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Crystal structure of SCLam E144S mutant, a non-specific endo-beta-1,3(4)-glucanase from family GH16, co-crystallized with 1,3-beta-D-cellotriosyl-glucose, presenting a 1,3-beta-D-cellobiosyl-glucose at active site
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6XOF
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 291 30 % PEG4000, 0.2 M magnesium chloride, and 0.1 M Tris
Crystal Properties Matthews coefficient Solvent content 1.85 33.45
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 38.692 α = 90 b = 49.868 β = 90 c = 114.474 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 PILATUS 2M 2015-03-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON LNLS BEAMLINE W01B-MX2 1.4583 LNLS W01B-MX2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) 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 1.58 45.72 97.2 0.084 0.094 0.042 0.989 13.9 5 30357
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.58 1.61 77.7 0.367 0.447 0.247 0.631 2.9
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 6XOF 1.58 45.72 28544 1487 96.26 0.1733 0.1714 0.2089 0.1927 RANDOM 10.568
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] -0.6 0.1 0.5
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.913 r_dihedral_angle_4_deg 16.066 r_dihedral_angle_3_deg 11.91 r_dihedral_angle_1_deg 8.093 r_angle_refined_deg 1.941 r_angle_other_deg 1.554 r_chiral_restr 0.097 r_bond_refined_d 0.016 r_gen_planes_refined 0.013 r_bond_other_d 0.001
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.913 r_dihedral_angle_4_deg 16.066 r_dihedral_angle_3_deg 11.91 r_dihedral_angle_1_deg 8.093 r_angle_refined_deg 1.941 r_angle_other_deg 1.554 r_chiral_restr 0.097 r_bond_refined_d 0.016 r_gen_planes_refined 0.013 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2023 Nucleic Acid Atoms Solvent Atoms 455 Heterogen Atoms 35
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing PDB_EXTRACT data extraction