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Open data
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Basic information
Entry | Database: PDB / ID: 3re7 | ||||||
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Title | Copper (II) loaded Bullfrog Ferritin M chain | ||||||
![]() | Ferritin, middle subunit | ||||||
![]() | OXIDOREDUCTASE / four-helix bundle / iron storage | ||||||
Function / homology | ![]() ferroxidase / intracellular sequestering of iron ion / ferroxidase activity / ferric iron binding / ferrous iron binding / iron ion transport / cytoplasm Similarity search - Function | ||||||
Biological species | Rana catesbeiana (American bullfrog) | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Bertini, I. / Lalli, D. / Mangani, S. / Pozzi, C. / Rosa, C. / Turano, P. | ||||||
![]() | ![]() Title: Structural insights into the ferroxidase site of ferritins from higher eukaryotes. Authors: Bertini, I. / Lalli, D. / Mangani, S. / Pozzi, C. / Rosa, C. / Theil, E.C. / Turano, P. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 838.9 KB | Display | ![]() |
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PDB format | ![]() | 701.7 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 590 KB | Display | ![]() |
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Full document | ![]() | 666.6 KB | Display | |
Data in XML | ![]() | 148.7 KB | Display | |
Data in CIF | ![]() | 203.2 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 3rbcC ![]() 3rgdC ![]() 4dasC ![]() 1mfrS 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: 20623.182 Da / Num. of mol.: 24 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Rana catesbeiana (American bullfrog) / Production host: ![]() ![]() #2: Chemical | ChemComp-CU / #3: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 4.16 Å3/Da / Density % sol: 70.43 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, sitting drop / pH: 7.5 Details: 7 mg/mL apo-ferritin solution in TrisHCl at pH 7.5 with 2.5M Na formate, VAPOR DIFFUSION, SITTING DROP, temperature 293K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: PSI PILATUS 6M / Detector: PIXEL / Date: Dec 10, 2010 |
Radiation | Monochromator: Si 111 channel / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.378 Å / Relative weight: 1 |
Reflection | Resolution: 2.82→48.5 Å / Num. all: 197992 / Num. obs: 197992 / % possible obs: 100 % / Observed criterion σ(I): 1 / Redundancy: 5.7 % / Biso Wilson estimate: 56.05 Å2 / Rsym value: 0.138 / Net I/σ(I): 7.8 |
Reflection shell | Resolution: 2.82→2.97 Å / Redundancy: 5.6 % / Mean I/σ(I) obs: 3.4 / Num. unique all: 28648 / Rsym value: 0.363 / % possible all: 99.9 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: PDB ENTRY 1MFR Resolution: 2.82→48.5 Å / σ(F): 0 / Stereochemistry target values: Engh & Huber
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Displacement parameters | Biso mean: 35.955 Å2 | |||||||||||||||||||||||||
Refine analyze | Luzzati coordinate error free: 0.277 Å / Luzzati sigma a free: 0.2 Å | |||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.82→48.5 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.82→2.893 Å
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