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First GerMN domain of the sporulation protein GerM from Bacillus subtilis
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 293.15 0.2 M sodium acetate
21% PEG 3350
Crystal Properties Matthews coefficient Solvent content 2.18 43.52
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 38.36 α = 90 b = 53.601 β = 90 c = 64.861 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 273 PIXEL DECTRIS PILATUS 6M 2017-05-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-1 0.97242 ESRF ID23-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym I (Observed) Rrim 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 1 50 94.5 0.061 0.07 11.22 3.6 68958 10.46
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Rrim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1 1.06 90.4 0.356 0.42 2.95 3.3
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 AB INITIO PHASING FREE R-VALUE 1 41.32 67101 1738 94.48 0.13499 0.13453 0.1427 0.15364 0.1655 RANDOM 14.292
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] 0.04 -0.14 0.11
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.944 r_sphericity_free 30.209 r_dihedral_angle_4_deg 17.435 r_sphericity_bonded 12.613 r_dihedral_angle_3_deg 12.294 r_rigid_bond_restr 7.131 r_dihedral_angle_1_deg 6.685 r_long_range_B_refined 6.477 r_long_range_B_other 6.477 r_scangle_other 6.053
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.944 r_sphericity_free 30.209 r_dihedral_angle_4_deg 17.435 r_sphericity_bonded 12.613 r_dihedral_angle_3_deg 12.294 r_rigid_bond_restr 7.131 r_dihedral_angle_1_deg 6.685 r_long_range_B_refined 6.477 r_long_range_B_other 6.477 r_scangle_other 6.053 r_scbond_it 6.039 r_scbond_other 6.027 r_mcangle_other 2.506 r_mcangle_it 2.378 r_mcbond_it 2.136 r_mcbond_other 1.621 r_angle_refined_deg 1.333 r_angle_other_deg 0.951 r_chiral_restr 0.091 r_gen_planes_refined 0.012 r_bond_refined_d 0.008 r_gen_planes_other 0.003 r_bond_other_d r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1040 Nucleic Acid Atoms Solvent Atoms 184 Heterogen Atoms 15
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling Arcimboldo phasing