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- PDB-8cf7: Dimethylated RSL-R5 in complex with cucurbit[7]uril, C121 sheet a... -
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Open data
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Basic information
Entry | Database: PDB / ID: 8cf7 | |||||||||
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Title | Dimethylated RSL-R5 in complex with cucurbit[7]uril, C121 sheet assembly | |||||||||
![]() | RSL-R5 | |||||||||
![]() | SUGAR BINDING PROTEIN / lectin / cucurbituril / biomaterials / supramolecular | |||||||||
Function / homology | cucurbit[7]uril![]() | |||||||||
Biological species | ![]() | |||||||||
Method | ![]() ![]() ![]() | |||||||||
![]() | Ramberg, K. / Crowley, P.B. | |||||||||
Funding support | ![]()
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![]() | ![]() Title: Cage versus sheet: Probing the Determinants of Protein - Cucurbit[7]uril Crystalline Architectures. Authors: Ramberg, K.O. / Crowley, P.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 | ![]() | 152.4 KB | Display | ![]() |
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PDB format | ![]() | 127.5 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 3.9 MB | Display | ![]() |
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Full document | ![]() | 3.9 MB | Display | |
Data in XML | ![]() | 35.2 KB | Display | |
Data in CIF | ![]() | 51.2 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 8cf6C C: citing same article ( |
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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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2 | ![]()
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Unit cell |
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Components on special symmetry positions |
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Components
#1: Protein | Mass: 9844.689 Da / Num. of mol.: 6 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() #2: Chemical | ChemComp-QQ7 / #3: Chemical | ChemComp-GOL / #4: Chemical | #5: Water | ChemComp-HOH / | Has ligand of interest | Y | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.62 Å3/Da / Density % sol: 54 % / Description: hexagonal plate |
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Crystal grow | Temperature: 293.15 K / Method: vapor diffusion / Details: 25 % PEG3350 0.1 M Bis-Tris pH 5.5 0.2 M NaCl |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS EIGER X 9M / Detector: PIXEL / Date: Jul 25, 2020 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.98 Å / Relative weight: 1 |
Reflection | Resolution: 1.14→46.74 Å / Num. obs: 212450 / % possible obs: 95.1 % / Redundancy: 4.9 % / Biso Wilson estimate: 12.02 Å2 / CC1/2: 0.99 / Rpim(I) all: 0.017 / Rrim(I) all: 0.044 / Net I/σ(I): 18.2 |
Reflection shell | Resolution: 1.14→1.16 Å / Redundancy: 33.7 % / Mean I/σ(I) obs: 2.1 / Num. unique obs: 7323 / CC1/2: 0.93 / Rpim(I) all: 0.256 / Rrim(I) all: 0.465 / % possible all: 66.3 |
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Processing
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Refinement | Method to determine structure: ![]()
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.14→46.74 Å
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Refine LS restraints |
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LS refinement shell |
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