+Open data
-Basic information
Entry | Database: PDB / ID: 2jy5 | ||||||
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Title | NMR structure of Ubiquilin 1 UBA domain | ||||||
Components | Ubiquilin-1UBQLN1 | ||||||
Keywords | SIGNALING PROTEIN / UBA / Ubiquilin / Alternative splicing / Cytoplasm / Nucleus / Phosphoprotein / Proteasome | ||||||
Function / homology | Function and homology information negative regulation of store-operated calcium channel activity / : / regulation of oxidative stress-induced intrinsic apoptotic signaling pathway / negative regulation of toll-like receptor 3 signaling pathway / aggrephagy / aggresome / autophagosome maturation / autophagosome assembly / polyubiquitin modification-dependent protein binding / regulation of protein ubiquitination ...negative regulation of store-operated calcium channel activity / : / regulation of oxidative stress-induced intrinsic apoptotic signaling pathway / negative regulation of toll-like receptor 3 signaling pathway / aggrephagy / aggresome / autophagosome maturation / autophagosome assembly / polyubiquitin modification-dependent protein binding / regulation of protein ubiquitination / autophagosome / regulation of macroautophagy / : / response to endoplasmic reticulum stress / proteasome complex / positive regulation of protein ubiquitination / macroautophagy / kinase binding / Cargo recognition for clathrin-mediated endocytosis / cellular response to hypoxia / cytoplasmic vesicle / perinuclear region of cytoplasm / endoplasmic reticulum / protein-containing complex / nucleoplasm / identical protein binding / plasma membrane / cytosol / cytoplasm Similarity search - Function | ||||||
Biological species | Homo sapiens (human) | ||||||
Method | SOLUTION NMR / simulated annealing, torsion angle dynamics | ||||||
Authors | Zhang, D. / Raasi, S. / Fushman, D. | ||||||
Citation | Journal: J.Mol.Biol. / Year: 2008 Title: Affinity makes the difference: nonselective interaction of the UBA domain of Ubiquilin-1 with monomeric ubiquitin and polyubiquitin chains Authors: Zhang, D. / Raasi, S. / Fushman, D. | ||||||
History |
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Remark 650 | HELIX DETERMINATION METHOD: AUTHOR |
-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2jy5.cif.gz | 156.4 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2jy5.ent.gz | 133.9 KB | Display | PDB format |
PDBx/mmJSON format | 2jy5.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/jy/2jy5 ftp://data.pdbj.org/pub/pdb/validation_reports/jy/2jy5 | HTTPS FTP |
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-Related structure data
-Links
-Assembly
Deposited unit |
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1 |
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NMR ensembles |
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-Components
#1: Protein | Mass: 5634.231 Da / Num. of mol.: 1 / Fragment: UBA domain Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Description: pGEX-4T1 / Gene: UBQLN1, DA41, PLIC1 / Species (production host): Escherichia coli / Production host: Escherichia coli BL21 (bacteria) / Strain (production host): BL21 / References: UniProt: Q9UMX0 |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||||||||||||||||||
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NMR experiment |
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-Sample preparation
Details |
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Sample |
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Sample conditions |
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-NMR measurement
NMR spectrometer | Type: Bruker Avance / Manufacturer: Bruker / Model: AVANCE / Field strength: 600 MHz |
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-Processing
NMR software |
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Refinement | Method: simulated annealing, torsion angle dynamics / Software ordinal: 1 | ||||||||||||
NMR representative | Selection criteria: lowest energy | ||||||||||||
NMR ensemble | Conformer selection criteria: structures with the lowest energy Conformers calculated total number: 1000 / Conformers submitted total number: 10 |