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Crystal structure of the N-terminal domain of the A subunit of the Bacillus cereus GerI germinant receptor
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.4 289 0.1 M HEPES, pH 7.), 1.8-2.0 M ammonium acetate
Crystal Properties Matthews coefficient Solvent content 3.04 59.49
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 82.149 α = 90 b = 122.846 β = 90 c = 212.188 γ = 90
Symmetry Space Group C 2 2 21
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 EIGER2 X 16M 2021-05-21 M MAD 2 1 x-ray 100 PIXEL DECTRIS EIGER2 X 16M 2021-05-21 M MAD 3 1 x-ray 100 PIXEL DECTRIS EIGER X 16M 2022-07-13 M SINGLE WAVELENGTH 4 1 x-ray 100 PIXEL DECTRIS EIGER X 9M 2022-03-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 0.97929 SSRL BL9-2 2 SYNCHROTRON SSRL BEAMLINE BL9-2 0.9795 SSRL BL9-2 3 SYNCHROTRON NSLS-II BEAMLINE 17-ID-2 0.9793 NSLS-II 17-ID-2 4 SYNCHROTRON NSLS-II BEAMLINE 17-ID-1 0.9201 NSLS-II 17-ID-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim 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 1.89 78.64 95.9 0.061 0.063 0.015 1 31.6 18.3 26911 35.12
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.89 1.92 94 1.294 1.329 0.303 0.907 2.2 19
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 SAD THROUGHOUT 2.8 38.3 26875 1996 99.9 0.201 0.199 0.1873 0.229 0.2182 RANDOM 87.84
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] -2.2623 -26.3398 28.6021
RMS Deviations Key Refinement Restraint Deviation t_other_torsion 3.66 t_omega_torsion 2.61 t_angle_deg 1.17 t_bond_d 0.01 t_dihedral_angle_d t_incorr_chiral_ct t_pseud_angle t_trig_c_planes t_gen_planes t_it
RMS Deviations Key Refinement Restraint Deviation t_other_torsion 3.66 t_omega_torsion 2.61 t_angle_deg 1.17 t_bond_d 0.01 t_dihedral_angle_d t_incorr_chiral_ct t_pseud_angle t_trig_c_planes t_gen_planes t_it t_nbd t_improper_torsion t_chiral_improper_torsion t_sum_occupancies t_utility_distance t_utility_angle t_utility_torsion t_ideal_dist_contact
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5798 Nucleic Acid Atoms Solvent Atoms 162 Heterogen Atoms 4
Software Software Software Name Purpose BUSTER refinement PDB_EXTRACT data extraction autoPROC data reduction autoPROC data scaling PHENIX phasing