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Human L-type ferritin iron loaded for 60 minutes
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2FG4
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5 281 100 mM Cd(NO3)2, 100 mM ammonium sulfate, and 200 mM sodium acetate pH 5
Crystal Properties Matthews coefficient Solvent content 3.65 66.28
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 151.42 α = 90 b = 151.42 β = 90 c = 151.42 γ = 90
Symmetry Space Group I 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 6M-F 2015-07-29 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.9184 Diamond I03
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 1.98 29.7 99.7 0.092 16.8 11.6 20846 2 15.36
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 1.98 2.09 100 0.46 4.9 11.7
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 2FG4 1.98 29.7 19824 1021 99.6 0.143 0.142 0.1536 0.177 0.1839 RANDOM 25.88
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 37.766 r_sphericity_free 36.996 r_sphericity_bonded 21.547 r_dihedral_angle_4_deg 20.615 r_dihedral_angle_3_deg 14.703 r_long_range_B_refined 7.667 r_dihedral_angle_1_deg 5.551 r_scbond_it 3.93 r_mcangle_it 3.208 r_mcbond_it 2.339
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.766 r_sphericity_free 36.996 r_sphericity_bonded 21.547 r_dihedral_angle_4_deg 20.615 r_dihedral_angle_3_deg 14.703 r_long_range_B_refined 7.667 r_dihedral_angle_1_deg 5.551 r_scbond_it 3.93 r_mcangle_it 3.208 r_mcbond_it 2.339 r_angle_refined_deg 2.214 r_chiral_restr 0.193 r_bond_refined_d 0.026 r_gen_planes_refined 0.012 r_bond_other_d r_angle_other_deg r_gen_planes_other 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_mcbond_other r_mcangle_other r_scbond_other r_scangle_it r_scangle_other r_long_range_B_other r_rigid_bond_restr
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1387 Nucleic Acid Atoms Solvent Atoms 207 Heterogen Atoms 24
Software Software Software Name Purpose REFMAC refinement iMOSFLM data reduction SCALA data scaling MOLREP phasing