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- PDB-6qq8: Cryogenic temperature structure of the fluorescent protein Cerule... -
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Open data
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Basic information
Entry | Database: PDB / ID: 6qq8 | ||||||
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Title | Cryogenic temperature structure of the fluorescent protein Cerulean recorded after an accumulated dose of 290 kGy | ||||||
![]() | Green fluorescent protein | ||||||
![]() | FLUORESCENT PROTEIN / tryptophan-based chromophore / Cerulean / hydrogen atoms | ||||||
Function / homology | Green fluorescent protein, GFP / Green fluorescent protein-related / Green fluorescent protein / Green fluorescent protein / bioluminescence / generation of precursor metabolites and energy / Green fluorescent protein![]() | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Gotthard, G. / Aumonier, S. / Royant, A. | ||||||
![]() | ![]() Title: Specific radiation damage is a lesser concern at room temperature. Authors: Gotthard, G. / Aumonier, S. / De Sanctis, D. / Leonard, G. / von Stetten, D. / Royant, 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 | ![]() | 68.9 KB | Display | ![]() |
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PDB format | ![]() | 49.4 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 425.8 KB | Display | ![]() |
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Full document | ![]() | 426.9 KB | Display | |
Data in XML | ![]() | 14 KB | Display | |
Data in CIF | ![]() | 21 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 6qq9C ![]() 6qqaC ![]() 6qqbC ![]() 6qqcC ![]() 6qqdC ![]() 6qqeC ![]() 6qqfC ![]() 6qqhC ![]() 6qqiC ![]() 6qqjC ![]() 6qqkC ![]() 6qsaC ![]() 2wsoS 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: 26789.236 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() |
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#2: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.1 Å3/Da / Density % sol: 41.55 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 7 / Details: 100mM HEPES pH 7.0, 12% PEG8000, 100mM MgCl2 |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS PILATUS3 6M / Detector: PIXEL / Date: Dec 1, 2014 |
Radiation | Monochromator: Si(311) / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.976 Å / Relative weight: 1 |
Reflection | Resolution: 1.46→46.82 Å / Num. obs: 39910 / % possible obs: 99.9 % / Redundancy: 7.1 % / Biso Wilson estimate: 28.345 Å2 / CC1/2: 0.999 / Net I/σ(I): 24.07 |
Reflection shell | Resolution: 1.46→1.5 Å / Redundancy: 7.3 % / Mean I/σ(I) obs: 1.56 / Num. unique obs: 2939 / CC1/2: 0.724 / % possible all: 99.9 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 2WSO Resolution: 1.46→46.81 Å / Cor.coef. Fo:Fc: 0.977 / Cor.coef. Fo:Fc free: 0.969 / SU B: 1.355 / SU ML: 0.049 / Cross valid method: THROUGHOUT / ESU R: 0.067 / ESU R Free: 0.07 / Stereochemistry target values: MAXIMUM LIKELIHOOD / Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.2 Å / Solvent model: MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 27.035 Å2
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Refinement step | Cycle: 1 / Resolution: 1.46→46.81 Å
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Refine LS restraints |
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