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Structure of the engineered metalloesterase MID1sc10 complexed with a phosphonate transition state analogue
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.6 293 200 mM HEPES pH 8.6, 14% (w/v) Polyethylene glycol 3350
Crystal Properties Matthews coefficient Solvent content 1.96 37.38
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 32.349 α = 90 b = 46.877 β = 90 c = 112.621 γ = 90
Symmetry Space Group I 2 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 EIGER X 16M 2017-05-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06SA 1.000030 SLS X06SA
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 1.34 43 99.3 0.042 0.999 12.91 6.3 19644
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 1.34 1.42 98.6 0.761 0.749 1.4
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 (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION THROUGHOUT 1.34 43 18661 983 99.51 0.12867 0.12639 0.1269 0.17113 0.1721 RANDOM 26.207
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] -1.82 0.32 1.5
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 34.689 r_dihedral_angle_2_deg 32.401 r_dihedral_angle_4_deg 20.981 r_sphericity_bonded 18.548 r_dihedral_angle_3_deg 14.267 r_long_range_B_refined 6.561 r_long_range_B_other 6.47 r_scangle_other 6.398 r_scbond_other 4.974 r_scbond_it 4.958
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 34.689 r_dihedral_angle_2_deg 32.401 r_dihedral_angle_4_deg 20.981 r_sphericity_bonded 18.548 r_dihedral_angle_3_deg 14.267 r_long_range_B_refined 6.561 r_long_range_B_other 6.47 r_scangle_other 6.398 r_scbond_other 4.974 r_scbond_it 4.958 r_dihedral_angle_1_deg 4.847 r_mcangle_other 3.94 r_mcangle_it 3.939 r_mcbond_it 3.396 r_mcbond_other 3.348 r_rigid_bond_restr 2.931 r_angle_refined_deg 1.706 r_angle_other_deg 1.051 r_chiral_restr 0.126 r_bond_refined_d 0.017 r_gen_planes_refined 0.01 r_bond_other_d 0.002 r_gen_planes_other 0.002 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 745 Nucleic Acid Atoms Solvent Atoms 97 Heterogen Atoms 35
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling MOLREP phasing