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Crystal structure of horse spleen L-ferritin A115G mutant at -180deg Celsius.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1DAT
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 293.15 Ammonium sulfate (0.5-1.0M), Cadmium sulfate(12-20mM)
Crystal Properties Matthews coefficient Solvent content 3.14 60.88
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 181.653 α = 90 b = 181.653 β = 90 c = 181.653 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 93.15 PIXEL RIGAKU HyPix-6000HE 2022-08-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU FR-E DW 1.5418
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim 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 1.5 30.705 100 0.058 0.061 0.999 26.2 9.6 41546
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.5 1.53 0.47 0.511 0.905 3.6
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 MOLECULAR REPLACEMENT FREE R-VALUE 1.5 30.705 41528 2087 99.928 0.153 0.1517 0.1518 0.1684 0.1688 11.42
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_6_deg 18.069 r_dihedral_angle_3_deg 14.358 r_dihedral_angle_2_deg 11.565 r_lrange_other 6.09 r_lrange_it 6.086 r_dihedral_angle_1_deg 4.497 r_scangle_it 4.218 r_scangle_other 4.216 r_scbond_it 2.702 r_scbond_other 2.7
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 18.069 r_dihedral_angle_3_deg 14.358 r_dihedral_angle_2_deg 11.565 r_lrange_other 6.09 r_lrange_it 6.086 r_dihedral_angle_1_deg 4.497 r_scangle_it 4.218 r_scangle_other 4.216 r_scbond_it 2.702 r_scbond_other 2.7 r_mcangle_other 2.541 r_mcangle_it 2.54 r_angle_refined_deg 1.706 r_mcbond_it 1.549 r_mcbond_other 1.549 r_angle_other_deg 0.601 r_symmetry_nbd_refined 0.334 r_nbd_refined 0.246 r_xyhbond_nbd_refined 0.226 r_symmetry_xyhbond_nbd_refined 0.213 r_nbtor_refined 0.188 r_nbd_other 0.185 r_symmetry_nbd_other 0.164 r_symmetry_metal_ion_refined 0.139 r_metal_ion_refined 0.136 r_chiral_restr 0.089 r_symmetry_nbtor_other 0.072 r_bond_refined_d 0.012 r_gen_planes_refined 0.009 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1392 Nucleic Acid Atoms Solvent Atoms 253 Heterogen Atoms 39
Software Software Software Name Purpose CrysalisPro data collection CrysalisPro data reduction Aimless data scaling MOLREP phasing REFMAC refinement Coot model building