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Mycobacterium smegmatis Dps1 mutant - F47E
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1VEI
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 MICROBATCH 7.5 293 100 mM Na-HEPES, 200 mM CaCl2, 10% PEG 550
Crystal Properties Matthews coefficient Solvent content 2.77 55.55
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 175.07 α = 90 b = 175.07 β = 90 c = 175.07 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 IMAGE PLATE MAR scanner 345 mm plate 2012-08-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE BRUKER AXS MICROSTAR 1.54179
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.85 39.147 99.9 30.3 42.7 5200
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 3 3.16 0.68
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 1VEI 2.85 39.147 5200 583 99.76 0.23194 0.22863 0.2243 0.26025 0.2579 RANDOM 103.235
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 41.832 r_dihedral_angle_3_deg 19.26 r_dihedral_angle_4_deg 18.192 r_long_range_B_other 16.391 r_long_range_B_refined 16.389 r_scangle_other 9.587 r_mcangle_other 9.308 r_mcangle_it 9.301 r_mcbond_it 5.971 r_scbond_it 5.932
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.832 r_dihedral_angle_3_deg 19.26 r_dihedral_angle_4_deg 18.192 r_long_range_B_other 16.391 r_long_range_B_refined 16.389 r_scangle_other 9.587 r_mcangle_other 9.308 r_mcangle_it 9.301 r_mcbond_it 5.971 r_scbond_it 5.932 r_scbond_other 5.93 r_mcbond_other 5.925 r_dihedral_angle_1_deg 4.604 r_angle_refined_deg 1.43 r_angle_other_deg 1.074 r_chiral_restr 0.081 r_bond_refined_d 0.013 r_gen_planes_refined 0.007 r_bond_other_d 0.005 r_gen_planes_other 0.003 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1172 Nucleic Acid Atoms Solvent Atoms 10 Heterogen Atoms 3
Software Software Software Name Purpose REFMAC refinement REFMAC data reduction REFMAC data scaling Coot model building REFMAC phasing