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- PDB-4c9c: Crystal Structure of the Strawberry Pathogenesis-Related 10 (PR-1... -
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Open data
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Basic information
Entry | Database: PDB / ID: 4c9c | ||||||
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Title | Crystal Structure of the Strawberry Pathogenesis-Related 10 (PR-10) Fra a 1E protein (Form A) | ||||||
![]() | MAJOR STRAWBERRY ALLERGEN FRA A 1-E | ||||||
![]() | ALLERGEN / START / PYR/PYL/RCAR / BET V 1 | ||||||
Function / homology | ![]() flavonoid binding / flavonoid biosynthetic process / response to biotic stimulus / abscisic acid binding / abscisic acid-activated signaling pathway / protein phosphatase inhibitor activity / defense response / signaling receptor activity / nucleus / cytoplasm Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Casanal, A. / Zander, U. / Valpuesta, V. / Marquez, J.A. | ||||||
![]() | ![]() Title: The Strawberry Pathogenesis-Related 10 (Pr-10) Fra a Proteins Control Flavonoid Biosynthesis by Binding to Metabolic Intermediates. Authors: Casanal, A. / Zander, U. / Munoz, C. / Dupeux, F. / Luque, I. / Botella, M.A. / Schwab, W. / Valpuesta, V. / Marquez, J.A. #1: Journal: Acta Crystallogr.,Sect.F / Year: 2013 Title: Purification, Crystallization and Preliminary X-Ray Analysis of the Strawberry Allergens Fra a 1E and Fra a 3 in the Presence of Catechin. Authors: Casanal, A. / Zander, U. / Dupeux, F. / Valpuesta, V. / Marquez, J.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 | ![]() | 76.9 KB | Display | ![]() |
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PDB format | ![]() | 57.9 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 452.9 KB | Display | ![]() |
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Full document | ![]() | 453.8 KB | Display | |
Data in XML | ![]() | 14.9 KB | Display | |
Data in CIF | ![]() | 21 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 4c94C ![]() 4c9iC ![]() 3e85S C: citing same article ( S: Starting model for refinement |
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Similar structure data |
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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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Noncrystallographic symmetry (NCS) | NCS oper: (Code: given Matrix: (0.99, -0.1409, -0.0057), Vector: |
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Components
#1: Protein | Mass: 17937.299 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() #2: Chemical | #3: Chemical | #4: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3.04 Å3/Da / Density % sol: 59.6 % / Description: NONE |
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Crystal grow | pH: 6.5 Details: 0.2 M AMMONIUM SULFATE, 0.1 M SODIUM CACODYLATE PH 6.5, 15% PEG 8000 |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC QUANTUM 315r / Detector: CCD / Date: Jun 16, 2011 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.93927 Å / Relative weight: 1 |
Reflection | Resolution: 2.2→36.03 Å / Num. obs: 24107 / % possible obs: 99.9 % / Observed criterion σ(I): 2 / Redundancy: 7.2 % / Rmerge(I) obs: 0.03 / Net I/σ(I): 14 |
Reflection shell | Resolution: 2.2→36.03 Å |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: PDB ENTRY 3E85 Resolution: 2.2→36.03 Å / Cor.coef. Fo:Fc: 0.946 / Cor.coef. Fo:Fc free: 0.925 / SU B: 5.454 / SU ML: 0.141 / Cross valid method: THROUGHOUT / ESU R: 0.221 / ESU R Free: 0.194 / Stereochemistry target values: MAXIMUM LIKELIHOOD / Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS.
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.2 Å / Solvent model: MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 39.955 Å2
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Refinement step | Cycle: LAST / Resolution: 2.2→36.03 Å
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Refine LS restraints |
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