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Ensemble refinement of the protein crystal structure of a putative phosphoprotein phosphatase from Arabidopsis thaliana gene At1g05000
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1XRI PDB entry 1XRI
Crystallization Crystal Properties Matthews coefficient Solvent content 4.58 73.14
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 124.483 α = 90 b = 124.483 β = 90 c = 124.483 γ = 90
Symmetry Space Group P 21 3
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray APS-1 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 1XRI 3.3 41.5 9847 937 99.1 0.16 0.16 0.1918 0.234 0.2402 RANDOM 27.4
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 21.2 c_scangle_it 3.08 c_mcangle_it 2.78 c_scbond_it 1.92 c_mcbond_it 1.6 c_angle_deg 1.2 c_improper_angle_d 0.9 c_bond_d 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2448 Nucleic Acid Atoms Solvent Atoms 60 Heterogen Atoms 20
Software Software Software Name Purpose CNS refinement PDB_EXTRACT data extraction CNS phasing