☰ Navigation Tabs
DHODH in complex with Ligand 16
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 NaAcetate pH=4.8, 2.0 M (NH4)2SO4, 30 % Glycerol
Crystal Properties Matthews coefficient Solvent content 3.66
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 90.744 α = 90 b = 90.744 β = 90 c = 122.457 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 EIGER X 16M 2019-09-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06SA 1 SLS X06SA
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 1.3 78.62 99.8 0.035 0.039 1 23.21 5.7 142930
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 1.3 1.55 99.9 0.49 0.539 0.899 3.55 5.7
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1.3 78.62 136207 6723 99.8 0.12993 0.12884 0.1373 0.15205 0.1578 RANDOM 22.771
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] 0.13 0.06 0.13 -0.41
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.924 r_dihedral_angle_4_deg 17.703 r_dihedral_angle_3_deg 11.486 r_dihedral_angle_1_deg 5.844 r_angle_other_deg 2.049 r_angle_refined_deg 1.75 r_chiral_restr 0.111 r_bond_refined_d 0.015 r_gen_planes_refined 0.011 r_gen_planes_other 0.009
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.924 r_dihedral_angle_4_deg 17.703 r_dihedral_angle_3_deg 11.486 r_dihedral_angle_1_deg 5.844 r_angle_other_deg 2.049 r_angle_refined_deg 1.75 r_chiral_restr 0.111 r_bond_refined_d 0.015 r_gen_planes_refined 0.011 r_gen_planes_other 0.009 r_bond_other_d 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2797 Nucleic Acid Atoms Solvent Atoms 376 Heterogen Atoms 108
Software Software Software Name Purpose XDS data reduction XSCALE data scaling REFMAC refinement PHASER phasing