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Open data
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Basic information
Entry | Database: PDB / ID: 6c6w | ||||||
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Title | Structure of a Complex Between Thaumatin and Thioflavin T | ||||||
![]() | Thaumatin I | ||||||
![]() | PROTEIN BINDING / SWEET TASTING PROTEIN / dye binding / amyloid staining / dimer / UNKNOWN FUNCTION | ||||||
Function / homology | ![]() | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() | ||||||
![]() | McPherson, A. | ||||||
![]() | ![]() Title: Investigation into the binding of dyes within protein crystals. Authors: McPherson, A. / Larson, S.B. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 89.6 KB | Display | ![]() |
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PDB format | ![]() | 72.4 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 687.2 KB | Display | ![]() |
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Full document | ![]() | 688.7 KB | Display | |
Data in XML | ![]() | 11.4 KB | Display | |
Data in CIF | ![]() | 15.7 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
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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: 22243.119 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) ![]() |
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#2: Chemical | ChemComp-TLA / |
#3: Chemical | ChemComp-TFX / |
#4: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.93 Å3/Da / Density % sol: 58 % / Description: tetragonal bipyramids |
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Crystal grow | Temperature: 298 K / Method: vapor diffusion, sitting drop / pH: 6.5 Details: Sitting drop composed of equal parts 40 mg/ml protein in H20 and 1.0 M sodium-potassium tartrate at pH 6.5. Crystals grew in 24 to 48 hours at room temperature PH range: 6.0 8.0 |
-Data collection
Diffraction | Mean temperature: 298 K |
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Diffraction source | Source: ![]() |
Detector | Type: RIGAKU / Detector: CCD / Date: Jun 15, 2015 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 2.2→54.56 Å / Num. obs: 12192 / % possible obs: 88.1 % / Redundancy: 9.5 % / Biso Wilson estimate: 24.6 Å2 / CC1/2: 0.999 / Rmerge(I) obs: 0.067 / Rpim(I) all: 0.021 / Rrim(I) all: 0.071 / Rsym value: 0.061 / Net I/av σ(I): 23.1 / Net I/σ(I): 23.1 |
Reflection shell | Resolution: 2.2→2.29 Å / Redundancy: 1.3 % / Rmerge(I) obs: 0.187 / Mean I/σ(I) obs: 2.9 / Num. unique obs: 247 / CC1/2: 0.887 / Rpim(I) all: 0.159 / Rrim(I) all: 0.247 / Rsym value: 0.18 / % possible all: 20.4 |
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Processing
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Refinement | Method to determine structure: ![]()
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.2 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 30.041 Å2
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Refinement step | Cycle: 1 / Resolution: 2.23→54.56 Å
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Refine LS restraints |
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