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Open data
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Basic information
Entry | Database: PDB / ID: 6j74 | ||||||||||||
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Title | Complex of GGTaseIII and full-length Ykt6 | ||||||||||||
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![]() | LIPID BINDING PROTEIN / lipid transferase | ||||||||||||
Function / homology | ![]() protein prenyltransferase activity / ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() Similarity search - Function | ||||||||||||
Biological species | ![]() ![]() | ||||||||||||
Method | ![]() ![]() ![]() | ||||||||||||
![]() | Goto-Ito, S. / Yamagata, A. / Sato, Y. / Fukai, S. | ||||||||||||
Funding support | ![]()
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![]() | ![]() Title: Complex of GGTaseIII and full-length Ykt6 Authors: Goto-Ito, S. / Shirakawa, R. / Fukai, S. | ||||||||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 172.8 KB | Display | ![]() |
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PDB format | ![]() | 134.3 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
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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
#1: Protein | Mass: 37986.520 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() ![]() | ||
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#2: Protein | Mass: 37371.723 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() ![]() References: UniProt: P53611, ![]() | ||
#3: Protein | Mass: 22446.580 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() ![]() References: UniProt: O15498, ![]() | ||
#4: Chemical | ![]() #5: Chemical | ChemComp-ZN / | |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3.86 Å3/Da / Density % sol: 68.15 % |
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Crystal grow![]() | Temperature: 293 K / Method: vapor diffusion, sitting drop / Details: 1.18M K2HPO4, 0.82M NaH2PO4 |
-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: Jul 15, 2017 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength![]() |
Reflection | Resolution: 3.21→50 Å / Num. obs: 25733 / % possible obs: 99.7 % / Redundancy: 6 % / Rsym value: 0.144 / Net I/σ(I): 15.5 |
Reflection shell | Resolution: 3.21→3.27 Å / Num. unique obs: 1240 / Rsym value: 0.49 |
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Processing
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Refinement | Method to determine structure![]() ![]() Starting model: 6J6X and 3BW6 Resolution: 3.212→48.54 Å / SU ML: 0.49 / Cross valid method: FREE R-VALUE / σ(F): 1.47 / Phase error: 26.93
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 3.212→48.54 Å
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Refine LS restraints |
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LS refinement shell |
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