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Xray crystal structure of PtsM receptor binding protein
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 290 0.1 M MgCl2, 0.1 M Na HEPES pH 7.5, 10% w/v PEG 4000
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 161.59 α = 90 b = 67.37 β = 99.77 c = 51.89 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 100 PIXEL DECTRIS EIGER2 XE 16M 2019-01-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.9762 Diamond I03
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 1.42 46.81 99.8 1 9.4 6.5 103206
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 1.42 1.44 0.3
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION SAD FREE R-VALUE 1.42 46.789 103206 5081 99.788 0.186 0.1852 0.1855 0.2017 0.2016 20.608
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] 0.183 -0.91 -0.264 0.372
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.15 r_dihedral_angle_3_deg 11.546 r_dihedral_angle_1_deg 7.393 r_lrange_it 7.145 r_lrange_other 7.127 r_dihedral_angle_4_deg 6.674 r_scangle_it 5.59 r_scangle_other 5.589 r_scbond_other 3.842 r_scbond_it 3.839
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.15 r_dihedral_angle_3_deg 11.546 r_dihedral_angle_1_deg 7.393 r_lrange_it 7.145 r_lrange_other 7.127 r_dihedral_angle_4_deg 6.674 r_scangle_it 5.59 r_scangle_other 5.589 r_scbond_other 3.842 r_scbond_it 3.839 r_mcangle_it 2.793 r_mcangle_other 2.793 r_mcbond_it 2.023 r_mcbond_other 2.021 r_angle_refined_deg 1.881 r_angle_other_deg 1.565 r_nbd_refined 0.215 r_symmetry_nbd_other 0.189 r_nbtor_refined 0.186 r_nbd_other 0.173 r_symmetry_nbd_refined 0.166 r_xyhbond_nbd_refined 0.162 r_metal_ion_refined 0.111 r_chiral_restr 0.101 r_symmetry_xyhbond_nbd_refined 0.091 r_symmetry_nbtor_other 0.084 r_bond_refined_d 0.014 r_gen_planes_refined 0.011 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2579 Nucleic Acid Atoms Solvent Atoms 239 Heterogen Atoms 5
Software Software Software Name Purpose REFMAC refinement FAST_DP data reduction FAST_DP data scaling PHASER phasing SHELXDE phasing BUCCANEER model building