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Crystal Structure of the Cu-adduct of Human H-Ferritin variant MIC1
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2CEI PDB ENTRY 2CEI
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8 298 50 mM Tris, 5 mM calcium chloride, 8% PEG 1900 MME, 700 micro M cupric chloride, pH 8.0, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 3.01 59.13
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 179.594 α = 90 b = 179.594 β = 90 c = 179.594 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 CCD MARMOSAIC 325 mm CCD 2011-04-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 0.98 SSRL BL9-2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 1.9 103.689 99.8 0.102 22 27.1 20095 20095 3 3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.9 2 100 0.492 0.492 1.4 20
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 PDB ENTRY 2CEI 1.9 89.8 20087 18597 1454 99.72 0.21935 0.21766 0.2184 0.24072 0.2418 RANDOM 28.864
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 36.392 r_dihedral_angle_4_deg 18.424 r_dihedral_angle_3_deg 12.027 r_dihedral_angle_1_deg 4.454 r_scangle_it 1.941 r_scbond_it 1.191 r_angle_refined_deg 0.886 r_mcangle_it 0.718 r_mcbond_it 0.439 r_nbtor_refined 0.291
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.392 r_dihedral_angle_4_deg 18.424 r_dihedral_angle_3_deg 12.027 r_dihedral_angle_1_deg 4.454 r_scangle_it 1.941 r_scbond_it 1.191 r_angle_refined_deg 0.886 r_mcangle_it 0.718 r_mcbond_it 0.439 r_nbtor_refined 0.291 r_xyhbond_nbd_refined 0.275 r_nbd_refined 0.179 r_symmetry_vdw_refined 0.171 r_symmetry_hbond_refined 0.12 r_symmetry_metal_ion_refined 0.078 r_metal_ion_refined 0.073 r_chiral_restr 0.068 r_bond_refined_d 0.007 r_gen_planes_refined 0.003 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1412 Nucleic Acid Atoms Solvent Atoms 164 Heterogen Atoms 17
Software Software Software Name Purpose MOSFLM data reduction SCALA data scaling MOLREP phasing REFMAC refinement PDB_EXTRACT data extraction Blu-Ice data collection