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Achromobacter Dh1f Bacterioferritin
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2FL0
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 291 0.2 M Sodium acetate tetrahydrate, 0.1 M sodium cacodylate tetrahydrate pH 6.5, 30%(w/v), PEG 8000
Crystal Properties Matthews coefficient Solvent content 3.39 63.69
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 158.665 α = 90 b = 158.665 β = 90 c = 118.061 γ = 90
Symmetry Space Group I 4 2 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 225 mm CCD 2014-10-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE BM14 0.95372 ESRF BM14
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 1.95 50 99.9 0.123 14.74 8.5 54638
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.95 2.02 99.5 0.551 2 4.1
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 2FL0 1.95 40.7 51924 2714 99.86 0.14437 0.14212 0.1422 0.18707 0.1872 RANDOM 18.005
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] 0.03 0.03 -0.05
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.178 r_dihedral_angle_4_deg 20.909 r_dihedral_angle_3_deg 14.212 r_long_range_B_refined 6.284 r_dihedral_angle_1_deg 4.268 r_scbond_it 3.137 r_angle_refined_deg 1.689 r_mcangle_it 1.657 r_mcbond_it 1.234 r_chiral_restr 0.109
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.178 r_dihedral_angle_4_deg 20.909 r_dihedral_angle_3_deg 14.212 r_long_range_B_refined 6.284 r_dihedral_angle_1_deg 4.268 r_scbond_it 3.137 r_angle_refined_deg 1.689 r_mcangle_it 1.657 r_mcbond_it 1.234 r_chiral_restr 0.109 r_bond_refined_d 0.016 r_gen_planes_refined 0.01 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_it r_scangle_other r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3749 Nucleic Acid Atoms Solvent Atoms 667 Heterogen Atoms 166
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling PHASER phasing