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Esterase EST8 with transacylase activity
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4XVC
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.6 293 29% PEG 4000, 0.1 M ammonium sulphate, 0.1 M sodium citrate, pH 5.6
Crystal Properties Matthews coefficient Solvent content 2.6 53
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 78.173 α = 90 b = 78.18 β = 100.68 c = 112.664 γ = 90
Symmetry Space Group P 1 21 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 PIXEL DECTRIS PILATUS3 2M 2019-03-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.2 0.9184 BESSY 14.2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 2.298 49.5 98.9 0.19 7.8 7 59126
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.298 2.43 97.8 1.29 1.4 7.1
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 4xvc 2.298 49.5 59075 1491 99.066 0.206 0.2051 0.2119 0.2389 0.2433 Random selection 42.923
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] -1.953 0.545 -2.768 4.216
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.414 r_dihedral_angle_4_deg 21.88 r_dihedral_angle_3_deg 18.387 r_lrange_it 7.783 r_lrange_other 7.768 r_dihedral_angle_1_deg 7.281 r_scangle_it 5.542 r_scangle_other 5.542 r_mcangle_it 4.683 r_mcangle_other 4.683
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.414 r_dihedral_angle_4_deg 21.88 r_dihedral_angle_3_deg 18.387 r_lrange_it 7.783 r_lrange_other 7.768 r_dihedral_angle_1_deg 7.281 r_scangle_it 5.542 r_scangle_other 5.542 r_mcangle_it 4.683 r_mcangle_other 4.683 r_scbond_it 3.65 r_scbond_other 3.65 r_mcbond_it 3.117 r_mcbond_other 3.117 r_angle_refined_deg 1.63 r_angle_other_deg 1.243 r_nbd_refined 0.215 r_symmetry_nbd_other 0.195 r_nbd_other 0.19 r_xyhbond_nbd_refined 0.184 r_symmetry_xyhbond_nbd_other 0.173 r_nbtor_refined 0.156 r_symmetry_nbd_refined 0.147 r_symmetry_nbtor_other 0.082 r_symmetry_xyhbond_nbd_refined 0.08 r_chiral_restr 0.068 r_bond_refined_d 0.008 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8828 Nucleic Acid Atoms Solvent Atoms 179 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling PHASER phasing