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Open data
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Basic information
Entry | Database: PDB / ID: 8ivi | ||||||
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Title | crystal structure of a medium-long chain fatty acyl-CoA ligase | ||||||
![]() | Medium/long-chain-fatty-acid--CoA ligase FadD8 | ||||||
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Function / homology | ![]() medium-chain acyl-CoA ligase / ![]() ![]() ![]() ![]() Similarity search - Function | ||||||
Biological species | ![]() ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Li, S. | ||||||
Funding support | ![]()
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![]() | ![]() Title: Structural study of medium-long chain fatty acyl-CoA ligase FadD8 from Mycobacterium tuberculosis. Authors: Li, S. / Qu, 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 | ![]() | 170.1 KB | Display | ![]() |
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PDB format | ![]() | 130.8 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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Unit cell |
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Components
#1: Protein | Mass: 63304.055 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() Gene: fadD8, Rv0551c / Plasmid: pET28a / Production host: ![]() ![]() ![]() References: UniProt: O06417, medium-chain acyl-CoA ligase, ![]() |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 1.86 Å3/Da / Density % sol: 33.9 % |
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Crystal grow![]() | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 7.5 / Details: 0.1 M HEPES pH 7.5, 20% PEG 8000 |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS EIGER X 16M / Detector: PIXEL / Date: May 23, 2020 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength![]() |
Reflection | Resolution: 2.29→66.24 Å / Num. obs: 81612 / % possible obs: 99.8 % / Redundancy: 6.5 % / Rmerge(I) obs: 0.039 / Net I/σ(I): 20.6 |
Reflection shell | Resolution: 2.29→2.35 Å / Rmerge(I) obs: 0.825 / Num. unique obs: 3149 |
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Processing
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Refinement | Method to determine structure![]() ![]()
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.29→52.5 Å
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Refine LS restraints |
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LS refinement shell |
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