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Ensemble refinement of the protein crystal structure of gene product from Arabidopsis thaliana At5g06450
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1VK0 PDB entry 1VK0
Crystallization Crystal Properties Matthews coefficient Solvent content 2.8 56.04
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 120.831 α = 90 b = 120.831 β = 90 c = 185.222 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 1VK0 2.1 34.88 91677 4592 99.8 0.155 0.155 0.1622 0.221 0.2269 RANDOM 25.7
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 23.3 c_scangle_it 3.11 c_scbond_it 2.34 c_mcangle_it 2.29 c_angle_deg 1.9 c_mcbond_it 1.56 c_improper_angle_d 1.15 c_bond_d 0.018
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 9546 Nucleic Acid Atoms Solvent Atoms 645 Heterogen Atoms
Software Software Software Name Purpose CNS refinement PDB_EXTRACT data extraction CNS phasing