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Engineering the active site of a GH43 glycoside hydrolase generates a biotechnologically significant enzyme that displays both endo- xylanase and exo-arabinofuranosidase activity
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3ZXJ PDB ENTRY 3ZXJ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7.5 0.1 M HEPES PH 7.5 22.5 % (W/V) PEG4000 0.1 M NACL
Crystal Properties Matthews coefficient Solvent content 2.06 40.3
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 65.38 α = 90 b = 52.97 β = 101.69 c = 146.87 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 CCD ADSC CCD 2009-05-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS APS 22-ID
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) 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 1.44 33.68 99.2 0.08 16.2 2.4 177611 2 8.08
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.44 1.47 98.3 0.17 9.8 2.4
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 3ZXJ 1.44 33.68 167521 8835 98.31 0.16853 0.16649 0.1658 0.20725 0.2066 RANDOM 11.592
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] 0.04 0.03 -0.07
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 30.333 r_dihedral_angle_2_deg 26.74 r_dihedral_angle_4_deg 12.273 r_dihedral_angle_3_deg 11.424 r_sphericity_bonded 8.034 r_dihedral_angle_1_deg 6.888 r_rigid_bond_restr 2.337 r_angle_refined_deg 1.476 r_chiral_restr 0.18 r_bond_refined_d 0.011
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 30.333 r_dihedral_angle_2_deg 26.74 r_dihedral_angle_4_deg 12.273 r_dihedral_angle_3_deg 11.424 r_sphericity_bonded 8.034 r_dihedral_angle_1_deg 6.888 r_rigid_bond_restr 2.337 r_angle_refined_deg 1.476 r_chiral_restr 0.18 r_bond_refined_d 0.011 r_gen_planes_refined 0.008 r_bond_other_d r_angle_other_deg r_gen_planes_other 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_mcbond_it r_mcbond_other r_mcangle_it r_mcangle_other r_scbond_it r_scbond_other r_scangle_it r_scangle_other r_long_range_B_refined r_long_range_B_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8338 Nucleic Acid Atoms Solvent Atoms 1016 Heterogen Atoms 104
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling PHASER phasing