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Crystal structure of the second DNA-Binding protein under starvation from Mycobacterium smegmatis soaked with iron in the ratio of 480 iron atoms per dodecamer
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 MICROBATCH 6 298 100 mM sodium cacodylate, 150 mM MgCl2, 20% PEG3000
Crystal Properties Matthews coefficient Solvent content 2.3 47.21
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 89.7 α = 90 b = 89.7 β = 90 c = 420.842 γ = 120
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 2012-02-24 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 2.03 30 98.2 19 13.7 42006
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.03 2.14 87.9 3.4 13.9
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 THROUGHOUT 2.04 30 39886 2120 99.82 0.17909 0.17748 0.1778 0.21043 0.2105 RANDOM 23.469
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] 0.64 0.32 0.64 -2.08
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.91 r_dihedral_angle_4_deg 17.758 r_dihedral_angle_3_deg 13.93 r_dihedral_angle_1_deg 5.113 r_long_range_B_refined 3.649 r_mcangle_it 1.711 r_scbond_it 1.3 r_angle_refined_deg 1.208 r_mcbond_it 1.022 r_chiral_restr 0.091
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.91 r_dihedral_angle_4_deg 17.758 r_dihedral_angle_3_deg 13.93 r_dihedral_angle_1_deg 5.113 r_long_range_B_refined 3.649 r_mcangle_it 1.711 r_scbond_it 1.3 r_angle_refined_deg 1.208 r_mcbond_it 1.022 r_chiral_restr 0.091 r_bond_refined_d 0.009 r_gen_planes_refined 0.005 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 4954 Nucleic Acid Atoms Solvent Atoms 246 Heterogen Atoms 12
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling REFMAC phasing