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Ribonucleotide Reductase AaR2 protein from Aquifex aeolicus
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 7AIL
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 291 0.1 M citrate pH 4.0, 1.0 M lithium chloride, 20 % PEG6000
Crystal Properties Matthews coefficient Solvent content 2.52 51.22
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 69.183 α = 90 b = 69.183 β = 90 c = 177.5 γ = 90
Symmetry Space Group P 43 21 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL DECTRIS EIGER2 X 16M 2021-09-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.976 Diamond I03
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) CC (Half) 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 2.15 48.968 100 1 24.6 25.1 24392
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.15 2.22 0.69
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 7AIL 2.15 48.968 24313 1203 99.975 0.25 0.2471 0.2488 0.3145 0.3197 61.901
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] 1.08 1.08 -2.16
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.617 r_dihedral_angle_4_deg 19.513 r_dihedral_angle_3_deg 16.717 r_lrange_it 6.996 r_lrange_other 6.924 r_dihedral_angle_1_deg 5.752 r_mcangle_it 4.602 r_mcangle_other 4.601 r_scangle_it 4.557 r_scangle_other 4.556
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.617 r_dihedral_angle_4_deg 19.513 r_dihedral_angle_3_deg 16.717 r_lrange_it 6.996 r_lrange_other 6.924 r_dihedral_angle_1_deg 5.752 r_mcangle_it 4.602 r_mcangle_other 4.601 r_scangle_it 4.557 r_scangle_other 4.556 r_mcbond_it 3.072 r_mcbond_other 3.069 r_scbond_it 2.868 r_scbond_other 2.867 r_angle_refined_deg 1.194 r_angle_other_deg 1.118 r_nbd_refined 0.19 r_symmetry_nbd_refined 0.186 r_nbd_other 0.181 r_symmetry_nbd_other 0.17 r_xyhbond_nbd_refined 0.17 r_nbtor_refined 0.167 r_symmetry_xyhbond_nbd_refined 0.157 r_symmetry_xyhbond_nbd_other 0.077 r_symmetry_nbtor_other 0.073 r_chiral_restr 0.05 r_gen_planes_refined 0.004 r_bond_refined_d 0.003 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2667 Nucleic Acid Atoms Solvent Atoms 84 Heterogen Atoms 1
Software Software Software Name Purpose REFMAC refinement DIALS data reduction Aimless data scaling PHASER phasing