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Ribonucleotide Reductase Dimanganese(II)-NrdF from Escherichia coli in Complex with NrdI
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3N37 3N37 and 1RLJ experimental model PDB 1RLJ 3N37 and 1RLJ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7.6 20% PEG 3000, 0.1 M HEPES pH 7.6, 0.1 M lithium sulfate
Crystal Properties Matthews coefficient Solvent content 2.29 46.29
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 75.403 α = 90 b = 90.721 β = 90 c = 143.787 γ = 90
Symmetry Space Group P 21 21 21
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 2009-12-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-D 1.0781 APS 21-ID-D
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 2.5 33.84
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 3N37 and 1RLJ 2.5 33.84 31363 1595 90.54 0.237 0.235 0.233 0.273 0.2717 RANDOM 58.999
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] 0.12 -0.88 0.76
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.84 r_dihedral_angle_3_deg 14.323 r_dihedral_angle_4_deg 13.113 r_dihedral_angle_1_deg 4.146 r_angle_refined_deg 0.856 r_scangle_it 0.632 r_mcangle_it 0.376 r_scbond_it 0.363 r_mcbond_it 0.202 r_chiral_restr 0.059
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.84 r_dihedral_angle_3_deg 14.323 r_dihedral_angle_4_deg 13.113 r_dihedral_angle_1_deg 4.146 r_angle_refined_deg 0.856 r_scangle_it 0.632 r_mcangle_it 0.376 r_scbond_it 0.363 r_mcbond_it 0.202 r_chiral_restr 0.059 r_bond_refined_d 0.006 r_gen_planes_refined 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6591 Nucleic Acid Atoms Solvent Atoms 20 Heterogen Atoms 66
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction