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Ensemble refinement of the protein crystal structure of At1g76680 from Arabidopsis thaliana
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1VJI PDB entry 1VJI
Crystallization Crystal Properties Matthews coefficient Solvent content 1.86 33.9
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 46.688 α = 90 b = 88.066 β = 90 c = 149.334 γ = 90
Symmetry Space Group C 2 2 21
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 1VJI 2 42.24 20779 1072 97.9 0.195 0.195 0.2094 0.282 0.2935 RANDOM 29.9
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 22.9 c_scangle_it 2.56 c_scbond_it 1.97 c_mcangle_it 1.93 c_angle_deg 1.8 c_mcbond_it 1.33 c_improper_angle_d 1.15 c_bond_d 0.011
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2748 Nucleic Acid Atoms Solvent Atoms 107 Heterogen Atoms 31
Software Software Software Name Purpose CNS refinement PDB_EXTRACT data extraction CNS phasing