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- PDB-7qut: serial synchrotron crystallographic structure of Drosophila Melan... -
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Open data
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Basic information
Entry | Database: PDB / ID: 7qut | ||||||
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Title | serial synchrotron crystallographic structure of Drosophila Melanogaster (6-4) photolyase | ||||||
![]() | RE11660p | ||||||
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Function / homology | ![]() ![]() ![]() ![]() ![]() Similarity search - Function | ||||||
Biological species | ![]() ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Cellini, A. / Weixiao, Y.W. / Kumar, M.S. / Westenhoff, S. | ||||||
Funding support | European Union, 1items
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![]() | ![]() Title: Structural basis of the radical pair state in photolyases and cryptochromes. Authors: Cellini, A. / Shankar, M.K. / Wahlgren, W.Y. / Nimmrich, A. / Furrer, A. / James, D. / Wranik, M. / Aumonier, S. / Beale, E.V. / Dworkowski, F. / Standfuss, J. / Weinert, T. / Westenhoff, S. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 123.2 KB | Display | ![]() |
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PDB format | ![]() | 91.1 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Related structure data | ![]() 7ayvS S: Starting model for refinement |
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Similar structure data | Similarity search - Function & homology ![]() |
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Links
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Assembly
Deposited unit | ![]()
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1 |
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Unit cell |
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Components
#1: Protein | Mass: 58847.684 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() ![]() ![]() |
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#2: Chemical | ChemComp-FAD / ![]() |
#3: Chemical | ChemComp-GOL / ![]() |
#4: Water | ChemComp-HOH / ![]() |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.41 Å3/Da / Density % sol: 48.88 % |
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Crystal grow![]() | Temperature: 277.15 K / Method: batch mode / pH: 6.5 Details: 100 mM bis-tris pH=6.5, 200 mM lithium sulphate monohydrate, 22 % PEG 3350, 0.5 % Ethyl acetate |
-Data collection
Diffraction | Mean temperature: 293.15 K / Ambient temp details: room temperature / Serial crystal experiment: Y |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS EIGER X 16M / Detector: PIXEL / Date: Apr 11, 2021 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength![]() |
Reflection | Resolution: 2.24→19.3 Å / Num. obs: 26853 / % possible obs: 100 % / Redundancy: 1948 % / Biso Wilson estimate: 50.38 Å2 / CC1/2: 0.99 / Net I/σ(I): 8.58 |
Reflection shell | Resolution: 2.24→2.26 Å / Num. unique obs: 1077 / CC1/2: 0.2 |
Serial crystallography sample delivery | Method: injection |
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Processing
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Refinement | Method to determine structure![]() ![]() Starting model: 7AYV Resolution: 2.24→19.3 Å / SU ML: 0.344 / Cross valid method: FREE R-VALUE / σ(F): 1.34 / Phase error: 25.3909 Stereochemistry target values: GeoStd + Monomer Library + CDL v1.2
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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: 59.74 Å2 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.24→19.3 Å
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Refine LS restraints |
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LS refinement shell |
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