2Q48

Ensemble refinement of the protein crystal structure of gene product from Arabidopsis thaliana At5g48480


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1XY7PDB entry 1XY7

Crystallization

Crystal Properties
Matthews coefficientSolvent content
1.8834.51

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 55.871α = 90
b = 55.871β = 90
c = 147.341γ = 120
Symmetry
Space GroupP 32 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray MSINGLE WAVELENGTH

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONRe-refinement using ensemble modelTHROUGHOUTPDB entry 1XY71.827.44725171128298.60.1670.1670.214RANDOM23.8
Temperature Factor Modeling
Anisotropic B[1][1]Anisotropic B[1][2]Anisotropic B[1][3]Anisotropic B[2][2]Anisotropic B[2][3]Anisotropic B[3][3]
RMS Deviations
KeyRefinement Restraint Deviation
c_dihedral_angle_d25.1
c_scangle_it4.48
c_scbond_it2.95
c_mcangle_it2.39
c_angle_deg1.8
c_mcbond_it1.7
c_improper_angle_d1.17
c_bond_d0.02
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1782
Nucleic Acid Atoms
Solvent Atoms252
Heterogen Atoms

Software

Software
Software NamePurpose
CNSrefinement
PDB_EXTRACTdata extraction
CNSphasing