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The mechanism by which arabinoxylanases can recognise highly decorated xylans
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5AK1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 293.15 1 M ammonium sulphate, 0.1 M Bis- Tris, 1 % PEG 3350 pH 5.5
Crystal Properties Matthews coefficient Solvent content 2.45 49.7
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 67.092 α = 90 b = 72.366 β = 90 c = 109.113 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 2011-10-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04-1 0.9173 Diamond I04-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 1.65 44.85 98.5 0.067 0.998 13 3.5 63523 1.5
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 1.65 1.68 99.4 0.651 1.6 3.6
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 5AK1 1.65 44.85 60345 3123 98.23 0.12459 0.12221 0.1351 0.16975 0.1802 RANDOM 19.594
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] 1.37 -0.9 -0.46
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 42.071 r_dihedral_angle_2_deg 32.774 r_dihedral_angle_4_deg 16.404 r_dihedral_angle_3_deg 11.908 r_sphericity_bonded 11.037 r_dihedral_angle_1_deg 6.247 r_long_range_B_refined 5.144 r_long_range_B_other 3.742 r_scangle_other 2.983 r_scbond_it 2.511
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 42.071 r_dihedral_angle_2_deg 32.774 r_dihedral_angle_4_deg 16.404 r_dihedral_angle_3_deg 11.908 r_sphericity_bonded 11.037 r_dihedral_angle_1_deg 6.247 r_long_range_B_refined 5.144 r_long_range_B_other 3.742 r_scangle_other 2.983 r_scbond_it 2.511 r_scbond_other 2.511 r_mcangle_other 2.211 r_mcangle_it 2.209 r_rigid_bond_restr 2.002 r_mcbond_it 1.732 r_mcbond_other 1.722 r_angle_refined_deg 1.564 r_angle_other_deg 1.022 r_chiral_restr 0.102 r_bond_refined_d 0.014 r_gen_planes_refined 0.007 r_bond_other_d 0.003 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
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3712 Nucleic Acid Atoms Solvent Atoms 579 Heterogen Atoms 28
Software Software Software Name Purpose REFMAC refinement Aimless data scaling MOLREP phasing XDS data reduction