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Crystal structure of XEG5B, a GH5 xyloglucan-specific beta-1,4-glucanase from ruminal metagenomic library, in the native form
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.5 291 ammonium sulfate, sodium citrate, glycerol
Crystal Properties Matthews coefficient Solvent content 2.92 57.88
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 120.951 α = 90 b = 120.951 β = 90 c = 59.03 γ = 120
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD MARMOSAIC 225 mm CCD 2014-01-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON LNLS BEAMLINE W01B-MX2 0.954 LNLS W01B-MX2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) 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 1.72 50 96.9 0.044 0.046 45.99 10.6 50907 -3 17.562
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Rrim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.72 1.82 83.9 0.172
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 MIR THROUGHOUT 1.72 42.28 49509 2651 95.92 0.1075 0.1054 0.1024 0.1488 0.1436 RANDOM 11.214
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] 0.26 0.26 0.26 -0.86
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.296 r_sphericity_free 23.954 r_dihedral_angle_4_deg 20.117 r_dihedral_angle_3_deg 12.735 r_sphericity_bonded 7.927 r_dihedral_angle_1_deg 6.25 r_rigid_bond_restr 4.813 r_mcangle_it 1.925 r_angle_refined_deg 1.849 r_mcbond_it 1.709
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.296 r_sphericity_free 23.954 r_dihedral_angle_4_deg 20.117 r_dihedral_angle_3_deg 12.735 r_sphericity_bonded 7.927 r_dihedral_angle_1_deg 6.25 r_rigid_bond_restr 4.813 r_mcangle_it 1.925 r_angle_refined_deg 1.849 r_mcbond_it 1.709 r_mcbond_other 1.709 r_angle_other_deg 0.943 r_chiral_restr 0.132 r_bond_refined_d 0.02 r_gen_planes_refined 0.011 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3012 Nucleic Acid Atoms Solvent Atoms 493 Heterogen Atoms 38
Software Software Software Name Purpose XDS data scaling REFMAC refinement PDB_EXTRACT data extraction XSCALE data scaling