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- PDB-9bcb: Crystal structure of human cellular retinol binding protein 3 in ... -
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Open data
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Basic information
Entry | Database: PDB / ID: 9bcb | ||||||
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Title | Crystal structure of human cellular retinol binding protein 3 in complex with C11 TopFluor MG | ||||||
![]() | Retinol-binding protein 5 | ||||||
![]() | LIPID BINDING PROTEIN / Cellular-retinol binding protein / retinol / retinoids / lipid transport | ||||||
Function / homology | ![]() retinoid binding / retinal binding / retinol binding / fatty acid transport / fatty acid binding / extracellular exosome / nucleus / cytosol Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Golczak, M. | ||||||
Funding support | ![]()
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![]() | ![]() Title: Interactom of cellular retinol binding protein 3. Authors: Golczak, M. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 83.4 KB | Display | ![]() |
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PDB format | ![]() | 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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1 | ![]()
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2 | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 16419.840 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() #2: Chemical | ChemComp-A1ALJ / | Mass: 506.433 Da / Num. of mol.: 1 / Source method: obtained synthetically / Formula: C27H41BF2N2O4 / Feature type: SUBJECT OF INVESTIGATION #3: Chemical | ChemComp-GOL / | #4: Water | ChemComp-HOH / | Has ligand of interest | Y | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.07 Å3/Da / Density % sol: 40.72 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, sitting drop / pH: 5 Details: 0.2 M sodium malonate, pH 5.0 and 20% PEG 3350 (w/v) |
-Data collection
Diffraction | Mean temperature: 85 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS EIGER X 16M / Detector: PIXEL / Date: Mar 17, 2017 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9792 Å / Relative weight: 1 |
Reflection | Resolution: 1.45→19.6 Å / Num. obs: 47122 / % possible obs: 98.5 % / Redundancy: 3.3 % / Biso Wilson estimate: 17.29 Å2 / CC1/2: 0.999 / Rmerge(I) obs: 0.043 / Rpim(I) all: 0.032 / Rrim(I) all: 0.059 / Χ2: 1 / Net I/σ(I): 12.2 |
Reflection shell | Resolution: 1.45→1.47 Å / Redundancy: 3.2 % / Rmerge(I) obs: 0.545 / Mean I/σ(I) obs: 1.7 / Num. unique obs: 2330 / CC1/2: 0.807 / Rpim(I) all: 0.535 / Rrim(I) all: 0.764 / Χ2: 1.02 / % possible all: 98.3 |
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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: 1.45→19.6 Å
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Refine LS restraints |
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LS refinement shell |
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