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Open data
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Basic information
Entry | Database: PDB / ID: 1jk9 | ||||||
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Title | Heterodimer between H48F-ySOD1 and yCCS | ||||||
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![]() | OXIDOREDUCTASE / protein-protein complex / heterodimer / metallochaperone / chaperone / copper / Amyotrophic Lateral Sclerosis / Lou Gehrig's Disease | ||||||
Function / homology | ![]() oxidoreductase activity, acting on a sulfur group of donors, oxygen as acceptor / superoxide dismutase complex / protein maturation by copper ion transfer / negative regulation of cellular respiration / fungal-type cell wall organization / superoxide dismutase copper chaperone activity / Platelet degranulation / Detoxification of Reactive Oxygen Species / copper ion transport / intracellular zinc ion homeostasis ...oxidoreductase activity, acting on a sulfur group of donors, oxygen as acceptor / superoxide dismutase complex / protein maturation by copper ion transfer / negative regulation of cellular respiration / fungal-type cell wall organization / superoxide dismutase copper chaperone activity / Platelet degranulation / Detoxification of Reactive Oxygen Species / copper ion transport / intracellular zinc ion homeostasis / cellular detoxification / protein folding chaperone complex / superoxide metabolic process / superoxide dismutase / superoxide dismutase activity / intracellular copper ion homeostasis / removal of superoxide radicals / mitochondrial intermembrane space / cellular response to oxidative stress / mitochondrial inner membrane / protein stabilization / copper ion binding / positive regulation of transcription by RNA polymerase II / mitochondrion / nucleus / cytosol / cytoplasm Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Lamb, A.L. / Torres, A.S. / O'Halloran, T.V. / Rosenzweig, A.C. | ||||||
![]() | ![]() Title: Heterodimeric structure of superoxide dismutase in complex with its metallochaperone. Authors: Lamb, A.L. / Torres, A.S. / O'Halloran, T.V. / Rosenzweig, A.C. | ||||||
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 157.5 KB | Display | ![]() |
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PDB format | ![]() | 125.9 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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4 | ![]()
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Unit cell |
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Details | the biological assembly is a heterodimer comprising one molecule of yCCS and one molecule of ySOD1 |
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Components
#1: Protein | Mass: 15752.416 Da / Num. of mol.: 2 / Mutation: H48F Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() Plasmid: pET3d / Species (production host): Escherichia coli / Production host: ![]() ![]() #2: Protein | Mass: 27361.879 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() Plasmid: pET11d / Species (production host): Escherichia coli / Production host: ![]() ![]() #3: Chemical | ChemComp-ZN / #4: Chemical | #5: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 4.24 Å3/Da / Density % sol: 70.97 % | ||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Crystal grow | Temperature: 298 K / Method: vapor diffusion, hanging drop / pH: 6 Details: MES, ammonium sulfate, dioxane, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 298K | ||||||||||||||||||||||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS Temperature: 25 ℃ | ||||||||||||||||||||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 113 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: MARRESEARCH / Detector: CCD / Date: Feb 8, 2001 |
Radiation | Monochromator: Si 111 CHANNEL / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 2.9→12 Å / Num. all: 119535 / Num. obs: 32933 / % possible obs: 98.8 % / Observed criterion σ(F): 2 / Observed criterion σ(I): 2 |
Reflection shell | Resolution: 2.9→3 Å / % possible all: 99.6 |
Reflection | *PLUS Lowest resolution: 12 Å / Num. measured all: 119535 / Rmerge(I) obs: 0.109 |
Reflection shell | *PLUS % possible obs: 99.6 % / Rmerge(I) obs: 0.351 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: heterodimer Resolution: 2.9→12 Å / σ(F): 0 / Stereochemistry target values: Engh & Huber
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Refinement step | Cycle: LAST / Resolution: 2.9→12 Å
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Software | *PLUS Name: CNS / Classification: refinement | ||||||||||||||||||||||||||||||
Refinement | *PLUS Highest resolution: 2.9 Å / Lowest resolution: 12 Å / σ(F): 0 / % reflection Rfree: 10 % / Rfactor Rfree: 0.26 | ||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||
Displacement parameters | *PLUS Biso mean: 27.9 Å2 | ||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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