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- PDB-7des: Acyl-Coenzyme A Binding Protein 103 (LMJF_17_0620) of Leishmania Major -
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Open data
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Basic information
Entry | Database: PDB / ID: 7des | ||||||
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Title | Acyl-Coenzyme A Binding Protein 103 (LMJF_17_0620) of Leishmania Major | ||||||
![]() | ACB domain-containing protein | ||||||
![]() | LIPID BINDING PROTEIN / Fatty-acyl-Coa-binding protein | ||||||
Function / homology | ![]() fatty-acyl-CoA binding / ciliary plasm / fatty acid metabolic process / nucleoplasm / cytoplasm Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Verma, S. / Sundd, M. / Makde, R.D. | ||||||
![]() | ![]() Title: Acyl-Coenzyme A Binding Protein 103 (LMJF_17_0620) of Leishmania Major Authors: Verma, S. / Sundd, M. / Makde, R.D. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 62.6 KB | Display | ![]() |
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PDB format | ![]() | 37.5 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 1.1 MB | Display | ![]() |
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Full document | ![]() | 1.1 MB | Display | |
Data in XML | ![]() | 6.9 KB | Display | |
Data in CIF | ![]() | 8.9 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 5ijmS 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
#1: Protein | Mass: 11462.015 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: 2.16 Å3/Da / Density % sol: 43.01 % / Description: rod-shaped crystals |
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Crystal grow | Temperature: 289.15 K / Method: vapor diffusion, hanging drop Details: 20% (w/v) PEG 3350, 0.2M Magnesium formate dihydrate |
-Data collection
Diffraction | Mean temperature: 100 K / Ambient temp details: Oxford Cryostream - 700 series / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: MAR scanner 345 mm plate / Detector: IMAGE PLATE / Date: Mar 25, 2018 |
Radiation | Monochromator: Mirrors / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.97949 Å / Relative weight: 1 |
Reflection | Resolution: 1.4→40.68 Å / Num. obs: 17287 / % possible obs: 99 % / Redundancy: 3.9 % / Biso Wilson estimate: 14.84 Å2 / CC1/2: 0.999 / Rmerge(I) obs: 0.033 / Net I/σ(I): 19.2 |
Reflection shell | Resolution: 1.4→1.42 Å / Rmerge(I) obs: 0.524 / Mean I/σ(I) obs: 2.2 / Num. unique obs: 978 / % possible all: 99.9 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 5IJM Resolution: 1.45→22.77 Å / SU ML: 0.1152 / Cross valid method: FREE R-VALUE / σ(F): 1.38 / Phase error: 19.2643 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: 23.04 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.45→22.77 Å
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Refine LS restraints |
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LS refinement shell |
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