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Esterase AlinE4 mutant, D162A
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4JGG
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 291.15 1M Sodium acetate, 100mM HEPES, pH 7.5, 50mM Cadmium sulfate
Crystal Properties Matthews coefficient Solvent content 2.35 47.6
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 79.81 α = 90 b = 79.81 β = 90 c = 60.92 γ = 90
Symmetry Space Group P 42 21 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 80 CCD ADSC QUANTUM 315r 2017-11-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL17U1 1.06881 SSRF BL17U1
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 1.552 48.42 99.97 0.096 32.71 2 29037
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 1.552 1.607 0.262
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 4JGG 1.552 48.42 27541 1496 99.976 0.116 0.1144 0.1147 0.1538 0.1538 14.865
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] 0.066 0.066 -0.132
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.62 r_dihedral_angle_4_deg 25.924 r_dihedral_angle_3_deg 13.52 r_dihedral_angle_1_deg 5.783 r_scangle_it 4.108 r_scangle_other 4.106 r_rigid_bond_restr 3.848 r_scbond_it 3.831 r_scbond_other 3.829 r_lrange_it 3.676
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.62 r_dihedral_angle_4_deg 25.924 r_dihedral_angle_3_deg 13.52 r_dihedral_angle_1_deg 5.783 r_scangle_it 4.108 r_scangle_other 4.106 r_rigid_bond_restr 3.848 r_scbond_it 3.831 r_scbond_other 3.829 r_lrange_it 3.676 r_lrange_other 3.593 r_mcangle_other 2.293 r_mcangle_it 2.285 r_angle_refined_deg 1.911 r_mcbond_it 1.85 r_mcbond_other 1.756 r_angle_other_deg 1.625 r_symmetry_nbd_refined 0.325 r_nbd_other 0.26 r_nbd_refined 0.243 r_symmetry_nbd_other 0.19 r_xyhbond_nbd_refined 0.19 r_symmetry_metal_ion_refined 0.184 r_symmetry_xyhbond_nbd_refined 0.179 r_nbtor_refined 0.174 r_chiral_restr 0.119 r_symmetry_xyhbond_nbd_other 0.119 r_symmetry_nbtor_other 0.086 r_metal_ion_refined 0.085 r_bond_refined_d 0.016 r_gen_planes_refined 0.011 r_gen_planes_other 0.002 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1436 Nucleic Acid Atoms Solvent Atoms 188 Heterogen Atoms 18
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction PHENIX phasing