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Open data
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Basic information
Entry | Database: PDB / ID: 3uom | ||||||
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Title | Ca2+ complex of Human skeletal calsequestrin | ||||||
![]() | Calsequestrin-1 | ||||||
![]() | calcium-binding protein / Thioredoxin-like fold / Calcium binding / Sarcoplasmic Reticulum | ||||||
Function / homology | ![]() terminal cisterna lumen / positive regulation of store-operated calcium channel activity / regulation of skeletal muscle contraction by regulation of release of sequestered calcium ion / regulation of store-operated calcium entry / response to denervation involved in regulation of muscle adaptation / sarcoplasmic reticulum lumen / endoplasmic reticulum organization / sarcomere organization / protein polymerization / smooth endoplasmic reticulum ...terminal cisterna lumen / positive regulation of store-operated calcium channel activity / regulation of skeletal muscle contraction by regulation of release of sequestered calcium ion / regulation of store-operated calcium entry / response to denervation involved in regulation of muscle adaptation / sarcoplasmic reticulum lumen / endoplasmic reticulum organization / sarcomere organization / protein polymerization / smooth endoplasmic reticulum / skeletal muscle tissue development / Ion homeostasis / T-tubule / sarcoplasmic reticulum membrane / : / positive regulation of release of sequestered calcium ion into cytosol / sarcoplasmic reticulum / Stimuli-sensing channels / Z disc / response to heat / mitochondrial matrix / calcium ion binding / endoplasmic reticulum / mitochondrion / identical protein binding Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Sanchez, E.J. / Lewis, K.M. / Danna, B.R. / Nissen, M.S. / Kang, C.H. | ||||||
![]() | ![]() Title: High-capacity Ca2+ Binding of Human Skeletal Calsequestrin. Authors: Sanchez, E.J. / Lewis, K.M. / Danna, B.R. / Kang, C. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 493.7 KB | Display | ![]() |
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PDB format | ![]() | 402.4 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 526.8 KB | Display | ![]() |
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Full document | ![]() | 567.3 KB | Display | |
Data in XML | ![]() | 94.5 KB | Display | |
Data in CIF | ![]() | 133.3 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 3trpC ![]() 1a8yS 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
#1: Protein | Mass: 41722.578 Da / Num. of mol.: 6 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() #2: Chemical | ChemComp-MRD / ( #3: Chemical | ChemComp-MPD / ( #4: Chemical | ChemComp-CA / #5: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3.33 Å3/Da / Density % sol: 63.01 % |
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Crystal grow | Temperature: 278 K / Method: vapor diffusion, hanging drop / pH: 5.5 Details: 50 mM Bis-tris propane, 50 mM CaCl2, 40% MPD, pH 5.5, VAPOR DIFFUSION, HANGING DROP, temperature 278K |
-Data collection
Diffraction source | Source: ![]() ![]() ![]() |
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Detector | Type: ADSC QUANTUM 315r / Detector: CCD |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 2.015→50 Å / Num. obs: 195624 / % possible obs: 95.8 % |
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Processing
Software | Name: PHENIX / Version: (phenix.refine: 1.6.1_357) / Classification: refinement | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Refinement | Method to determine structure: ![]() Starting model: PDB ID 1A8Y Resolution: 2.02→38.9 Å / SU ML: 0.22 / σ(F): 0.07 / Phase error: 21.42 / 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 / Bsol: 60.36 Å2 / ksol: 0.4 e/Å3 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters |
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Refinement step | Cycle: LAST / Resolution: 2.02→38.9 Å
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Refine LS restraints |
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LS refinement shell |
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