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Frog M-ferritin, EED mutant, with cobalt
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3KA3 PDB entry 3KA3
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 9 277 2M MgCl2, 0.1M Bicine pH 9.0, 0.1M CoCl2, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 3.13 60.72
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 183.708 α = 90 b = 183.708 β = 90 c = 183.708 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 ADSC QUANTUM 315r Mirror 1: plane parabola Pt and Rh-coated Invar steel. Mirror 2: torroid Pt and Rh-coated Si M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.3.1 1.1159 ALS 8.3.1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 1.4 50 100 0.073 0.073 28.8 12.8 52583
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) 1.4 1.48 100 0.88 0.88 0.9 9.2 7535
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 PDB entry 3KA3 1.4 50 52574 2678 99.99 0.141 0.139 0.1393 0.166 0.1663 RANDOM 16.499
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 37.844 r_dihedral_angle_4_deg 17.336 r_dihedral_angle_3_deg 14.001 r_sphericity_free 12.692 r_scangle_it 6.559 r_scbond_it 4.707 r_dihedral_angle_1_deg 4.542 r_sphericity_bonded 3.93 r_mcangle_it 2.86 r_rigid_bond_restr 2.259
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.844 r_dihedral_angle_4_deg 17.336 r_dihedral_angle_3_deg 14.001 r_sphericity_free 12.692 r_scangle_it 6.559 r_scbond_it 4.707 r_dihedral_angle_1_deg 4.542 r_sphericity_bonded 3.93 r_mcangle_it 2.86 r_rigid_bond_restr 2.259 r_angle_refined_deg 2.102 r_angle_other_deg 2.024 r_mcbond_it 1.995 r_mcbond_other 0.803 r_chiral_restr 0.128 r_bond_refined_d 0.025 r_gen_planes_refined 0.012 r_gen_planes_other 0.003 r_bond_other_d 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1415 Nucleic Acid Atoms Solvent Atoms 322 Heterogen Atoms 19
Software Software Software Name Purpose SCALA data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction ADSC data collection MOSFLM data reduction