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Structure of the E242A mutant of the alpha-l-arabinofuranosidase arb93a from fusarium graminearum in complex with an iminosugar inhibitor
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2W5N PDB ENTRY 2W5N
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6.5 20% PEG 8000, 100 MM SODIUM CACODYLATE PH 6.5, 200 MM LISO4, 20% GLYCEROL AS CYOPROTECTANT.
Crystal Properties Matthews coefficient Solvent content 2.22 44.64
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 56.93 α = 90.14 b = 57.8 β = 93.55 c = 91.6 γ = 114.5
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 2009-06-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-4 ESRF ID14-4
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 1.85 35.47 95.2 0.1 5.5 2 86184 1.8
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 1.85 1.95 95.2 0.37 1.8 2
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 PDB ENTRY 2W5N 1.85 33.97 81852 4325 95.2 0.174 0.171 0.226 0.2422 RANDOM 21.56
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] -0.27 -1.25 -0.26 0.28 -0.5 -1.08
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.626 r_dihedral_angle_4_deg 14.387 r_dihedral_angle_3_deg 14.166 r_dihedral_angle_1_deg 6.984 r_scangle_it 3.169 r_scbond_it 2.047 r_angle_refined_deg 1.528 r_mcangle_it 1.31 r_mcbond_it 0.76 r_nbtor_refined 0.314
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.626 r_dihedral_angle_4_deg 14.387 r_dihedral_angle_3_deg 14.166 r_dihedral_angle_1_deg 6.984 r_scangle_it 3.169 r_scbond_it 2.047 r_angle_refined_deg 1.528 r_mcangle_it 1.31 r_mcbond_it 0.76 r_nbtor_refined 0.314 r_nbd_refined 0.198 r_symmetry_hbond_refined 0.189 r_xyhbond_nbd_refined 0.135 r_metal_ion_refined 0.113 r_chiral_restr 0.101 r_bond_refined_d 0.014 r_gen_planes_refined 0.008 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8550 Nucleic Acid Atoms Solvent Atoms 964 Heterogen Atoms 57
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling PHASER phasing