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- PDB-2oax: Crystal structure of the S810L mutant mineralocorticoid receptor ... -
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Open data
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Basic information
Entry | Database: PDB / ID: 2oax | ||||||
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Title | Crystal structure of the S810L mutant mineralocorticoid receptor associated with SC9420 | ||||||
![]() | Mineralocorticoid receptor | ||||||
![]() | TRANSCRIPTION / ALDOSTERONE / STEROID RECEPTOR / NUCLEAR RECEPTOR / TRANSCRIPTION FACTOR / ACTIVATING MUTATION / HYPERTENSION / ANTAGONIST / SPIRONOLACTONE | ||||||
Function / homology | ![]() nuclear steroid receptor activity / estrogen response element binding / nuclear receptor-mediated steroid hormone signaling pathway / HSP90 chaperone cycle for steroid hormone receptors (SHR) in the presence of ligand / TBP-class protein binding / steroid binding / SUMOylation of intracellular receptors / Nuclear Receptor transcription pathway / positive regulation of non-canonical NF-kappaB signal transduction / nuclear receptor activity ...nuclear steroid receptor activity / estrogen response element binding / nuclear receptor-mediated steroid hormone signaling pathway / HSP90 chaperone cycle for steroid hormone receptors (SHR) in the presence of ligand / TBP-class protein binding / steroid binding / SUMOylation of intracellular receptors / Nuclear Receptor transcription pathway / positive regulation of non-canonical NF-kappaB signal transduction / nuclear receptor activity / sequence-specific double-stranded DNA binding / receptor complex / DNA-binding transcription factor activity, RNA polymerase II-specific / DNA-binding transcription factor activity / chromatin / endoplasmic reticulum membrane / regulation of transcription by RNA polymerase II / signal transduction / zinc ion binding / nucleoplasm / cytosol Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Huyet, J. / Pinon, G.M. / Fay, M.R. / Rafestin-Oblin, M.E. / Fagart, J. | ||||||
![]() | ![]() Title: Structural basis of spirolactone recognition by the mineralocorticoid receptor Authors: Huyet, J. / Pinon, G.M. / Fay, M.R. / Fagart, J. / Rafestin-Oblin, M.E. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 299.4 KB | Display | ![]() |
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PDB format | ![]() | 244.7 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 2.4 MB | Display | ![]() |
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Full document | ![]() | 2.5 MB | Display | |
Data in XML | ![]() | 62 KB | Display | |
Data in CIF | ![]() | 80.6 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 1y9rS S: Starting model for refinement |
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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: 29701.410 Da / Num. of mol.: 6 / Fragment: LIGAND-BINDING DOMAIN / Mutation: S810L,C910A Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() #2: Chemical | ChemComp-SNL / #3: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.22 Å3/Da / Density % sol: 44.59 % |
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Crystal grow | Temperature: 297 K / Method: vapor diffusion, hanging drop / pH: 6.8 Details: HEPES 100 mM, pH 6.8, 230 mM NaCl, 25% PEG4000, VAPOR DIFFUSION, HANGING DROP, temperature 297K |
-Data collection
Diffraction | Mean temperature: 81 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: MARRESEARCH / Detector: CCD / Date: Feb 5, 2005 / Details: MIRRORS |
Radiation | Monochromator: SAGITALLY FOCUSED SI(111) / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.979707 Å / Relative weight: 1 |
Reflection | Resolution: 2.29→14.92 Å / Num. all: 69379 / Num. obs: 63172 / % possible obs: 91.1 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 / Redundancy: 6.18 % / Biso Wilson estimate: 34.9 Å2 / Rmerge(I) obs: 0.121 / Rsym value: 0.119 / Net I/σ(I): 13 |
Reflection shell | Resolution: 2.29→2.43 Å / Redundancy: 5.65 % / Rmerge(I) obs: 0.623 / Mean I/σ(I) obs: 2.66 / Num. unique all: 10661 / Rsym value: 0.945 / % possible all: 94.8 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: monomere A from PDB 1Y9R Resolution: 2.29→14.92 Å / Rfactor Rfree error: 0.005 / Data cutoff high absF: 258409.01 / Data cutoff low absF: 0 / Isotropic thermal model: RESTRAINED / Cross valid method: THROUGHOUT / σ(F): 0
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Solvent computation | Solvent model: FLAT MODEL / Bsol: 40.4877 Å2 / ksol: 0.331702 e/Å3 | ||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 44.1 Å2
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 2.29→14.92 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.29→2.43 Å / Rfactor Rfree error: 0.015 / Total num. of bins used: 6
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Xplor file |
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