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The X-ray crystal structure of SSR4, an S. pombe chromatin remodelling protein: iodide derivative
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 281 Crystallisation experiments were set up in SD2 sitting drop plates at 8 C with 200 nL protein plus 200 nL reservoir with 50 uL of reservoir in the wells. The protein concentration was 5 mg/mL. Reservoir conditions contained 1.5 to 1.9 M ammonium sulfate, 0.7-12% dioxane and either 100 mM MES, 100 mM bis-tris or 10% (v/v) malate-MES-tris buffer at a pH between 5.5 and 5.8
Crystal Properties Matthews coefficient Solvent content 2.56 51.94
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 50.157 α = 90 b = 67.496 β = 90 c = 67.534 γ = 90
Symmetry Space Group P 21 21 21
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 315 2013-06-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON AUSTRALIAN SYNCHROTRON BEAMLINE MX2 1.548300 Australian Synchrotron MX2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) CC (Half) 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 1.88 40.3 98.3 0.161 0.046 0.997 13.5 13 18912
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.88 1.92 78.3 1.246 0.432 0.488 2.2 8.9
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION SAD FREE R-VALUE 1.882 40.291 18860 971 98.152 0.17 0.168 0.1769 0.2041 0.2132 24.287
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] -0.377 0.16 0.217
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.919 r_dihedral_angle_4_deg 17.257 r_dihedral_angle_3_deg 12.224 r_lrange_it 7.898 r_lrange_other 7.887 r_dihedral_angle_1_deg 6.864 r_scangle_it 5.709 r_scangle_other 5.706 r_mcangle_it 3.937 r_mcangle_other 3.936
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.919 r_dihedral_angle_4_deg 17.257 r_dihedral_angle_3_deg 12.224 r_lrange_it 7.898 r_lrange_other 7.887 r_dihedral_angle_1_deg 6.864 r_scangle_it 5.709 r_scangle_other 5.706 r_mcangle_it 3.937 r_mcangle_other 3.936 r_scbond_it 3.572 r_scbond_other 3.571 r_mcbond_it 2.566 r_mcbond_other 2.563 r_angle_refined_deg 1.625 r_angle_other_deg 1.428 r_nbd_refined 0.206 r_symmetry_nbd_refined 0.198 r_xyhbond_nbd_refined 0.188 r_symmetry_nbd_other 0.184 r_nbd_other 0.177 r_nbtor_refined 0.176 r_symmetry_xyhbond_nbd_refined 0.134 r_symmetry_nbtor_other 0.079 r_chiral_restr 0.076 r_bond_refined_d 0.012 r_gen_planes_refined 0.01 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1526 Nucleic Acid Atoms Solvent Atoms 89 Heterogen Atoms 12
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling Auto-Rickshaw phasing