☰ Navigation Tabs
ESTS1 phthalate ester degrading esterase from Sulfobacillus acidophilus in complex with 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 293.15 Sodium malonate, 0.1 M HEPES (pH 7.0), and Jeffamine ED-2001
Crystal Properties Matthews coefficient Solvent content 2.27 45.88
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 108.386 α = 90 b = 108.386 β = 90 c = 44.628 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 2022-08-20 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) 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 1.5 27.12 99.2 0.2 15.7 2.87 48160
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 1.5 1.53 99.7 1.375 2.2
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 1.5 27.111 48144 2385 99.961 0.12 0.1179 0.116 0.1627 0.1624 14.354
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] -0.531 -0.265 -0.531 1.721
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 16.516 r_dihedral_angle_3_deg 13.988 r_dihedral_angle_2_deg 7.961 r_rigid_bond_restr 7.197 r_lrange_it 6.121 r_dihedral_angle_1_deg 6.08 r_lrange_other 5.382 r_scangle_it 5.25 r_scangle_other 5.249 r_scbond_other 4.811
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 16.516 r_dihedral_angle_3_deg 13.988 r_dihedral_angle_2_deg 7.961 r_rigid_bond_restr 7.197 r_lrange_it 6.121 r_dihedral_angle_1_deg 6.08 r_lrange_other 5.382 r_scangle_it 5.25 r_scangle_other 5.249 r_scbond_other 4.811 r_scbond_it 4.808 r_mcangle_other 2.912 r_mcangle_it 2.886 r_mcbond_it 2.228 r_mcbond_other 2.228 r_angle_refined_deg 1.557 r_angle_other_deg 0.525 r_symmetry_nbd_refined 0.246 r_nbd_refined 0.228 r_symmetry_xyhbond_nbd_refined 0.211 r_symmetry_nbd_other 0.184 r_nbtor_refined 0.181 r_xyhbond_nbd_refined 0.181 r_nbd_other 0.174 r_chiral_restr 0.083 r_symmetry_nbtor_other 0.077 r_bond_refined_d 0.009 r_gen_planes_refined 0.008 r_symmetry_xyhbond_nbd_other 0.006 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2295 Nucleic Acid Atoms Solvent Atoms 315 Heterogen Atoms 60
Software Software Software Name Purpose REFMAC refinement CrysalisPro data reduction CrysalisPro data scaling MOLREP phasing