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- PDB-7o44: Structure of thaumatin determined at SwissFEL using native-SAD at... -
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Basic information
Entry | Database: PDB / ID: 7o44 | ||||||
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Title | Structure of thaumatin determined at SwissFEL using native-SAD at 5.99 keV with photon energy bandwidth of 0.26% | ||||||
![]() | Thaumatin-1 | ||||||
![]() | PLANT PROTEIN / thaumatin / SwissFEL / native-SAD / SASE / bandwidth | ||||||
Function / homology | ![]() | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Nass, K. | ||||||
![]() | ![]() Title: Structure of thaumatin determined at SwissFEL using native-SAD at 5.99 keV with photon energy bandwidth of 0.26% Authors: Nass, K. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 67.6 KB | Display | ![]() |
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PDB format | ![]() | 39.3 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 424.8 KB | Display | ![]() |
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Full document | ![]() | 424.8 KB | Display | |
Data in XML | ![]() | 11 KB | Display | |
Data in CIF | ![]() | 15.4 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Similar structure data | Similarity search - Function & homology ![]() |
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Experimental dataset #1 | Data reference: ![]() |
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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: 22227.059 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() |
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#2: Chemical | ChemComp-TLA / |
#3: Water | ChemComp-HOH / |
Has ligand of interest | N |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.89 Å3/Da / Density % sol: 58 % |
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Crystal grow | Temperature: 293 K / Method: batch mode / pH: 7 Details: 1.6 M potassium sodium tartrate tetrahydrate, 100 mM Na-HEPES |
-Data collection
Diffraction | Mean temperature: 297 K / Serial crystal experiment: Y |
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Diffraction source | Source: ![]() ![]() |
Detector | Type: PSI JUNGFRAU 16M / Detector: PIXEL / Date: May 1, 2019 / Frequency: 25 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 2.069 Å / Relative weight: 1 |
Reflection | Resolution: 2→24.73 Å / Num. obs: 18561 / % possible obs: 100 % / Redundancy: 200 % / Biso Wilson estimate: 21.2 Å2 / CC1/2: 0.993 / CC star: 0.998 / R split: 0.051 / Net I/σ(I): 15.09 |
Reflection shell | Resolution: 2→2.05 Å / Redundancy: 11 % / Mean I/σ(I) obs: 4.42 / Num. unique obs: 2257 / CC1/2: 0.869 / CC star: 0.964 / R split: 0.273 / % possible all: 100 |
Serial crystallography sample delivery | Method: injection |
Serial crystallography sample delivery injection | Description: LCP injector |
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Processing
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Refinement | Method to determine structure: ![]() 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: 24.46 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2→24.73 Å
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Refine LS restraints |
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LS refinement shell |
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