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EstCE1, a hydrolase with promiscuous acyltransferase activity
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1CI8
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 293 2 ul (17 mg/ml protein, 50 mM Na-phophate, pH 7.5) + 2 ul (10% PEG8000, 200 mM Mg(OAc)2), cryo buffer: 10% PEG8000, 12% PEG400, 200 mM Mg(OAc)2
Crystal Properties Matthews coefficient Solvent content 3.78 68
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 99.433 α = 90 b = 99.433 β = 90 c = 228.132 γ = 120
Symmetry Space Group P 61 2 2
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 2020-03-20 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) 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 2.478 50 99.1 0.406 0.978 7.1 10.5 44454 36
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.478 2.63 99 2.092 0.442 1.1 10.5
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) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 1ci8 2.478 48.624 24306 1209 98.978 0.204 0.2038 0.2047 0.2355 0.2138 32.464
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] 0.145 0.073 0.145 -0.471
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.977 r_dihedral_angle_4_deg 19.713 r_dihedral_angle_3_deg 15.784 r_dihedral_angle_1_deg 7.149 r_lrange_other 6.662 r_lrange_it 6.611 r_scangle_it 5.033 r_scangle_other 5.032 r_mcangle_it 3.849 r_mcangle_other 3.849
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.977 r_dihedral_angle_4_deg 19.713 r_dihedral_angle_3_deg 15.784 r_dihedral_angle_1_deg 7.149 r_lrange_other 6.662 r_lrange_it 6.611 r_scangle_it 5.033 r_scangle_other 5.032 r_mcangle_it 3.849 r_mcangle_other 3.849 r_scbond_it 3.208 r_scbond_other 3.207 r_mcbond_it 2.455 r_mcbond_other 2.455 r_angle_other_deg 2.329 r_angle_refined_deg 1.567 r_symmetry_nbd_other 0.214 r_symmetry_nbd_refined 0.203 r_nbd_refined 0.202 r_nbd_other 0.188 r_nbtor_refined 0.164 r_xyhbond_nbd_refined 0.141 r_symmetry_xyhbond_nbd_refined 0.138 r_symmetry_nbtor_other 0.07 r_chiral_restr 0.067 r_bond_other_d 0.035 r_bond_refined_d 0.009 r_gen_planes_other 0.009 r_gen_planes_refined 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2911 Nucleic Acid Atoms Solvent Atoms 173 Heterogen Atoms 60
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling PHASER phasing