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- PDB-4p1o: Crystal structure of the Bateman domain of murine magnesium trans... -
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Open data
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Basic information
Entry | Database: PDB / ID: 4p1o | ||||||
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Title | Crystal structure of the Bateman domain of murine magnesium transporter CNNM2 bound to ATP-Mg | ||||||
![]() | Metal transporter CNNM2 | ||||||
![]() | TRANSPORT PROTEIN / magnesium homeostasis / transport / hypomagnesemia / rare diseases / ACDP / Cyclin M | ||||||
Function / homology | ![]() magnesium ion transport / magnesium ion homeostasis / magnesium ion transmembrane transporter activity / basolateral plasma membrane / ATP binding / plasma membrane Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() | ||||||
![]() | Corral-Rodriguez, M.A. / Stuiver, M. / Abascal-Palacios, G. / Diercks, T. / Oyenarte, I. / Ereno-Orbea, J. / Encinar, J.A. / Spiwok, V. / Terashima, H. / Accardi, A. ...Corral-Rodriguez, M.A. / Stuiver, M. / Abascal-Palacios, G. / Diercks, T. / Oyenarte, I. / Ereno-Orbea, J. / Encinar, J.A. / Spiwok, V. / Terashima, H. / Accardi, A. / Muller, D. / Martinez-Cruz, L.A. | ||||||
![]() | ![]() Title: Structural and ligand binding properties of the Bateman domain of human magnesium transporters CNNM2 and CNNM4 Authors: Corral-Rodriguez, M.A. / Stuiver, M. / Abascal-Palacios, G. / Diercks, T. / Oyenarte, I. / Ereno-Orbea, J. / Encinar, J.A. / Spiwok, V. / Terashima, H. / Accardi, A. / Muller, D. / Martinez-Cruz, L.A. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 138.8 KB | Display | ![]() |
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PDB format | ![]() | 110.4 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 1.1 MB | Display | ![]() |
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Full document | ![]() | 1.1 MB | Display | |
Data in XML | ![]() | 13.5 KB | Display | |
Data in CIF | ![]() | 16.6 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 4iy0C ![]() 4iy2C ![]() 4iy4C ![]() 4iysC ![]() 4p1gC ![]() 4p1f ![]() 4p1p 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: 17395.861 Da / Num. of mol.: 2 / Fragment: UNP residues 430-580 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() #2: Chemical | #3: Chemical | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3.93 Å3/Da / Density % sol: 68.71 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop Details: 0.1M Sodium Acetate, 3.5M Ammonium Acetate, 5mM Magnesium chloride, 10mM ATP |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() |
Detector | Type: MAR scanner 345 mm plate / Detector: IMAGE PLATE / Date: Dec 11, 2013 |
Radiation | Protocol: SINGLE WAVELENGTH / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.54179 Å / Relative weight: 1 |
Reflection | Resolution: 3.06→33.08 Å / Num. obs: 10982 / % possible obs: 96.04 % / Redundancy: 3.8 % / Biso Wilson estimate: 65.79 Å2 / Net I/σ(I): 12.43 |
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Processing
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Refinement | Method to determine structure: ![]()
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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: 189.76 Å2 / Biso mean: 73.71 Å2 / Biso min: 38.54 Å2 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: final / Resolution: 3.06→33.08 Å
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Refine LS restraints |
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LS refinement shell | Refine-ID: X-RAY DIFFRACTION / Total num. of bins used: 8
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Refinement TLS params. | Method: refined / Origin x: 111.0417 Å / Origin y: 45.0052 Å / Origin z: -0.2612 Å
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Refinement TLS group |
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