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Sixty minutes iron loaded Rana Catesbeiana H' ferritin variant E57A/E136A/D140A
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5J8S
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 281 1.6-2.0 M MgCl2 and 0.1 M bicine pH 9.0
Crystal Properties Matthews coefficient Solvent content 3.3 62.72
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 184.372 α = 90 b = 184.372 β = 90 c = 184.372 γ = 90
Symmetry Space Group F 4 3 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 PILATUS 2M 2014-08-05 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ELETTRA BEAMLINE 5.2R 1.000, 1.722, 1.759 ELETTRA 5.2R
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 1.18 46.1 100 0.072 15.8 10.5 87928 2 7.5
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 1.18 1.24 100 0.372 5.2 9.6
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 5J8S 1.18 37.63 83499 4411 99.96 0.12196 0.12129 0.1233 0.13431 0.1356 RANDOM 12.139
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 r_dihedral_angle_2_deg 38.414 r_sphericity_free 22.568 r_dihedral_angle_4_deg 19.027 r_dihedral_angle_3_deg 12.666 r_rigid_bond_restr 7.613 r_sphericity_bonded 5.606 r_dihedral_angle_1_deg 4.697 r_long_range_B_refined 3.001 r_angle_other_deg 2.044 r_long_range_B_other 1.969
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.414 r_sphericity_free 22.568 r_dihedral_angle_4_deg 19.027 r_dihedral_angle_3_deg 12.666 r_rigid_bond_restr 7.613 r_sphericity_bonded 5.606 r_dihedral_angle_1_deg 4.697 r_long_range_B_refined 3.001 r_angle_other_deg 2.044 r_long_range_B_other 1.969 r_angle_refined_deg 1.315 r_scangle_other 1.143 r_scbond_it 0.96 r_scbond_other 0.946 r_mcangle_it 0.886 r_mcangle_other 0.886 r_mcbond_it 0.647 r_mcbond_other 0.647 r_chiral_restr 0.08 r_bond_refined_d 0.008 r_gen_planes_refined 0.007 r_gen_planes_other 0.005 r_bond_other_d 0.003 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1404 Nucleic Acid Atoms Solvent Atoms 345 Heterogen Atoms 26
Software Software Software Name Purpose REFMAC refinement XDS data reduction SCALA data scaling MOLREP phasing