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The complex structure of Plpro and Frag7
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 7OFU
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 EVAPORATION 6 277 1.6 M Sodium Malonate Dibasic Monohydrate
Crystal Properties Matthews coefficient Solvent content 3.67 66.49
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 82.73 α = 90 b = 82.73 β = 90 c = 133.11 γ = 120
Symmetry Space Group P 32 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 PILATUS 6M 2024-07-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NFPSS BEAMLINE BL18U 0.9793 NFPSS BL18U
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 1.84 35.82 99.3 0.19 0.196 0.044 0.999 17 19.5 46057
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 1.84 1.89 99.9 2.232 2.291 0.511 0.561 20
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 1.84 35.82 1.34 46009 2012 99.22 0.2151 0.2138 0.2145 0.2434 0.2412
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 6.123 f_angle_d 0.967 f_chiral_restr 0.055 f_bond_d 0.008 f_plane_restr 0.008
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2489 Nucleic Acid Atoms Solvent Atoms 221 Heterogen Atoms 14
Software Software Software Name Purpose PHENIX refinement Aimless data scaling XDS data reduction PHASER phasing