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Phosphorylated Bacillus pumilus Lipase A
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1ISP
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 298 0.1 M MES pH 6.5
18-22 % PEG 4000
0.1-0.5 M lithium citrate
1:100 diluted paraoxon-ethyl mixed with enzyme
Crystal Properties Matthews coefficient Solvent content 1.88 34.58
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 57.396 α = 90 b = 42.843 β = 91.28 c = 62.66 γ = 90
Symmetry Space Group C 1 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 298 PIXEL Bruker PHOTON II 2020-11-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SEALED TUBE BRUKER D8 QUEST 1.5418
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) 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 1.5 20.93 98.68 0.123 0.05036 0.997 9.42 6.3 47178 12.89
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.5 1.554 98.51 1.492 0.8465 0.399 1.05 3.9
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 1isp 1.5 20.93 1.33 47147 2291 98.72 0.1419 0.1408 0.1366 0.1652 0.1609 17.56
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]
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 15.4366 f_angle_d 0.8729 f_chiral_restr 0.0595 f_plane_restr 0.0097 f_bond_d 0.0082
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1358 Nucleic Acid Atoms Solvent Atoms 99 Heterogen Atoms 17
Software Software Software Name Purpose PHENIX refinement APEX 2 data collection Aimless data scaling PHASER phasing