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- PDB-4m2q: Crystal structure of non-myristoylated recoverin with Cysteine-39... -
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Open data
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Basic information
Entry | Database: PDB / ID: 4m2q | ||||||
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Title | Crystal structure of non-myristoylated recoverin with Cysteine-39 oxidized to sulfenic acid | ||||||
![]() | Recoverin | ||||||
![]() | METAL BINDING PROTEIN / Calcium binding protein / EF hand / Neuronal Calcium Sensing (NCS) family protein / Inhibits rhodopsin kinase / Rhodopsin kinase / Retina | ||||||
Function / homology | ![]() Inactivation, recovery and regulation of the phototransduction cascade / regulation of calcium ion transport / phototransduction / photoreceptor outer segment / visual perception / photoreceptor inner segment / perikaryon / calcium ion binding / membrane / cytosol Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() ![]() | ||||||
![]() | Prem Kumar, R. / Chakrabarti, K. / Kern, D. / Oprian, D.D. | ||||||
![]() | ![]() Title: A Highly Conserved Cysteine of Neuronal Calcium-sensing Proteins Controls Cooperative Binding of Ca2+ to Recoverin. Authors: Ranaghan, M.J. / Kumar, R.P. / Chakrabarti, K.S. / Buosi, V. / Kern, D. / Oprian, D.D. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 59.9 KB | Display | ![]() |
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PDB format | ![]() | 43.1 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 428.3 KB | Display | ![]() |
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Full document | ![]() | 433.1 KB | Display | |
Data in XML | ![]() | 11 KB | Display | |
Data in CIF | ![]() | 14.8 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 4m2oC ![]() 4m2pC ![]() 4mlwC ![]() 1omrS 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: 23251.209 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() |
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#2: Chemical | ChemComp-CA / |
#3: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.29 Å3/Da / Density % sol: 46.31 % |
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Crystal grow | Temperature: 296 K / Method: vapor diffusion, hanging drop / pH: 7 Details: 1.8 M Ammonium citrate, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 296K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC QUANTUM 315r / Detector: CCD / Date: Aug 5, 2012 / Details: Mirrors |
Radiation | Monochromator: Double crystal Si(111) / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 1.9→42 Å / Num. all: 16678 / Num. obs: 16678 / % possible obs: 100 % / Observed criterion σ(F): 2 / Observed criterion σ(I): 2 / Redundancy: 9.4 % / Biso Wilson estimate: 28.3 Å2 / Rmerge(I) obs: 0.085 / Net I/σ(I): 13.5 |
Reflection shell | Resolution: 1.9→2 Å / Rmerge(I) obs: 0.458 / Mean I/σ(I) obs: 3.7 / % possible all: 100 |
-Phasing
Phasing | Method: ![]() |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: pdb entry 1OMR Resolution: 1.9→42 Å / Occupancy max: 1 / Occupancy min: 0.38 / SU ML: 0.19 / σ(F): 1.33 / Phase error: 23.88 / 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 | |||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 32.8663 Å2 | |||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.9→42 Å
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Refine LS restraints |
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LS refinement shell |
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