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DHODH in complex with Ligand 10
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1D3G
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 293 0.10 M NaAcetat_pH4.8, 2.30 M (NH4)2SO4, 30 % Glycerol, 18% (w/v) PEG 4000, 0.1M Na3Citrate pH=5.75
Crystal Properties Matthews coefficient Solvent content 3.65 66.29
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 91.018 α = 90 b = 91.018 β = 90 c = 121.995 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 2019-03-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA 0.99989 SLS X10SA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim 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 2.08 78.82 95.1 0.089 0.099 0.998 13.63 5.2 33919
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.08 2.33 88.4 0.498 0.554 0.937 3.84 5.2
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 2.08 78.82 32355 1564 95.04 0.19238 0.19063 0.22795 0.2087 RANDOM 34.763
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] -0.07 -0.04 -0.07 0.24
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.357 r_dihedral_angle_4_deg 19.288 r_dihedral_angle_3_deg 12.684 r_dihedral_angle_1_deg 6.397 r_angle_refined_deg 1.739 r_angle_other_deg 1.335 r_chiral_restr 0.099 r_bond_refined_d 0.014 r_gen_planes_refined 0.009 r_bond_other_d 0.004
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.357 r_dihedral_angle_4_deg 19.288 r_dihedral_angle_3_deg 12.684 r_dihedral_angle_1_deg 6.397 r_angle_refined_deg 1.739 r_angle_other_deg 1.335 r_chiral_restr 0.099 r_bond_refined_d 0.014 r_gen_planes_refined 0.009 r_bond_other_d 0.004 r_gen_planes_other 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2703 Nucleic Acid Atoms Solvent Atoms 262 Heterogen Atoms 102
Software Software Software Name Purpose XDS data reduction XSCALE data scaling REFMAC refinement PHASER phasing