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Open data
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Basic information
Entry | Database: PDB / ID: 8jtn | ||||||
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Title | Tudor domain of TDRD3 in complex with a small molecule | ||||||
![]() | Tudor domain-containing protein 3 | ||||||
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Function / homology | ![]() DNA topoisomerase III-beta-TDRD3 complex / DNA topological change / methylated histone binding / chromatin organization / ![]() ![]() ![]() ![]() ![]() ![]() ![]() Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Chen, M. / Wang, Z. / Li, W. / Shang, X. / Liu, Y. | ||||||
Funding support | ![]()
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![]() | ![]() Title: Crystal structure of Tudor domain of TDRD3 in complex with a small molecule antagonist. Authors: Chen, M. / Wang, Z. / Li, W. / Chen, Y. / Xiao, Q. / Shang, X. / Huang, X. / Wei, Z. / Ji, X. / Liu, Y. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 27.8 KB | Display | ![]() |
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PDB format | ![]() | 16 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
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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Unit cell |
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Components on special symmetry positions |
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Components
#1: Protein | Mass: 6740.624 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() ![]() | ||||
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#2: Chemical | #3: Water | ChemComp-HOH / | ![]() Has ligand of interest | Y | |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.14 Å3/Da / Density % sol: 42.63 % |
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Crystal grow![]() | Temperature: 291 K / Method: vapor diffusion / Details: 1.2 M sodium citrate, 0.1 M Tris-HCl, pH 8.5 |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: RAYONIX MX-300 / Detector: CCD / Date: May 28, 2015 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength![]() |
Reflection | Resolution: 1.8→39.96 Å / Num. obs: 5267 / % possible obs: 96.9 % / Redundancy: 1.8 % / CC1/2: 0.993 / Net I/σ(I): 7.9 |
Reflection shell | Resolution: 1.8→1.84 Å / Num. unique obs: 275 / CC1/2: 0.802 |
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Processing
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Refinement | Method to determine structure![]() ![]()
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Refinement step | Cycle: LAST / Resolution: 1.8→39.96 Å
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