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Engineered PETase enzyme from LCC - C09 mutant
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4EB0
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.6 293 Sodium citrate tribasic dihydrate 1M
Isopropanol 20%
PEG 4K 20%
Crystal Properties Matthews coefficient Solvent content 1.85 33.48
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 108.876 α = 90 b = 108.876 β = 90 c = 35.402 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 DECTRIS EIGER2 XE 16M 2023-02-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.73380 Diamond I03
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) 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 1.28 54.497 100 0.998 6.5 20.8 62178
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.28 1.302 0.346
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 1.28 54.497 62177 3158 99.998 0.165 0.1634 0.1638 0.1871 0.1869 13.685
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] 0.113 0.056 0.113 -0.366
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 16.89 r_dihedral_angle_3_deg 12.824 r_dihedral_angle_2_deg 10.464 r_dihedral_angle_1_deg 6.591 r_lrange_it 5.372 r_lrange_other 5.371 r_scangle_it 3.465 r_scangle_other 3.463 r_scbond_it 2.362 r_scbond_other 2.361
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 16.89 r_dihedral_angle_3_deg 12.824 r_dihedral_angle_2_deg 10.464 r_dihedral_angle_1_deg 6.591 r_lrange_it 5.372 r_lrange_other 5.371 r_scangle_it 3.465 r_scangle_other 3.463 r_scbond_it 2.362 r_scbond_other 2.361 r_mcangle_other 2.162 r_mcangle_it 2.152 r_angle_refined_deg 1.711 r_mcbond_it 1.397 r_mcbond_other 1.388 r_angle_other_deg 0.612 r_symmetry_nbd_refined 0.242 r_nbd_refined 0.237 r_xyhbond_nbd_refined 0.218 r_nbd_other 0.199 r_symmetry_nbd_other 0.198 r_nbtor_refined 0.184 r_symmetry_xyhbond_nbd_refined 0.153 r_chiral_restr 0.096 r_symmetry_nbtor_other 0.083 r_bond_refined_d 0.01 r_gen_planes_refined 0.01 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1970 Nucleic Acid Atoms Solvent Atoms 248 Heterogen Atoms 28
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling MLPHARE phasing