle endocytosis / dopamine uptake involved in synaptic transmission / positive regulation of mitochondrial fission / intracellular vesicle / dopamine metabolic process / positive regulation of ATP biosynthetic process / ubiquitin-specific protease binding / startle response / negative regulation of release of cytochrome c from mitochondria / regulation of postsynaptic membrane neurotransmitter receptor levels / protein monoubiquitination / positive regulation of insulin secretion involved in cellular response to glucose stimulus / cullin family protein binding / phospholipase binding / protein K63-linked ubiquitination / mitophagy / negative regulation of mitochondrial fission / negative regulation of insulin secretion / protein autoubiquitination / protein K48-linked ubiquitination / negative regulation of endoplasmic reticulum stress-induced intrinsic apoptotic signaling pathway / negative regulation of reactive oxygen species biosynthetic process / ubiquitin ligase complex / Hsp70 protein binding / tubulin binding / response to endoplasmic reticulum stress / mitochondrion organization / adult locomotory behavior / negative regulation of protein phosphorylation / regulation of mitochondrial membrane potential / learning / ubiquitin binding / regulation of autophagy / synaptic transmission, glutamatergic / locomotory behavior / PDZ domain binding / G protein-coupled receptor binding / protein destabilization / protein catabolic process / modulation of chemical synaptic transmission / negative regulation of canonical Wnt signaling pathway / terminal bouton / beta-catenin binding / synaptic vesicle membrane / kinase binding / histone deacetylase binding Similarity search - Function : / : / : / E3 ubiquitin-protein ligase parkin / RING/Ubox-like zinc-binding domain / Parkin, RING/Ubox like zinc-binding domain / RING/Ubox like zinc-binding domain / RING/Ubox like zinc-binding domain / E3 ubiquitin ligase RBR family / IBR domain ... : / : / : / E3 ubiquitin-protein ligase parkin / RING/Ubox-like zinc-binding domain / Parkin, RING/Ubox like zinc-binding domain / RING/Ubox like zinc-binding domain / RING/Ubox like zinc-binding domain / E3 ubiquitin ligase RBR family / IBR domain / In Between Ring fingers / TRIAD supradomain / TRIAD supradomain profile. / Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 / Ubiquitin-like (UB roll) / Ubiquitin family / Ubiquitin homologues / Ubiquitin domain profile. / Ubiquitin-like domain / Ubiquitin-like domain superfamily / Roll / Alpha Beta Similarity search - Domain/homologyBiological species Mus musculus (house mouse)Method X-RAY DIFFRACTION / SAD / Resolution : 1.65 Å DetailsAuthors Tomoo, K. CitationJournal : Biochim.Biophys.Acta / Year : 2008Title : Crystal structure and molecular dynamics simulation of ubiquitin-like domain of murine parkinAuthors : Tomoo, K. / Mukai, Y. / In, Y. / Miyagawa, H. / Kitamura, K. / Yamano, A. / Shindo, H. / Ishida, T. History Deposition Dec 14, 2007 Deposition site : PDBJ / Processing site : PDBJRevision 1.0 Aug 19, 2008 Provider : repository / Type : Initial releaseRevision 1.1 Jul 13, 2011 Group : Version format complianceRevision 1.2 Mar 13, 2024 Group : Data collection / Database referencesCategory : chem_comp_atom / chem_comp_bond ... chem_comp_atom / chem_comp_bond / database_2 / struct_ref_seq_dif Item : _database_2.pdbx_DOI / _database_2.pdbx_database_accession / _struct_ref_seq_dif.details
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