: / positive regulation of retrograde transport, endosome to Golgi / regulation of lipid transport / positive regulation of neurotransmitter uptake / negative regulation of endoplasmic reticulum stress-induced neuron intrinsic apoptotic signaling pathway / negative regulation of spontaneous neurotransmitter secretion / negative regulation of intralumenal vesicle formation / regulation protein catabolic process at presynapse / regulation of protein targeting to mitochondrion / cellular response to L-glutamine ...: / positive regulation of retrograde transport, endosome to Golgi / regulation of lipid transport / positive regulation of neurotransmitter uptake / negative regulation of endoplasmic reticulum stress-induced neuron intrinsic apoptotic signaling pathway / negative regulation of spontaneous neurotransmitter secretion / negative regulation of intralumenal vesicle formation / regulation protein catabolic process at presynapse / regulation of protein targeting to mitochondrion / cellular response to L-glutamine / negative regulation of exosomal secretion / negative regulation of glucokinase activity / mitochondrion to lysosome vesicle-mediated transport / type 2 mitophagy / response to curcumin / cellular response to hydrogen sulfide / protein K27-linked ubiquitination / negative regulation of mitochondrial fusion / Parkin-FBXW7-Cul1 ubiquitin ligase complex / protein K29-linked ubiquitination / free ubiquitin chain polymerization / Lewy body / positive regulation of protein linear polyubiquitination / negative regulation of actin filament bundle assembly / host-mediated suppression of viral genome replication / positive regulation of mitophagy / RBR-type E3 ubiquitin transferase / regulation of synaptic vesicle transport / F-box domain binding / positive regulation of mitochondrial fusion / regulation of cellular response to oxidative stress / regulation of necroptotic process / mitochondrial fragmentation involved in apoptotic process / mitochondrion localization / regulation of dopamine metabolic process / positive regulation of dendrite extension / negative regulation of excitatory postsynaptic potential / negative regulation of intrinsic apoptotic signaling pathway by p53 class mediator / protein K6-linked ubiquitination / dopaminergic synapse / norepinephrine metabolic process / autophagy of mitochondrion / positive regulation of type 2 mitophagy / protein localization to mitochondrion / cellular response to L-glutamate / positive regulation of proteasomal protein catabolic process / cellular response to dopamine / positive regulation of protein localization to membrane / cellular response to toxic substance / mitochondrial fission / negative regulation of oxidative stress-induced neuron intrinsic apoptotic signaling pathway / positive regulation of tumor necrosis factor-mediated signaling pathway / aggresome assembly / protein K11-linked ubiquitination / negative regulation of synaptic transmission, glutamatergic / regulation of mitochondrion organization / ubiquitin conjugating enzyme binding / regulation of canonical Wnt signaling pathway / positive regulation of mitochondrial membrane potential / negative regulation of JNK cascade / aggresome / regulation of reactive oxygen species metabolic process / response to corticosterone / positive regulation of mitochondrial fission / dopamine uptake involved in synaptic transmission / ubiquitin-specific protease binding / response to muscle activity / negative regulation of release of cytochrome c from mitochondria / regulation of dopamine secretion / startle response / dopamine metabolic process / positive regulation of ATP biosynthetic process / cullin family protein binding / negative regulation of reactive oxygen species metabolic process / regulation of glucose metabolic process / protein K63-linked ubiquitination / protein deubiquitination / regulation of synaptic vesicle endocytosis / regulation of protein ubiquitination / protein monoubiquitination / cellular response to manganese ion / negative regulation of mitochondrial fission / cellular response to unfolded protein / ubiquitin ligase complex / positive regulation of insulin secretion involved in cellular response to glucose stimulus / regulation of postsynaptic membrane neurotransmitter receptor levels / protein K48-linked ubiquitination / negative regulation of endoplasmic reticulum stress-induced intrinsic apoptotic signaling pathway / proteasomal protein catabolic process / phospholipase binding / mitophagy / protein autoubiquitination / negative regulation of reactive oxygen species biosynthetic process / Josephin domain DUBs / ERAD pathway / heat shock protein binding / PINK1-PRKN Mediated Mitophagy / Hsp70 protein binding / tubulin binding / response to endoplasmic reticulum stress Similarity search - Function
N-terminal domain of TfIIb - #20 / : / 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 ...N-terminal domain of TfIIb - #20 / : / 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 / IBR domain / : / IBR domain / In Between Ring fingers / TRIAD supradomain / TRIAD supradomain profile. / N-terminal domain of TfIIb / Single Sheet / Ubiquitin family / Ubiquitin homologues / Ubiquitin domain profile. / Ubiquitin-like domain / Ubiquitin-like domain superfamily / Mainly Beta Similarity search - Domain/homology
Group: Data collection / Other Category: chem_comp_atom / chem_comp_bond / pdbx_database_status Item: _pdbx_database_status.deposit_site
Remark 700
SHEET THE AUTHORS STATE THAT CD, NOE AND CHEMICAL SHIFT INDEX DATA ARE NOT CONSISTENT WITH BETA ...SHEET THE AUTHORS STATE THAT CD, NOE AND CHEMICAL SHIFT INDEX DATA ARE NOT CONSISTENT WITH BETA SHEET CHARACTER IN THIS PROTEIN.
Parkin / Ubiquitin E3 ligase PRKN / Parkinson juvenile disease protein 2 / Parkinson disease protein 2
Mass: 8618.604 Da / Num. of mol.: 1 / Fragment: IBR-type 1 domain, residues 308-384 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Gene: PARK2, PRKN Plasmid details: the thrombin site of pET15b has been replaced with a TEV recognition site Plasmid: p11 (modified pET15b) / Production host: Escherichia coli (E. coli) / Strain (production host): BL21(DE3) STAR References: UniProt: O60260, Ligases; Forming carbon-nitrogen bonds; Acid-amino-acid ligases (peptide synthases)
Method: simulated annealing, torsion angle dynamics / Software ordinal: 1 Details: The authors state that they used a CYANA residue library with a modified Cysteine - zinc ligand for use in the structure calculations. These were the angles and lengths listed.
NMR representative
Selection criteria: closest to the average
NMR ensemble
Conformer selection criteria: target function / Conformers calculated total number: 200 / Conformers submitted total number: 20
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