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Crystal structure of Bacillus subtilis DegQ tetramer
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 293 15%(v/v) polyethylene glycol 3350, 5 mM magnesium chloride, 0.1 M HEPES
Crystal Properties Matthews coefficient Solvent content 2.1 41.55
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 33.548 α = 87.443 b = 52.271 β = 89.567 c = 53.098 γ = 89.936
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 95 PIXEL DECTRIS PILATUS3 S 2M 2019-12-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PHOTON FACTORY BEAMLINE AR-NW12A 1.00 Photon Factory AR-NW12A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) 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 2.3 100 95.4 0.049 0.059 0.032 12.2 3.4 15256
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.3 2.349 81.8 0.197 0.235 0.126 4.2 3.4
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 AB INITIO PHASING THROUGHOUT 2.3 38.1 15256 780 95.344 0.221 0.2196 0.224 0.2542 0.2604 43.86
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] -0.238 -1.156 -0.815 -0.471 -0.558 0.641
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 17.814 r_dihedral_angle_6_deg 15.059 r_lrange_it 10.641 r_lrange_other 10.639 r_dihedral_angle_2_deg 7.479 r_scangle_it 6.937 r_scangle_other 6.935 r_mcangle_it 6.029 r_mcangle_other 6.028 r_scbond_it 4.087
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 17.814 r_dihedral_angle_6_deg 15.059 r_lrange_it 10.641 r_lrange_other 10.639 r_dihedral_angle_2_deg 7.479 r_scangle_it 6.937 r_scangle_other 6.935 r_mcangle_it 6.029 r_mcangle_other 6.028 r_scbond_it 4.087 r_scbond_other 4.085 r_dihedral_angle_1_deg 3.86 r_mcbond_it 3.621 r_mcbond_other 3.62 r_angle_refined_deg 1.473 r_angle_other_deg 0.493 r_nbd_refined 0.233 r_symmetry_xyhbond_nbd_refined 0.231 r_nbd_other 0.21 r_symmetry_nbd_refined 0.202 r_symmetry_nbd_other 0.184 r_nbtor_refined 0.18 r_xyhbond_nbd_refined 0.168 r_symmetry_xyhbond_nbd_other 0.077 r_symmetry_nbtor_other 0.07 r_chiral_restr 0.064 r_xyhbond_nbd_other 0.019 r_bond_refined_d 0.006 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2743 Nucleic Acid Atoms Solvent Atoms 86 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement XDS data reduction STARANISO data scaling Arcimboldo phasing