☰ Navigation Tabs
Ribonucleotide Reductase Dimanganese(II)-NrdF from Escherichia coli
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1R2F
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7.5 0.1 M HEPES pH 7.5, 30% PEG 4000
Crystal Properties Matthews coefficient Solvent content 3.22 61.83
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 78.142 α = 90 b = 78.142 β = 90 c = 266.754 γ = 120
Symmetry Space Group P 65 2 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 113 CCD MARMOSAIC 225 mm CCD 2009-11-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-F 0.97872 APS 21-ID-F
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 1.65 67.67
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 MOLECULAR REPLACEMENT THROUGHOUT 1R2F 1.65 67.67 57359 2902 97.01 0.168 0.167 0.1777 0.185 0.1991 RANDOM 19.543
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] 0.92 0.46 0.92 -1.38
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.833 r_dihedral_angle_4_deg 17.763 r_dihedral_angle_3_deg 13.055 r_dihedral_angle_1_deg 4.318 r_scangle_it 3.013 r_scbond_it 1.769 r_angle_refined_deg 1.088 r_mcangle_it 0.953 r_mcbond_it 0.471 r_chiral_restr 0.075
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.833 r_dihedral_angle_4_deg 17.763 r_dihedral_angle_3_deg 13.055 r_dihedral_angle_1_deg 4.318 r_scangle_it 3.013 r_scbond_it 1.769 r_angle_refined_deg 1.088 r_mcangle_it 0.953 r_mcbond_it 0.471 r_chiral_restr 0.075 r_bond_refined_d 0.009 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2295 Nucleic Acid Atoms Solvent Atoms 400 Heterogen Atoms 8
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction