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Ensemble refinement of the protein crystal structure of the cys84ala cys85ala double mutant of the [2Fe-2S] ferredoxin subunit of toluene-4-monooxygenase from Pseudomonas mendocina KR1
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1VM9 PDB entry 1VM9
Crystallization Crystal Properties Matthews coefficient Solvent content 2.01 38.67
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 44.51 α = 90 b = 52.4 β = 90 c = 83.556 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 1VM9 1.48 31.43 16598 838 99.5 0.144 0.144 0.1442 0.181 0.1838 RANDOM 12.6
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 27.3 c_scangle_it 3.44 c_scbond_it 2.46 c_angle_deg 2 c_mcangle_it 1.87 c_mcbond_it 1.34 c_improper_angle_d 1.23 c_bond_d 0.02
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 835 Nucleic Acid Atoms Solvent Atoms 133 Heterogen Atoms 18
Software Software Software Name Purpose CNS refinement PDB_EXTRACT data extraction CNS phasing