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Structure of the R57Q mutant of miniSOG expressed in E. coli in LB medium enriched with riboflavin
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6GPU
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 293 100 mM Tris-Hcl pH 8.0, 20 mM MgCl2, 28% PEG 4000, 15 mM CoCl2
Crystal Properties Matthews coefficient Solvent content 2.06 40.2
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 39.93 α = 90 b = 39.93 β = 90 c = 134.65 γ = 90
Symmetry Space Group P 43 21 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 PIXEL DECTRIS PILATUS3 6M TOROIDAL MIRROR 2015-05-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID29 0.984 ESRF ID29
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) Rrim 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 1.17 38.29 99.7 0.06 0.999 17.9 8.1 37774 15.8
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Rrim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.17 1.2 99.1 1 0.646 2
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 6GPU 1.17 38.282 37774 1800 99.633 0.148 0.1464 0.1469 0.1821 0.1825 13.87
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] -0.224 -0.224 0.448
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.341 r_dihedral_angle_4_deg 19.366 r_dihedral_angle_3_deg 13.094 r_dihedral_angle_1_deg 6.949 r_rigid_bond_restr 4.287 r_lrange_it 3.167 r_scangle_it 3.067 r_scangle_other 3.065 r_lrange_other 3.008 r_scbond_it 2.665
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.341 r_dihedral_angle_4_deg 19.366 r_dihedral_angle_3_deg 13.094 r_dihedral_angle_1_deg 6.949 r_rigid_bond_restr 4.287 r_lrange_it 3.167 r_scangle_it 3.067 r_scangle_other 3.065 r_lrange_other 3.008 r_scbond_it 2.665 r_scbond_other 2.663 r_angle_refined_deg 2.167 r_mcangle_other 1.695 r_mcangle_it 1.628 r_angle_other_deg 1.53 r_mcbond_it 1.435 r_mcbond_other 1.291 r_nbd_refined 0.252 r_nbd_other 0.23 r_symmetry_nbd_other 0.206 r_nbtor_refined 0.188 r_xyhbond_nbd_refined 0.17 r_symmetry_xyhbond_nbd_refined 0.16 r_symmetry_nbd_refined 0.151 r_chiral_restr 0.123 r_symmetry_nbtor_other 0.088 r_bond_refined_d 0.016 r_gen_planes_refined 0.014 r_gen_planes_other 0.002 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 942 Nucleic Acid Atoms Solvent Atoms 93 Heterogen Atoms 29
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling PHASER phasing