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Lytic Polysaccharide Monooxygenase AA15 from Thermobia domestica in the Cu(I) State
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.5 293 0.1 M sodium citrate pH 5.5, 0.1 M LiCl, and 10 to 25% w/v polyethylene glycol 6000 (PEG-6000)
Crystal Properties Matthews coefficient Solvent content 1.99 38.04
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 46.985 α = 90 b = 56.868 β = 90 c = 66.654 γ = 90
Symmetry Space Group P 2 21 21
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 PILATUS3 2M 2016-11-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE MASSIF-1 0.98 ESRF MASSIF-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 2 1.1 56.87 99.6 0.073 0.996 8 3.8 72866
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) 2 1.1 1.12 99.9 0.752 0.637 1.6 3.8
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 SAD THROUGHOUT 1.1 56.87 69121 3694 99.52 0.13399 0.1329 0.1325 0.15417 0.1541 RANDOM 15.725
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] -0.63 0.36 0.27
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.095 r_sphericity_free 23.826 r_dihedral_angle_4_deg 16.377 r_dihedral_angle_3_deg 10.81 r_sphericity_bonded 9.008 r_dihedral_angle_1_deg 6.142 r_long_range_B_refined 4.016 r_long_range_B_other 4.015 r_scangle_other 2.372 r_mcangle_other 2.339
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.095 r_sphericity_free 23.826 r_dihedral_angle_4_deg 16.377 r_dihedral_angle_3_deg 10.81 r_sphericity_bonded 9.008 r_dihedral_angle_1_deg 6.142 r_long_range_B_refined 4.016 r_long_range_B_other 4.015 r_scangle_other 2.372 r_mcangle_other 2.339 r_mcangle_it 2.332 r_rigid_bond_restr 1.93 r_scbond_it 1.91 r_scbond_other 1.909 r_mcbond_it 1.738 r_mcbond_other 1.729 r_angle_refined_deg 1.551 r_angle_other_deg 0.997 r_chiral_restr 0.107 r_bond_refined_d 0.012 r_gen_planes_refined 0.009 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 1496 Nucleic Acid Atoms Solvent Atoms 209 Heterogen Atoms 9
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling SHELXCD phasing