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Open data
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Basic information
Entry | Database: PDB / ID: 7czm | |||||||||
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Title | Crystal structure of FIP200 Claw/p-OPtineurin LIR complex | |||||||||
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![]() | SIGNALING PROTEIN/PROTEIN BINDING / autophagy / FIP200 / Optineurin / SIGNALING PROTEIN / SIGNALING PROTEIN-PROTEIN BINDING complex | |||||||||
Function / homology | ![]() regulation of protein lipidation / ribophagy / parkin-mediated stimulation of mitophagy in response to mitochondrial depolarization / glycophagy / Atg1/ULK1 kinase complex / Golgi ribbon formation / negative regulation of receptor recycling / cell death / protein localization to Golgi apparatus / positive regulation of xenophagy ...regulation of protein lipidation / ribophagy / parkin-mediated stimulation of mitophagy in response to mitochondrial depolarization / glycophagy / Atg1/ULK1 kinase complex / Golgi ribbon formation / negative regulation of receptor recycling / cell death / protein localization to Golgi apparatus / positive regulation of xenophagy / phagophore assembly site membrane / Golgi to plasma membrane protein transport / piecemeal microautophagy of the nucleus / phagophore assembly site / TBC/RABGAPs / regulation of canonical NF-kappaB signal transduction / reticulophagy / TNFR1-induced proapoptotic signaling / K63-linked polyubiquitin modification-dependent protein binding / Macroautophagy / Golgi organization / autophagosome membrane / positive regulation of cell size / autophagosome assembly / autophagosome / polyubiquitin modification-dependent protein binding / cellular response to unfolded protein / positive regulation of autophagy / extrinsic apoptotic signaling pathway / negative regulation of canonical NF-kappaB signal transduction / protein-membrane adaptor activity / liver development / TNFR1-induced NF-kappa-B signaling pathway / negative regulation of extrinsic apoptotic signaling pathway / Regulation of TNFR1 signaling / positive regulation of JNK cascade / trans-Golgi network / autophagy / recycling endosome membrane / Regulation of PLK1 Activity at G2/M Transition / protein-macromolecule adaptor activity / heart development / nuclear membrane / defense response to Gram-negative bacterium / molecular adaptor activity / lysosome / positive regulation of protein phosphorylation / cell cycle / negative regulation of cell population proliferation / Golgi membrane / innate immune response / endoplasmic reticulum membrane / protein kinase binding / perinuclear region of cytoplasm / Golgi apparatus / signal transduction / nucleoplasm / identical protein binding / nucleus / metal ion binding / cytoplasm / cytosol Similarity search - Function | |||||||||
Biological species | ![]() | |||||||||
Method | ![]() ![]() ![]() | |||||||||
![]() | Zhou, Z.X. / Pan, L.F. | |||||||||
Funding support | ![]()
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![]() | ![]() Title: Phosphorylation regulates the binding of autophagy receptors to FIP200 Claw domain for selective autophagy initiation. Authors: Zhou, Z. / Liu, J. / Fu, T. / Wu, P. / Peng, C. / Gong, X. / Wang, Y. / Zhang, M. / Li, Y. / Wang, Y. / Xu, X. / Li, M. / Pan, L. | |||||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 110.7 KB | Display | ![]() |
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PDB format | ![]() | 79.9 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 467.6 KB | Display | ![]() |
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Full document | ![]() | 468.3 KB | Display | |
Data in XML | ![]() | 11.3 KB | Display | |
Data in CIF | ![]() | 14.8 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 7czgC ![]() 7d0eC ![]() 6dceS S: Starting model for refinement C: citing same article ( |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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Unit cell |
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Components on special symmetry positions |
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Components
#1: Protein | Mass: 12403.336 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() #2: Protein/peptide | Mass: 1580.587 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() #3: Chemical | #4: Chemical | ChemComp-CL / #5: Water | ChemComp-HOH / | Has ligand of interest | Y | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.56 Å3/Da / Density % sol: 51.88 % |
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Crystal grow | Temperature: 289 K / Method: vapor diffusion, sitting drop / Details: Potassium iodide, MES pH 6.5, PEG 4000 |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS PILATUS3 S 6M / Detector: PIXEL / Date: May 3, 2020 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.97918 Å / Relative weight: 1 |
Reflection | Resolution: 2→35.32 Å / Num. obs: 18560 / % possible obs: 99.6 % / Redundancy: 6.6 % / Biso Wilson estimate: 41.48 Å2 / Rmerge(I) obs: 0.034 / Net I/σ(I): 31.6 |
Reflection shell | Resolution: 2→2.07 Å / Rmerge(I) obs: 0.254 / Num. unique obs: 1836 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 6DCE Resolution: 2→34.96 Å / Cross valid method: FREE R-VALUE Stereochemistry target values: GeoStd + Monomer Library + CDL v1.2
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Displacement parameters | Biso mean: 56.42 Å2 | ||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2→34.96 Å
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Refine LS restraints |
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