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Simvastatin Synthase (LovD) from Aspergillus terreus, unliganded, selenomethionyl derivative
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3HL9 PDB entry 3HL9
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 298 22% PEG 3350, 0.1M Bis-Tris pH 6.5, 0.25 M ammonium sulfate, 10 mM dithiothreitol, vapor diffusion, hanging drop, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.14 42.54
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 209.475 α = 90 b = 85.215 β = 117.48 c = 104.047 γ = 90
Symmetry Space Group C 1 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 CCD ADSC QUANTUM 315 2008-06-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 24-ID-C 0.9793 APS 24-ID-C
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) 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 2.5 54.39 89.9 0.143 10.24 5.3 50258 50258 -3 62.8
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.5 2.59 46.7 0.489 3 3 2603
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 3HL9 2.5 54.39 50246 2518 89.4 0.25 0.248 0.2499 0.29 0.2894 RANDOM 51.757
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] -1.75 -3.33 0.14 -1.46
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.244 r_dihedral_angle_3_deg 17.098 r_dihedral_angle_4_deg 14.935 r_dihedral_angle_1_deg 5.521 r_mcangle_it 1.401 r_scangle_it 1.283 r_angle_refined_deg 0.995 r_angle_other_deg 0.823 r_mcbond_it 0.813 r_scbond_it 0.795
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.244 r_dihedral_angle_3_deg 17.098 r_dihedral_angle_4_deg 14.935 r_dihedral_angle_1_deg 5.521 r_mcangle_it 1.401 r_scangle_it 1.283 r_angle_refined_deg 0.995 r_angle_other_deg 0.823 r_mcbond_it 0.813 r_scbond_it 0.795 r_mcbond_other 0.172 r_chiral_restr 0.056 r_bond_refined_d 0.006 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 12547 Nucleic Acid Atoms Solvent Atoms 21 Heterogen Atoms 65
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction