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PorX phosphatase null mutant (T271V)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 8TED
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.14 293 0.16 M calcium acetate, 0.08 M sodium cacodylate pH 6.14, 14.4% polyethylene glycol 8K, 20% Glycerol
Crystal Properties Matthews coefficient Solvent content 2.26 45.52
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 86.089 α = 90 b = 96.978 β = 90 c = 130.94 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 100 PIXEL DECTRIS EIGER X 9M 2022-07-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CLSI BEAMLINE 08ID-1 0.953 CLSI 08ID-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 2.6 50 99.9 0.096 0.108 0.047 0.99 7.6 5 34201
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 2.6 2.64 99.8 0.367 0.409 0.179 0.865 5.1
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 MOLECULAR REPLACEMENT THROUGHOUT 2.6 45.95 32346 1800 99.64 0.25256 0.24968 0.2522 0.30458 0.3019 RANDOM 51.536
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] 3.32 -1.09 -2.23
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 15.146 r_long_range_B_refined 12.448 r_long_range_B_other 12.448 r_dihedral_angle_2_deg 8.569 r_mcangle_it 7.237 r_mcangle_other 7.236 r_scangle_other 6.866 r_dihedral_angle_1_deg 5.301 r_mcbond_it 4.681 r_mcbond_other 4.681
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 15.146 r_long_range_B_refined 12.448 r_long_range_B_other 12.448 r_dihedral_angle_2_deg 8.569 r_mcangle_it 7.237 r_mcangle_other 7.236 r_scangle_other 6.866 r_dihedral_angle_1_deg 5.301 r_mcbond_it 4.681 r_mcbond_other 4.681 r_scbond_it 4.29 r_scbond_other 4.29 r_angle_refined_deg 1.068 r_angle_other_deg 0.362 r_chiral_restr 0.05 r_bond_refined_d 0.006 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_dihedral_angle_4_deg 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 8257 Nucleic Acid Atoms Solvent Atoms 44 Heterogen Atoms 10
Software Software Software Name Purpose REFMAC refinement HKL-2000 data scaling HKL-2000 data reduction PHASER phasing