☰ Navigation Tabs
BP0997, GH138 enzyme targeting pectin rhamnogalacturonan II
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293.15 30 mM Glutamate, 30 mM Alanine, 30 mM Glycine, 30 mM Lysine, 30 mM Serine, 100 mM Tris/Bicine pH 8.5, 8 % Ethylene glycol, 16 % PEG 8000
Crystal Properties Matthews coefficient Solvent content 2.52 51.11
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 69.785 α = 90 b = 106.207 β = 99.44 c = 138.504 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 PILATUS 6M 2016-12-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.97835 Diamond I03
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.95 49.55 99.9 0.999 19.7 12.7 144883
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 1.95 1.98 99.6 0.809 2.5 10.8
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 1.95 49.55 137670 7185 99.92 0.1744 0.17265 0.1855 0.20799 0.2164 RANDOM 39.056
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] -1.89 0.74 1.78 -0.12
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.659 r_dihedral_angle_4_deg 16.721 r_dihedral_angle_3_deg 15.298 r_dihedral_angle_1_deg 6.983 r_long_range_B_refined 4.841 r_long_range_B_other 4.841 r_scangle_other 2.67 r_mcangle_it 1.906 r_mcangle_other 1.906 r_scbond_it 1.723
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.659 r_dihedral_angle_4_deg 16.721 r_dihedral_angle_3_deg 15.298 r_dihedral_angle_1_deg 6.983 r_long_range_B_refined 4.841 r_long_range_B_other 4.841 r_scangle_other 2.67 r_mcangle_it 1.906 r_mcangle_other 1.906 r_scbond_it 1.723 r_scbond_other 1.723 r_angle_refined_deg 1.698 r_angle_other_deg 1.309 r_mcbond_it 1.215 r_mcbond_other 1.213 r_chiral_restr 0.079 r_bond_refined_d 0.01 r_gen_planes_refined 0.009 r_bond_other_d 0.001 r_gen_planes_other 0.001 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 r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 13872 Nucleic Acid Atoms Solvent Atoms 686 Heterogen Atoms 19
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling SHELXCD phasing HKL2Map phasing SHELXDE phasing BUCCANEER model building ARP/wARP model building Coot model building