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Crystal Structure of Zn-bound Human H-Ferritin variant 122H-delta C-star
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2CEI
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8 298 25 mM Tris, 10 mM calcium chloride, 10 mM zinc chloride, 2% PEG 3350
Crystal Properties Matthews coefficient Solvent content 2.89 57.47
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 180.21 α = 90 b = 180.21 β = 90 c = 180.21 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 6M 2014-04-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL12-2 0.98 SSRL BL12-2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym I (Observed) Rrim I (All) Rpim I (All) 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 1.935 104.044 91.7 0.097 0.101 0.027 19.2 13.7 17713 17713
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Rpim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.93 2.04 84 0.328 0.328 0.09 7 14.2 2312
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 2CEI 1.935 104.04 16841 806 91.43 0.1426 0.1408 0.1406 0.1802 0.1795 RANDOM 16.52
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 39.641 r_dihedral_angle_4_deg 18.204 r_dihedral_angle_3_deg 11.79 r_dihedral_angle_1_deg 5.46 r_mcangle_it 2.039 r_angle_refined_deg 1.851 r_mcbond_it 1.433 r_mcbond_other 1.357 r_angle_other_deg 1.059 r_chiral_restr 0.126
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.641 r_dihedral_angle_4_deg 18.204 r_dihedral_angle_3_deg 11.79 r_dihedral_angle_1_deg 5.46 r_mcangle_it 2.039 r_angle_refined_deg 1.851 r_mcbond_it 1.433 r_mcbond_other 1.357 r_angle_other_deg 1.059 r_chiral_restr 0.126 r_bond_refined_d 0.021 r_gen_planes_refined 0.012 r_bond_other_d 0.006 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1417 Nucleic Acid Atoms Solvent Atoms 239 Heterogen Atoms 9
Software Software Software Name Purpose PDB_EXTRACT data extraction REFMAC refinement Coot model building MOLREP phasing SCALA data scaling MOSFLM data reduction