☰ Navigation Tabs
ESTS1 phthalate ester degrading esterase from Sulfobacillus acidophilus in complex with diethylhexyl phthalate
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details in silico model AlphaFold
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 7 293.15 Sodium malonate, 0.1 M HEPES (pH 7.0), Jeffamine ED-2001
Crystal Properties Matthews coefficient Solvent content 2.278 46.049
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 108.258 α = 90 b = 108.258 β = 90 c = 44.872 γ = 120
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 RIGAKU HyPix-6000HE 2023-01-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 HF 1.54
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) Rrim 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 2.7 25.64 99.9 0.43 15.5 3.06 8440
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Rrim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.7 2.83 1 3.7
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 2.7 23.45 8433 424 99.834 0.218 0.214 0.2146 0.2945 0.2858 5
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] 0.405 0.202 0.405 -1.313
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 15.429 r_dihedral_angle_6_deg 13.912 r_dihedral_angle_2_deg 9.299 r_dihedral_angle_1_deg 7.306 r_angle_refined_deg 1.148 r_angle_other_deg 0.369 r_nbd_refined 0.216 r_symmetry_xyhbond_nbd_refined 0.215 r_symmetry_nbd_other 0.201 r_nbd_other 0.184
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 15.429 r_dihedral_angle_6_deg 13.912 r_dihedral_angle_2_deg 9.299 r_dihedral_angle_1_deg 7.306 r_angle_refined_deg 1.148 r_angle_other_deg 0.369 r_nbd_refined 0.216 r_symmetry_xyhbond_nbd_refined 0.215 r_symmetry_nbd_other 0.201 r_nbd_other 0.184 r_nbtor_refined 0.179 r_xyhbond_nbd_refined 0.179 r_symmetry_nbd_refined 0.142 r_symmetry_nbtor_other 0.081 r_chiral_restr 0.052 r_symmetry_xyhbond_nbd_other 0.028 r_rigid_bond_restr 0.012 r_bond_refined_d 0.005 r_gen_planes_refined 0.005 r_bond_other_d 0.002 r_gen_planes_other 0.002 r_mcbond_it r_mcbond_other r_mcangle_it r_mcangle_other r_scbond_it r_scbond_other r_scangle_it r_scangle_other r_lrange_it r_lrange_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2287 Nucleic Acid Atoms Solvent Atoms 84 Heterogen Atoms 56
Software Software Software Name Purpose REFMAC refinement CrysalisPro data reduction CrysalisPro data scaling MOLREP phasing