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- PDB-7p2j: Dimethylated fusion protein of RSL and trimeric coiled coil (4dzn... -
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Open data
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Basic information
Entry | Database: PDB / ID: 7p2j | |||||||||
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Title | Dimethylated fusion protein of RSL and trimeric coiled coil (4dzn) in complex with cucurbit[7]uril, H3 sheet assembly | |||||||||
![]() | Fucose-binding lectin protein | |||||||||
![]() | SUGAR BINDING PROTEIN / biomaterials / coiled coil / crystal engineering / IDP / macrocycle | |||||||||
Function / homology | Fucose-specific lectin / Fungal fucose-specific lectin / carbohydrate binding / metal ion binding / beta-D-mannopyranose / cucurbit[7]uril / Fucose-binding lectin protein![]() | |||||||||
Biological species | ![]() | |||||||||
Method | ![]() ![]() ![]() | |||||||||
![]() | Ramberg, K. / Engilberge, S. / Crowley, P.B. | |||||||||
Funding support | ![]()
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![]() | ![]() Title: Segregated Protein-Cucurbit[7]uril Crystalline Architectures via Modulatory Peptide Tectons. Authors: Ramberg, K.O. / Guagnini, F. / Engilberge, S. / Wronska, M.A. / Rennie, M.L. / Perez, J. / 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 | ![]() | 72 KB | Display | ![]() |
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PDB format | ![]() | 51.9 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Related structure data | ![]() 6s99C ![]() 7p2hC ![]() 7p2iC ![]() 2bt9S C: citing same article ( S: Starting model for refinement |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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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: 12346.774 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() Gene: E7Z57_08365, HXP36_18875, RSP795_21825, RSP822_19650, RUN39_v1_50103 Production host: ![]() ![]() #2: Chemical | #3: Sugar | ChemComp-BMA / #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: 2.23 Å3/Da / Density % sol: 58 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop Details: 20 % PEG 8000 0.1 M Tris-HCl pH 8.5 0.2 M MgCl2 2 mM Q7 |
-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: Sep 20, 2019 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.98 Å / Relative weight: 1 |
Reflection | Resolution: 1.98→107.54 Å / Num. obs: 22317 / % possible obs: 100 % / Redundancy: 8.6 % / Biso Wilson estimate: 31.68 Å2 / CC1/2: 0.99 / Rpim(I) all: 0.055 / Rrim(I) all: 0.17 / Net I/σ(I): 6.8 |
Reflection shell | Resolution: 1.98→2.01 Å / Redundancy: 7.3 % / Mean I/σ(I) obs: 2.1 / Num. unique obs: 1086 / CC1/2: 0.85 / Rpim(I) all: 0.334 / Rrim(I) all: 0.916 / % possible all: 100 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 2BT9 Resolution: 1.98→107.54 Å / SU ML: 0.27 / Cross valid method: THROUGHOUT / σ(F): 2.03 / Phase error: 33.14 / Stereochemistry target values: ML
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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 max: 108.79 Å2 / Biso mean: 43.125 Å2 / Biso min: 24.62 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: final / Resolution: 1.98→107.54 Å
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LS refinement shell | Refine-ID: X-RAY DIFFRACTION / Rfactor Rfree error: 0 / Total num. of bins used: 8 / % reflection obs: 100 %
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