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Ensemble refinement of the protein crystal structure of gene product from Arabidopsis thaliana At5g48480
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1XY7 PDB entry 1XY7
Crystallization Crystal Properties Matthews coefficient Solvent content 1.88 34.51
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 55.871 α = 90 b = 55.871 β = 90 c = 147.341 γ = 120
Symmetry Space Group P 32 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray M SINGLE WAVELENGTH
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION Re-refinement using ensemble model THROUGHOUT PDB entry 1XY7 1.8 27.447 25171 1282 98.6 0.167 0.167 0.1748 0.214 0.2173 RANDOM 23.8
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 Key Refinement Restraint Deviation c_dihedral_angle_d 25.1 c_scangle_it 4.48 c_scbond_it 2.95 c_mcangle_it 2.39 c_angle_deg 1.8 c_mcbond_it 1.7 c_improper_angle_d 1.17 c_bond_d 0.02
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1782 Nucleic Acid Atoms Solvent Atoms 252 Heterogen Atoms
Software Software Software Name Purpose CNS refinement PDB_EXTRACT data extraction CNS phasing