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Microbial Hormone-sensitive lipase- E53 mutant S162A
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4YPV
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 293 Calcium chloride, Bis-Tris, PEG MME 550, pH 6.5
Crystal Properties Matthews coefficient Solvent content 3.88 68.3
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 70.394 α = 90 b = 129.786 β = 90 c = 220.582 γ = 90
Symmetry Space Group P 21 2 21
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 2017-05-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL19U1 0.97776 SSRF BL19U1
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 1.996 48.701 99.81 0.107 42.633 13.2 136953 31.7
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 2 2.071 0.357
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 4YPV 1.996 48.701 136861 6777 99.819 0.16 0.1589 0.1699 0.1894 0.1975 32.316
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] 0.035 -0.029 -0.006
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 24.575 r_dihedral_angle_4_deg 23.875 r_dihedral_angle_3_deg 12.399 r_dihedral_angle_1_deg 6.613 r_lrange_it 6.509 r_lrange_other 6.448 r_scangle_it 5.14 r_scangle_other 5.14 r_scbond_it 3.829 r_scbond_other 3.829
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 24.575 r_dihedral_angle_4_deg 23.875 r_dihedral_angle_3_deg 12.399 r_dihedral_angle_1_deg 6.613 r_lrange_it 6.509 r_lrange_other 6.448 r_scangle_it 5.14 r_scangle_other 5.14 r_scbond_it 3.829 r_scbond_other 3.829 r_mcangle_other 3.519 r_mcangle_it 3.517 r_mcbond_it 3.085 r_mcbond_other 3.065 r_angle_refined_deg 1.738 r_angle_other_deg 1.461 r_nbd_refined 0.21 r_symmetry_xyhbond_nbd_refined 0.207 r_xyhbond_nbd_refined 0.202 r_symmetry_nbd_other 0.179 r_nbd_other 0.176 r_nbtor_refined 0.168 r_symmetry_xyhbond_nbd_other 0.157 r_chiral_restr 0.092 r_symmetry_nbtor_other 0.083 r_symmetry_nbd_refined 0.081 r_bond_refined_d 0.013 r_gen_planes_refined 0.011 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 9125 Nucleic Acid Atoms Solvent Atoms 1429 Heterogen Atoms 186
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALA data scaling PHENIX phasing