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Open data
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Basic information
Entry | Database: PDB / ID: 6lu5 | ||||||
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Title | Crystal structure of BPTF-BRD with ligand DCBPin5 bound | ||||||
![]() | Nucleosome-remodeling factor subunit BPTF | ||||||
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Function / homology | ![]() ![]() ![]() Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Lu, T. / Lu, H.B. / Wang, J. / Lin, H. / Lu, W. / Luo, C. | ||||||
![]() | ![]() Title: Discovery and Optimization of Small-Molecule Inhibitors for the BPTF Bromodomains Proteins Authors: Lu, T. / Lu, H.B. / Wang, J. / Han, J. / Xiao, S. / Jiang, H. / Chen, Y. / Yang, F. / Li, Q. / Jiang, H.L. / Chen, K.X. / Lu, W.C. / Lin, H. / Luo, C. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 47.9 KB | Display | ![]() |
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PDB format | ![]() | 26.3 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Related structure data | ![]() 6lu6C ![]() 7f5cC ![]() 7f5dC ![]() 7f5eC ![]() 3qztS S: Starting model for refinement C: citing same article ( |
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Similar structure data |
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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: 12861.676 Da / Num. of mol.: 1 / Fragment: Bromodomain PHD Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() ![]() |
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#2: Chemical | ChemComp-EUO / |
#3: Water | ChemComp-HOH / ![]() |
Has ligand of interest | Y |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.16 Å3/Da / Density % sol: 43.03 % |
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Crystal grow![]() | Temperature: 289 K / Method: vapor diffusion, sitting drop / pH: 8.5 Details: 0.2 M Lithium sulfate monohydrate, 0.1 M Tris pH 8.5, 25% PEG 3350 |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS PILATUS3 S 6M / Detector: PIXEL / Date: Dec 16, 2019 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength![]() |
Reflection | Resolution: 1.865→32.44 Å / Num. obs: 9222 / % possible obs: 94.86 % / Redundancy: 6.2 % / Biso Wilson estimate: 13.1143879973 Å2 / CC1/2: 1 / Rmerge(I) obs: 0.069 / Rpim(I) all: 0.03 / Rrim(I) all: 0.076 / Rsym value: 0.069 / Net I/σ(I): 9.7 |
Reflection shell | Resolution: 1.865→1.932 Å / Rmerge(I) obs: 0.235 / Num. unique obs: 715 / CC1/2: 0.969 / CC star: 0.992 / Rpim(I) all: 0.109 / Rrim(I) all: 0.26 / Rsym value: 0.235 |
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Processing
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Refinement | Method to determine structure![]() ![]() Starting model: 3QZT Resolution: 1.86527732574→32.4390256796 Å / SU ML: 0.244369917274 / Cross valid method: NONE / σ(F): 1.37572142191 / Phase error: 28.0082464013
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å | ||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 15.0386335406 Å2 | ||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.86527732574→32.4390256796 Å
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Refine LS restraints |
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LS refinement shell |
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