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crystal structure of PPAT mutant P8A
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3OTW
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 293 Lithium sulfate, PEG500 MME
Crystal Properties Matthews coefficient Solvent content 2.61 52.91
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 95.893 α = 90 b = 126.898 β = 90 c = 89.98 γ = 90
Symmetry Space Group P 21 21 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 IMAGE PLATE MAR scanner 345 mm plate 2014-01-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSRRC BEAMLINE BL13B1 1 NSRRC BL13B1
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 2 89.98 97.9 0.96 21.6 2.3 75207
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 2 2.05 0.75
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 3OTW 2 89.98 68551 3661 95.96 0.19842 0.19569 0.1928 0.25016 0.2482 RANDOM 29.379
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] 0.12 -0.08 -0.04
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.656 r_dihedral_angle_4_deg 19.672 r_dihedral_angle_3_deg 18.841 r_sphericity_free 17.622 r_rigid_bond_restr 16.174 r_sphericity_bonded 10.517 r_dihedral_angle_1_deg 6.732 r_angle_refined_deg 2.485 r_chiral_restr 0.186 r_bond_refined_d 0.027
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.656 r_dihedral_angle_4_deg 19.672 r_dihedral_angle_3_deg 18.841 r_sphericity_free 17.622 r_rigid_bond_restr 16.174 r_sphericity_bonded 10.517 r_dihedral_angle_1_deg 6.732 r_angle_refined_deg 2.485 r_chiral_restr 0.186 r_bond_refined_d 0.027 r_gen_planes_refined 0.013 r_bond_other_d r_angle_other_deg r_gen_planes_other 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_mcbond_it r_mcbond_other r_mcangle_it r_mcangle_other r_scbond_it r_scbond_other r_scangle_it r_scangle_other r_long_range_B_refined r_long_range_B_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7350 Nucleic Acid Atoms Solvent Atoms 619 Heterogen Atoms 264
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing