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Structure of the Q103L mutant of miniSOG
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 40.4
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 40.05 α = 90 b = 40.05 β = 90 c = 134.26 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 2015-07-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID29 0.9789 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 1.37 38.38 99.9 0.06 1 23.9 8.3 23979 21.4
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 1.37 1.41 1.07 0.643 2.1
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 1.37 38.379 23979 1152 99.937 0.128 0.1257 0.1255 0.1739 0.1748 17.635
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] 0.076 0.076 -0.152
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.885 r_dihedral_angle_4_deg 19.202 r_dihedral_angle_3_deg 12.602 r_dihedral_angle_1_deg 6.562 r_lrange_it 3.634 r_lrange_other 3.366 r_scangle_it 2.665 r_scangle_other 2.663 r_scbond_other 2.17 r_scbond_it 2.164
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.885 r_dihedral_angle_4_deg 19.202 r_dihedral_angle_3_deg 12.602 r_dihedral_angle_1_deg 6.562 r_lrange_it 3.634 r_lrange_other 3.366 r_scangle_it 2.665 r_scangle_other 2.663 r_scbond_other 2.17 r_scbond_it 2.164 r_mcangle_other 2.008 r_mcangle_it 1.997 r_rigid_bond_restr 1.817 r_angle_refined_deg 1.62 r_mcbond_it 1.587 r_mcbond_other 1.475 r_angle_other_deg 1.382 r_symmetry_xyhbond_nbd_refined 0.254 r_nbd_refined 0.239 r_xyhbond_nbd_refined 0.219 r_symmetry_nbd_refined 0.217 r_nbd_other 0.188 r_symmetry_nbd_other 0.186 r_nbtor_refined 0.178 r_chiral_restr 0.091 r_symmetry_nbtor_other 0.082 r_symmetry_xyhbond_nbd_other 0.031 r_bond_refined_d 0.01 r_gen_planes_refined 0.01 r_metal_ion_refined 0.007 r_gen_planes_other 0.002 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 938 Nucleic Acid Atoms Solvent Atoms 161 Heterogen Atoms 34
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling PHASER phasing