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Drimenol Synthase - Farnesyl Thiol Complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details in silico model AlphaFold AlphaFold Model of Drimenol Synthase
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 294 13 mg/mL AsDMS, Tris-HCl, NaCl, TCEP, glycerol, farnesyl S-thiolodiphosphate (FSPP), Magnesium chloride hexahydrate, Sodium citrate tribasic dihydrate, Jeffamine ED-2001
Crystal Properties Matthews coefficient Solvent content 3.27 62.36
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 154.741 α = 90 b = 154.741 β = 90 c = 132.979 γ = 90
Symmetry Space Group P 41 21 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 2024-10-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS-II BEAMLINE 17-ID-2 0.92 NSLS-II 17-ID-2
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 2.64 34.6 99.87 0.406 0.419 0.101 0.993 7 17 47665
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 2.643 2.689 100 3.92 3.92 0.928 0.339 0.9
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 2.64 34.6 1.33 47665 2000 99.87 0.2186 0.2166 0.2177 0.265 0.2654
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 15.29 f_angle_d 1.017 f_chiral_restr 0.049 f_bond_d 0.008 f_plane_restr 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7552 Nucleic Acid Atoms Solvent Atoms 94 Heterogen Atoms 68
Software Software Software Name Purpose PHENIX refinement autoPROC data reduction Zanuda data reduction XDS data scaling PHASER phasing