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Crystal structure of ferritin 1 from Caenorhabditis elegans, FTN-1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5 293 Ammonium sulfate, Bis-Tris
Crystal Properties Matthews coefficient Solvent content 3.18 61.36
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 227.763 α = 90 b = 227.763 β = 90 c = 227.763 γ = 90
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 EIGER X 16M 2021-02-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON AUSTRALIAN SYNCHROTRON BEAMLINE MX2 0.953 Australian Synchrotron MX2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) 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 1.789 50 99.9 0.162 0.036 0.999 12.2 21.1 365928
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.79 1.82 1.567 0.347 0.806
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 SAD FREE R-VALUE 1.789 48.559 365898 17988 99.892 0.167 0.1657 0.1742 0.1885 0.1961 25.536
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] -14.794 6.306 -19.507 -14.976 -19.43 29.77
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.552 r_dihedral_angle_4_deg 15.402 r_dihedral_angle_3_deg 12.889 r_dihedral_angle_1_deg 5.592 r_lrange_it 4.984 r_lrange_other 4.793 r_scangle_other 3.785 r_scangle_it 3.783 r_scbond_it 2.453 r_scbond_other 2.447
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.552 r_dihedral_angle_4_deg 15.402 r_dihedral_angle_3_deg 12.889 r_dihedral_angle_1_deg 5.592 r_lrange_it 4.984 r_lrange_other 4.793 r_scangle_other 3.785 r_scangle_it 3.783 r_scbond_it 2.453 r_scbond_other 2.447 r_mcangle_it 1.818 r_mcangle_other 1.818 r_angle_other_deg 1.386 r_mcbond_it 1.316 r_mcbond_other 1.316 r_angle_refined_deg 1.304 r_nbd_refined 0.206 r_symmetry_nbd_refined 0.188 r_nbd_other 0.185 r_nbtor_refined 0.164 r_symmetry_nbd_other 0.163 r_symmetry_xyhbond_nbd_refined 0.142 r_xyhbond_nbd_refined 0.131 r_symmetry_xyhbond_nbd_other 0.106 r_symmetry_nbtor_other 0.077 r_chiral_restr 0.074 r_metal_ion_refined 0.053 r_bond_refined_d 0.006 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 21792 Nucleic Acid Atoms Solvent Atoms 2403 Heterogen Atoms 235
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling SHELXD phasing