☰ Navigation Tabs
Crystal structure of horse spleen L-ferritin at 20deg 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 3.24 62.04
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 183.529 α = 90 b = 183.529 β = 90 c = 183.529 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 293.15 PIXEL RIGAKU HyPix-6000HE 2022-11-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU FR-E DW 1.5420
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) 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 1.6 22.432 99.7 0.118 0.132 0.057 0.996 6.9 4.7 35274
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.6 1.63 97.5 1.85 2.234 1.232 0.263 0.5 3.1
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 1.6 22.432 35261 1810 99.475 0.17 0.1686 0.1816 0.1901 0.2009 18.727
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 17.315 r_dihedral_angle_3_deg 15.293 r_dihedral_angle_2_deg 11.072 r_lrange_it 8.358 r_lrange_other 8.215 r_scangle_it 6.946 r_scangle_other 6.933 r_dihedral_angle_1_deg 5.469 r_scbond_it 4.42 r_scbond_other 4.356
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 17.315 r_dihedral_angle_3_deg 15.293 r_dihedral_angle_2_deg 11.072 r_lrange_it 8.358 r_lrange_other 8.215 r_scangle_it 6.946 r_scangle_other 6.933 r_dihedral_angle_1_deg 5.469 r_scbond_it 4.42 r_scbond_other 4.356 r_mcangle_it 3.104 r_mcangle_other 3.102 r_mcbond_it 2.022 r_mcbond_other 2.021 r_angle_refined_deg 1.588 r_angle_other_deg 0.555 r_symmetry_nbd_refined 0.351 r_metal_ion_refined 0.246 r_symmetry_metal_ion_refined 0.246 r_nbd_refined 0.241 r_symmetry_xyhbond_nbd_refined 0.198 r_nbtor_refined 0.182 r_nbd_other 0.178 r_symmetry_nbd_other 0.17 r_xyhbond_nbd_refined 0.141 r_chiral_restr 0.083 r_symmetry_nbtor_other 0.074 r_bond_refined_d 0.01 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 1385 Nucleic Acid Atoms Solvent Atoms 135 Heterogen Atoms 14
Software Software Software Name Purpose CrysalisPro data collection CrysalisPro data reduction Aimless data scaling MOLREP phasing REFMAC refinement Coot model building