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Arabidopsis thaliana Phosphoenolpyruvate carboxylase PPC1 T778 mutant with bound malate
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 8OJE
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 293 0,1M Hepes pH7,5; 0,2M MgCl2; 30% PEG400
Crystal Properties Matthews coefficient Solvent content 4.31 71.49
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 241.779 α = 90 b = 241.779 β = 90 c = 394.689 γ = 90
Symmetry Space Group I 41 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 100 PIXEL DECTRIS EIGER X 9M 2021-05-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SOLEIL BEAMLINE PROXIMA 1 0.981 SOLEIL PROXIMA 1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 3.0989 48 90 0.163 0.999 11.74 18.1 94644 85.5738271858
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 3.0989 3.29 27 2.237 0.779 1.19
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Cut-off Sigma (F) 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) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 3.09893721143 47.9969195073 1.33787610058 94262 1989 89.4402747863 0.197545346357 0.196560297314 0.1972 0.244612917873 0.2445 87.1937883878
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]
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 12.5205130211 f_angle_d 1.03318676579 f_chiral_restr 0.0537236018164 f_bond_d 0.00929084561498 f_plane_restr 0.0071928977872
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 22007 Nucleic Acid Atoms Solvent Atoms 130 Heterogen Atoms 97
Software Software Software Name Purpose PHENIX refinement XDS data reduction XDS data scaling PHASER phasing