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- PDB-5ete: Structure of pathogen-related yeast protein, Pry1 in complex with... -
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Open data
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Basic information
Entry | Database: PDB / ID: 5ete | ||||||
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Title | Structure of pathogen-related yeast protein, Pry1 in complex with a competitive inhibitor of cholesterol binding | ||||||
![]() | Pry1p | ||||||
![]() | Sterol binding protein / TAPs / testis specific proteins / Tpx / antigen 5 / Ag5 / pathogenesis related-1 / PR-1 / Sc7 / CAP / cysteine-rich secretory protein / CRISP | ||||||
Function / homology | Pathogenesis-related Protein p14a / CAP / 3-Layer(aba) Sandwich / Alpha Beta / 1,4-DIETHYLENE DIOXIDE / : ![]() | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() | ||||||
![]() | Asojo, O.A. | ||||||
![]() | ![]() Title: Structural and functional characterization of the CAP domain of pathogen-related yeast 1 (Pry1) protein. Authors: Darwiche, R. / Kelleher, A. / Hudspeth, E.M. / Schneiter, R. / Asojo, O.A. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 66.9 KB | Display | ![]() |
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PDB format | ![]() | 49.3 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 428.1 KB | Display | ![]() |
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Full document | ![]() | 428.1 KB | Display | |
Data in XML | ![]() | 9.3 KB | Display | |
Data in CIF | ![]() | 13 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 5jysC ![]() 1smbS S: Starting model for refinement C: citing same article ( |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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Unit cell |
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Components on special symmetry positions |
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Components
#1: Protein | Mass: 15903.875 Da / Num. of mol.: 1 / Fragment: residues 158-306 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() Gene: PRY1, H819_YJM1434J00135 / Production host: ![]() | ||
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#2: Chemical | ChemComp-DIO / #3: Water | ChemComp-HOH / | |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 4.17 Å3/Da / Density % sol: 70.5 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, sitting drop / pH: 7.4 Details: 1.6M Ammonium sulphate, 0.1M MES pH 6.5, 10% v/v 1,4-dioxane |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() |
Detector | Type: RIGAKU RAXIS HTC / Detector: IMAGE PLATE / Date: Apr 14, 2014 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.54056 Å / Relative weight: 1 |
Reflection | Resolution: 2.1→30.75 Å / Num. obs: 17583 / % possible obs: 99.8 % / Redundancy: 13.9 % / Net I/σ(I): 15.4 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 1SMB Resolution: 2.1→28.485 Å / SU ML: 0.2 / Cross valid method: THROUGHOUT / σ(F): 0 / Phase error: 16.93 / Stereochemistry target values: ML
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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: 2.1→28.485 Å
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Refine LS restraints |
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LS refinement shell |
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