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Ribonucleotide reductase R1 subunit of E. coli to 2.3 A resolution
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1R1R PDB ENTRY 1R1R
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6 LITHIUM SULPHATE APP 1.5M, SODIUM CITRATE BUFFER PH APP 6.
Crystal Properties Matthews coefficient Solvent content 3.04 54
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 223.877 α = 90 b = 223.877 β = 90 c = 336.467 γ = 120
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD ADSC CCD 2009-01-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-2 ESRF ID14-2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 2.3 56.08 100 0.09 15.79 7.48 142954 -3.7
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.3 2.32 100 0.55 3.19 7.37
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) 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 PDB ENTRY 1R1R 2.3 169.031 2 142954 7169 99.987 0.185 0.1832 0.1824 0.2241 0.2216 RANDOM 37.429
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] 0.293 0.147 0.293 -0.44
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.461 r_dihedral_angle_4_deg 19.283 r_dihedral_angle_3_deg 16.964 r_dihedral_angle_1_deg 6.094 r_scangle_it 3.033 r_scbond_it 1.845 r_mcangle_it 1.334 r_angle_refined_deg 1.311 r_mcbond_it 0.762 r_nbtor_refined 0.303
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.461 r_dihedral_angle_4_deg 19.283 r_dihedral_angle_3_deg 16.964 r_dihedral_angle_1_deg 6.094 r_scangle_it 3.033 r_scbond_it 1.845 r_mcangle_it 1.334 r_angle_refined_deg 1.311 r_mcbond_it 0.762 r_nbtor_refined 0.303 r_nbd_refined 0.201 r_symmetry_hbond_refined 0.174 r_xyhbond_nbd_refined 0.169 r_symmetry_vdw_refined 0.157 r_chiral_restr 0.092 r_bond_refined_d 0.011 r_gen_planes_refined 0.004 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 17826 Nucleic Acid Atoms Solvent Atoms 1028 Heterogen Atoms 15
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling REFMAC phasing