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Lipase calB candida antarctica with lysine ligand
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4K6G
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 293 Propan-2-ol 40 % (V/V),
PEG 8000 18 % (W/V),
100mM Imidazole/HCl pH 6.2
Crystal Properties Matthews coefficient Solvent content 2.52 51.23
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 45.318 α = 90 b = 107.476 β = 90.043 c = 68.235 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 EIGER X 9M 2020-11-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SOLEIL BEAMLINE PROXIMA 1 0.980121 SOLEIL PROXIMA 1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 1.87 45.32 98 0.146 0.995 8.5 6.7 52748
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 1.87 1.91 0.672
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 1.999 45.318 43867 2058 99.289 0.207 0.2049 0.189 0.2571 0.2396 21.891
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] -6.219 3.471 -16.929 23.149
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.181 r_dihedral_angle_4_deg 20.432 r_dihedral_angle_3_deg 15.469 r_dihedral_angle_1_deg 7.845 r_lrange_it 2.991 r_lrange_other 2.982 r_mcangle_it 2.262 r_mcangle_other 2.262 r_scangle_it 2.18 r_scangle_other 2.178
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.181 r_dihedral_angle_4_deg 20.432 r_dihedral_angle_3_deg 15.469 r_dihedral_angle_1_deg 7.845 r_lrange_it 2.991 r_lrange_other 2.982 r_mcangle_it 2.262 r_mcangle_other 2.262 r_scangle_it 2.18 r_scangle_other 2.178 r_angle_refined_deg 1.81 r_mcbond_it 1.769 r_mcbond_other 1.766 r_scbond_it 1.659 r_scbond_other 1.659 r_angle_other_deg 1.344 r_symmetry_nbd_refined 0.237 r_nbd_other 0.217 r_symmetry_xyhbond_nbd_refined 0.216 r_nbd_refined 0.213 r_xyhbond_nbd_refined 0.205 r_symmetry_nbd_other 0.199 r_nbtor_refined 0.169 r_symmetry_xyhbond_nbd_other 0.125 r_symmetry_nbtor_other 0.087 r_chiral_restr 0.081 r_bond_refined_d 0.01 r_gen_planes_refined 0.009 r_gen_planes_other 0.002 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4633 Nucleic Acid Atoms Solvent Atoms 129 Heterogen Atoms 11
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHENIX phasing