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Crystal structure of Ompk36 GD at 3500 eV with no absorption corrections
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6RCK
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.6 293 0.1M Lithium sulfate, 0.1M sodium citrate pH 5.6 and 12% PEG4000
Crystal Properties Matthews coefficient Solvent content 3.2 61.51
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 232.078 α = 90 b = 74.7 β = 112.209 c = 91.35 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 80 PIXEL DECTRIS PILATUS 12M 2021-05-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I23 3.5424 Diamond I23
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.34 107.4 98.77 0.996 11.99 10.8 60652
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.34 2.42 0.814
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 MOLECULAR REPLACEMENT FREE R-VALUE 2.34 107.4 60626 3260 98.712 0.225 0.2225 0.2225 0.2635 0.2636 45.999
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] 0.972 0.801 -2.916 0.967
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 16.915 r_dihedral_angle_3_deg 13.498 r_lrange_it 8.427 r_lrange_other 8.421 r_dihedral_angle_2_deg 7.454 r_dihedral_angle_1_deg 6.935 r_scangle_it 6.59 r_scangle_other 6.583 r_mcangle_it 5.449 r_mcangle_other 5.448
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 16.915 r_dihedral_angle_3_deg 13.498 r_lrange_it 8.427 r_lrange_other 8.421 r_dihedral_angle_2_deg 7.454 r_dihedral_angle_1_deg 6.935 r_scangle_it 6.59 r_scangle_other 6.583 r_mcangle_it 5.449 r_mcangle_other 5.448 r_scbond_it 4.311 r_scbond_other 4.307 r_mcbond_it 3.874 r_mcbond_other 3.874 r_angle_refined_deg 1.398 r_angle_other_deg 0.488 r_symmetry_xyhbond_nbd_refined 0.301 r_symmetry_nbd_other 0.204 r_symmetry_nbd_refined 0.203 r_nbtor_refined 0.186 r_nbd_refined 0.185 r_nbd_other 0.174 r_xyhbond_nbd_refined 0.163 r_symmetry_nbtor_other 0.086 r_chiral_restr 0.062 r_symmetry_xyhbond_nbd_other 0.019 r_bond_refined_d 0.006 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8099 Nucleic Acid Atoms Solvent Atoms 198 Heterogen Atoms 30
Software Software Software Name Purpose REFMAC refinement DIALS data reduction DIALS data scaling PHASER phasing