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Open data
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Basic information
Entry | Database: PDB / ID: 1wk4 | ||||||
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Title | Crystal structure of ttk003001606 | ||||||
![]() | ttk003001606 | ||||||
![]() | STRUCTURAL GENOMICS / UNKNOWN FUNCTION / ttk003001606 / RIKEN Structural Genomics/Proteomics Initiative / RSGI | ||||||
Function / homology | ![]() acyltransferase activity, transferring groups other than amino-acyl groups Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Kaminishi, T. / Sakai, H. / Terada, T. / Shirouzu, M. / Yokoyama, S. / RIKEN Structural Genomics/Proteomics Initiative (RSGI) | ||||||
![]() | ![]() Title: Crystal structure of ttk003001606 Authors: Kaminishi, T. / Sakai, H. / Terada, T. / Shirouzu, M. / Yokoyama, 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 | ![]() | 111.5 KB | Display | ![]() |
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PDB format | ![]() | 92.4 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 459.6 KB | Display | ![]() |
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Full document | ![]() | 485.8 KB | Display | |
Data in XML | ![]() | 25.7 KB | Display | |
Data in CIF | ![]() | 34.5 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Similar structure data | |
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Other databases |
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Links
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Assembly
Deposited unit | ![]()
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1 | ![]()
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2 | ![]()
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3 | ![]()
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Unit cell |
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Details | A monomer is probably the biological unit. |
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Components
#1: Protein | Mass: 19519.062 Da / Num. of mol.: 3 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() #2: Chemical | #3: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3 Å3/Da / Density % sol: 58.2 % / Description: The file contains Friedel pairs. |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 6.5 Details: MES, sodium formate, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 293.0K |
-Data collection
Diffraction source | Source: ![]() ![]() ![]() | ||||||||||||
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Detector | Detector: CCD / Date: Apr 11, 2004 | ||||||||||||
Radiation | Protocol: MAD / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | ||||||||||||
Radiation wavelength |
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Reflection | Resolution: 2.8→50 Å / Num. obs: 33433 / % possible obs: 99.9 % / Observed criterion σ(I): -3 / Redundancy: 16.8 % / Biso Wilson estimate: 73.2 Å2 / Rsym value: 0.097 / Net I/σ(I): 30.7 | ||||||||||||
Reflection shell | Resolution: 2.8→2.9 Å / Redundancy: 17.2 % / Mean I/σ(I) obs: 2.1 / Num. unique all: 1685 / Rsym value: 0.574 / % possible all: 100 |
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Processing
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Refinement | Method to determine structure: ![]()
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Solvent computation | Solvent model: FLAT MODEL / Bsol: 72.7011 Å2 / ksol: 0.369931 e/Å3 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 73.2 Å2
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 2.8→47.19 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.8→2.98 Å / Rfactor Rfree error: 0.026 / Total num. of bins used: 6
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Xplor file |
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