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Crystal structure of ChoE in complex with propionylthiocholine
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6UQV PDB entry 6UQV
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 MICROBATCH 6.5 277 15% PEG20000, 0.1 M MES, pH 6.5
Crystal Properties Matthews coefficient Solvent content 2.36 47.86
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 45.599 α = 90 b = 81.489 β = 100.11 c = 81.373 γ = 90
Symmetry Space Group P 1 21 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 PILATUS3 S 6M 2018-11-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 31-ID 0.97931 APS 31-ID
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym I (Observed) Rrim I (All) 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 1.85 80.108 99.2 0.15 0.162 0.062 9.3 6.8 49649 49649
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Rrim I (All) Rpim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.85 1.95 99.2 0.966 0.966 1.045 0.395 0.8 6.9
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 PDB entry 6UQV 1.85 40.09 47260 2361 99.13 0.1935 0.1913 0.1999 0.2385 0.243 RANDOM 27.701
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] 3.34 1.01 -2.14 -1.47
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.642 r_dihedral_angle_4_deg 18.635 r_dihedral_angle_3_deg 14.972 r_dihedral_angle_1_deg 6.577 r_angle_refined_deg 1.79 r_angle_other_deg 0.616 r_chiral_restr 0.091 r_bond_refined_d 0.016 r_gen_planes_refined 0.01 r_bond_other_d 0.001
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.642 r_dihedral_angle_4_deg 18.635 r_dihedral_angle_3_deg 14.972 r_dihedral_angle_1_deg 6.577 r_angle_refined_deg 1.79 r_angle_other_deg 0.616 r_chiral_restr 0.091 r_bond_refined_d 0.016 r_gen_planes_refined 0.01 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4424 Nucleic Acid Atoms Solvent Atoms 344 Heterogen Atoms 25
Software Software Software Name Purpose SCALA data scaling REFMAC refinement PDB_EXTRACT data extraction MOSFLM data reduction MOLREP phasing