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Yorodumi- PDB-6qiu: Crystal structure of 14-3-3 sigma in complex with Ataxin-1 Ser776... -
+Open data
-Basic information
Entry | Database: PDB / ID: 6qiu | ||||||
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Title | Crystal structure of 14-3-3 sigma in complex with Ataxin-1 Ser776 phosphopeptide | ||||||
Components |
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Keywords | PROTEIN BINDING / phosphoprotein binding anti-aggregation | ||||||
Function / homology | Function and homology information poly(G) binding / nuclear inclusion body / nuclear export / poly(U) RNA binding / regulation of epidermal cell division / protein kinase C inhibitor activity / positive regulation of epidermal cell differentiation / keratinocyte development / keratinization / social behavior ...poly(G) binding / nuclear inclusion body / nuclear export / poly(U) RNA binding / regulation of epidermal cell division / protein kinase C inhibitor activity / positive regulation of epidermal cell differentiation / keratinocyte development / keratinization / social behavior / RNA processing / Regulation of localization of FOXO transcription factors / keratinocyte proliferation / Activation of BAD and translocation to mitochondria / negative regulation of keratinocyte proliferation / establishment of skin barrier / SARS-CoV-2 targets host intracellular signalling and regulatory pathways / Chk1/Chk2(Cds1) mediated inactivation of Cyclin B:Cdk1 complex / protein kinase A signaling / negative regulation of stem cell proliferation / SARS-CoV-1 targets host intracellular signalling and regulatory pathways / RHO GTPases activate PKNs / protein export from nucleus / TP53 Regulates Transcription of Genes Involved in G2 Cell Cycle Arrest / release of cytochrome c from mitochondria / positive regulation of protein export from nucleus / learning / stem cell proliferation / Translocation of SLC2A4 (GLUT4) to the plasma membrane / TP53 Regulates Metabolic Genes / brain development / negative regulation of protein kinase activity / negative regulation of cysteine-type endopeptidase activity involved in apoptotic process / memory / nuclear matrix / phosphoprotein binding / protein self-association / intrinsic apoptotic signaling pathway in response to DNA damage / nervous system development / positive regulation of cell growth / regulation of cell cycle / cadherin binding / negative regulation of DNA-templated transcription / nucleolus / protein kinase binding / negative regulation of transcription by RNA polymerase II / signal transduction / DNA binding / extracellular space / extracellular exosome / nucleoplasm / nucleus / identical protein binding / cytosol / cytoplasm Similarity search - Function | ||||||
Biological species | Homo sapiens (human) | ||||||
Method | X-RAY DIFFRACTION / Resolution: 1.802 Å | ||||||
Authors | Leysen, S. / Milroy, L.G. / Davis, J.M. / Brunsveld, L. / Ottmann, C. | ||||||
Citation | Journal: To Be Published Title: Structural insights into the cytoplasmic chaperone effect of 14-3-3 proteins on Ataxin-1 Authors: Leysen, S. / Burnley, R.J. / Rodriguez, E. / Milroy, L.G. / Soini, L. / Adamski, C.J. / Davis, R. / Obsil, T. / Brunsveld, L. / Crabbe, T. / Zoghbi, H.Y. / Ottmann, C. / Davis, J.M. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 6qiu.cif.gz | 73.5 KB | Display | PDBx/mmCIF format |
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PDB format | pdb6qiu.ent.gz | 56.8 KB | Display | PDB format |
PDBx/mmJSON format | 6qiu.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/qi/6qiu ftp://data.pdbj.org/pub/pdb/validation_reports/qi/6qiu | HTTPS FTP |
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-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: Protein | Mass: 26542.914 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Gene: SFN, HME1 / Production host: Escherichia coli (E. coli) / References: UniProt: P31947 |
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#2: Protein/peptide | Mass: 1356.427 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) Homo sapiens (human) / References: UniProt: P54253*PLUS |
#3: Chemical | ChemComp-MG / |
#4: Chemical | ChemComp-CL / |
#5: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.6 Å3/Da / Density % sol: 52.72 % |
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Crystal grow | Temperature: 277 K / Method: vapor diffusion, hanging drop Details: 0.095 M Hepes (pH 7.1, 7.3, 7.5, 7.7), 0.19 M CaCl2, 5% glycerol, 24-29% PEG 400. |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N | ||||||||||||||||||||||||||||||
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Diffraction source | Source: SEALED TUBE / Type: RIGAKU MICROMAX-003 / Wavelength: 1.54 Å | ||||||||||||||||||||||||||||||
Detector | Type: DECTRIS PILATUS3 R 200K-A / Detector: PIXEL / Date: Sep 1, 2015 | ||||||||||||||||||||||||||||||
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | ||||||||||||||||||||||||||||||
Radiation wavelength | Wavelength: 1.54 Å / Relative weight: 1 | ||||||||||||||||||||||||||||||
Reflection | Resolution: 1.8→45.64 Å / Num. obs: 26519 / % possible obs: 97.3 % / Redundancy: 6.4 % / Biso Wilson estimate: 11.57 Å2 / CC1/2: 0.999 / Rmerge(I) obs: 0.049 / Rpim(I) all: 0.021 / Rrim(I) all: 0.053 / Net I/σ(I): 34.2 / Num. measured all: 169812 | ||||||||||||||||||||||||||||||
Reflection shell | Diffraction-ID: 1
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-Processing
Software |
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Refinement | Resolution: 1.802→41.768 Å / SU ML: 0.17 / Cross valid method: THROUGHOUT / σ(F): 1.34 / Phase error: 17.76 / Stereochemistry target values: ML
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso max: 95.01 Å2 / Biso mean: 15.1802 Å2 / Biso min: 2.08 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: final / Resolution: 1.802→41.768 Å
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LS refinement shell | Refine-ID: X-RAY DIFFRACTION / Rfactor Rfree error: 0 / Total num. of bins used: 9
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