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Structure of P110 from Mycoplasma Genitalium at 2.7A
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 293 11% PEG 8000
0.1M Imidazole pH 8
0.2M Calcium acetate
Crystal Properties Matthews coefficient Solvent content 3.6 65.88
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 109.6 α = 90 b = 152.94 β = 90 c = 172.71 γ = 90
Symmetry Space Group I 2 2 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 293 PIXEL DECTRIS PILATUS 6M 2016-03-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALBA BEAMLINE XALOC 1.12712 ALBA XALOC
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) 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 2.7 62 98.9 0.047 0.052 19.1 4.6 39641
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.7 2.77 4.8
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 2.73 54.86 36543 1930 98.59 0.17836 0.17593 0.1795 0.2247 0.2236 RANDOM 89.398
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] 0.9 0.04 -0.94
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.585 r_dihedral_angle_3_deg 20.567 r_dihedral_angle_4_deg 18.049 r_dihedral_angle_1_deg 9.193 r_long_range_B_refined 7.351 r_long_range_B_other 7.34 r_scangle_other 4.977 r_mcangle_it 4.637 r_mcangle_other 4.637 r_scbond_it 3.226
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.585 r_dihedral_angle_3_deg 20.567 r_dihedral_angle_4_deg 18.049 r_dihedral_angle_1_deg 9.193 r_long_range_B_refined 7.351 r_long_range_B_other 7.34 r_scangle_other 4.977 r_mcangle_it 4.637 r_mcangle_other 4.637 r_scbond_it 3.226 r_scbond_other 3.177 r_mcbond_it 2.923 r_mcbond_other 2.913 r_angle_refined_deg 1.932 r_angle_other_deg 1.337 r_chiral_restr 0.079 r_bond_refined_d 0.012 r_gen_planes_refined 0.008 r_bond_other_d 0.004 r_gen_planes_other 0.002 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 r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6825 Nucleic Acid Atoms Solvent Atoms 63 Heterogen Atoms 7
Software Software Software Name Purpose REFMAC refinement xia2 data reduction xia2 data scaling PHENIX phasing