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Open data
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Basic information
Entry | Database: PDB / ID: 7o0b | ||||||
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Title | TRIM3 Filamin domain | ||||||
![]() | Tripartite motif-containing protein 3 | ||||||
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Function / homology | ![]() positive regulation of toll-like receptor 3 signaling pathway / protein K63-linked ubiquitination / translation repressor activity / RING-type E3 ubiquitin transferase / protein polyubiquitination / Interferon gamma signaling / ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Williams, F.P. / Yikilmazsoy, A. / Hennig, J. | ||||||
Funding support | ![]()
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![]() | ![]() Title: TRIM3 Filamin domain Authors: Williams, F.P. / Yikilmazsoy, A. / Hennig, J. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 40.5 KB | Display | ![]() |
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PDB format | ![]() | 21.7 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Related structure data | ![]() 4umgS S: Starting model for refinement |
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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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Unit cell |
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Components on special symmetry positions |
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Components
#1: Protein | Mass: 11312.827 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() ![]() |
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#2: Water | ChemComp-HOH / ![]() |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.17 Å3/Da / Density % sol: 43.31 % |
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Crystal grow![]() | Temperature: 277 K / Method: vapor diffusion, sitting drop / pH: 6.5 / Details: 0.1M Na Cacodylate pH6.5, 1M Na citrate |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS PILATUS 6M / Detector: PIXEL / Date: Dec 8, 2018 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength![]() |
Reflection | Resolution: 2.13→28 Å / Num. obs: 5379 / % possible obs: 96.67 % / Redundancy: 3 % / Biso Wilson estimate: 24.5 Å2 / CC1/2: 0.966 / CC star: 0.991 / Rmerge(I) obs: 0.2174 / Rpim(I) all: 0.1495 / Rrim(I) all: 0.265 / Net I/σ(I): 3.82 |
Reflection shell | Resolution: 2.13→2.21 Å / Redundancy: 2.7 % / Rmerge(I) obs: 0.9505 / Mean I/σ(I) obs: 1.15 / Num. unique obs: 428 / CC1/2: 0.482 / CC star: 0.806 / Rpim(I) all: 0.6867 / Rrim(I) all: 1.178 / % possible all: 77.72 |
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Processing
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Refinement | Method to determine structure![]() ![]() Starting model: 4UMG Resolution: 2.13→28 Å / SU ML: 0.3265 / Cross valid method: FREE R-VALUE / σ(F): 1.34 / Phase error: 20.8311 Stereochemistry target values: GeoStd + Monomer Library + CDL v1.2
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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 mean: 28.55 Å2 | ||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.13→28 Å
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Refine LS restraints |
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LS refinement shell |
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