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Crystal structure of a GH128 (subgroup VI) exo-beta-1,3-glucanase from Aureobasidium namibiae (AnGH128_VI)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 291 0.18 M tri-ammonium citrate, 18% v/v PEG 3350, 0.01 M Cobalt (II) chloride hexahydrate
Crystal Properties Matthews coefficient Solvent content 2.42 49.28
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 117.993 α = 90 b = 151.86 β = 90 c = 166.785 γ = 90
Symmetry Space Group P 21 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 2019-07-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON LNLS BEAMLINE W01B-MX2 1.458570 LNLS W01B-MX2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) Rrim 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 1.9 50 99.3 0.252 0.997 8.49 10.1 233281
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Rrim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.9 2.02 97.6 0.252 0.467 0.84 10.1
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-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION SIRAS FREE R-VALUE 1.9 48.21 233255 11663 99.3 0.222 0.2277 0.264 0.2674 34.21
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] 2.098 -1.549 -0.55
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.264 r_dihedral_angle_4_deg 18.045 r_dihedral_angle_3_deg 15.843 r_dihedral_angle_1_deg 7.985 r_scangle_it 2.371 r_scangle_other 2.371 r_angle_other_deg 2.357 r_mcangle_it 1.965 r_mcangle_other 1.965 r_angle_refined_deg 1.875
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.264 r_dihedral_angle_4_deg 18.045 r_dihedral_angle_3_deg 15.843 r_dihedral_angle_1_deg 7.985 r_scangle_it 2.371 r_scangle_other 2.371 r_angle_other_deg 2.357 r_mcangle_it 1.965 r_mcangle_other 1.965 r_angle_refined_deg 1.875 r_scbond_it 1.463 r_scbond_other 1.463 r_mcbond_it 1.217 r_mcbond_other 1.217 r_nbd_other 0.249 r_nbd_refined 0.215 r_nbtor_refined 0.176 r_xyhbond_nbd_refined 0.16 r_chiral_restr 0.093 r_bond_other_d 0.035 r_gen_planes_other 0.017 r_bond_refined_d 0.013 r_gen_planes_refined 0.012 r_nbtor_other 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_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 20388 Nucleic Acid Atoms Solvent Atoms 1140 Heterogen Atoms 198
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling SHELXCD phasing