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Crystal Structure of CMD1 in apo form
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.6 290 2% (v/v) tacsimate, pH 5.0, 0.1 M sodium citrate, pH 5.6, 16% (w/v) PEG 3350
Crystal Properties Matthews coefficient Solvent content 3.02 59.28
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 154.677 α = 90 b = 123.573 β = 103.16 c = 64.206 γ = 90
Symmetry Space Group C 1 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL DECTRIS PILATUS3 S 6M 2017-11-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL19U1 0.9785 SSRF BL19U1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) 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 2.2 47.77 94.3 0.073 1 17.2 6.9 48745
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.2 2.26 91.6 1.24 0.56 1.7 6.6
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 SAD THROUGHOUT 2.2 47.77 45661 1996 80.05 0.1815 0.1797 0.1801 0.2231 0.2241 RANDOM 54.547
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] 0.84 0.13 -2.05 1.04
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.132 r_sphericity_bonded 34.468 r_dihedral_angle_4_deg 18.393 r_dihedral_angle_3_deg 16.238 r_sphericity_free 15.135 r_dihedral_angle_1_deg 5.697 r_rigid_bond_restr 4.3 r_angle_refined_deg 1.241 r_chiral_restr 0.07 r_bond_refined_d 0.009
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.132 r_sphericity_bonded 34.468 r_dihedral_angle_4_deg 18.393 r_dihedral_angle_3_deg 16.238 r_sphericity_free 15.135 r_dihedral_angle_1_deg 5.697 r_rigid_bond_restr 4.3 r_angle_refined_deg 1.241 r_chiral_restr 0.07 r_bond_refined_d 0.009 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6509 Nucleic Acid Atoms Solvent Atoms 223 Heterogen Atoms 14
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction XDS data reduction XDS data scaling PHENIX phasing