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crystal structure of barley beta-D-glucan glucohydrolase isoenzyme exo1 in complex with gluco-phenylimidazole
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1LQ2 PDB ENTRY 1LQ2
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 277 AMMONIUM SULPHATE, PEG 400, SODIUM ACETATE, HEPES-NAOH, pH 7.00, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 3.542479 65.278549
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 100.558 α = 90 b = 100.558 β = 90 c = 182.414 γ = 90
Symmetry Space Group P 43 21 2
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 MARRESEARCH bent cylindrical Si-mirror 2004-03-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 14-ID-B 1.127 APS 14-ID-B
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 1.7 34.3 99.81 0.054 42.3 12.8 103335 98154 26.7
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 1.7 1.76 98.6 0.631 3.4
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 1LQ2 1.698 34.3 103322 98154 5168 99.81 0.16104 0.1599 0.15988 0.1575 0.18301 0.1816 RANDOM 38.787
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] -0.39 -0.39 0.79
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.316 r_dihedral_angle_4_deg 16.085 r_dihedral_angle_3_deg 12.712 r_dihedral_angle_1_deg 5.9 r_scangle_it 2.731 r_scbond_it 1.804 r_angle_refined_deg 1.326 r_mcangle_it 0.986 r_mcbond_it 0.638 r_nbtor_refined 0.308
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.316 r_dihedral_angle_4_deg 16.085 r_dihedral_angle_3_deg 12.712 r_dihedral_angle_1_deg 5.9 r_scangle_it 2.731 r_scbond_it 1.804 r_angle_refined_deg 1.326 r_mcangle_it 0.986 r_mcbond_it 0.638 r_nbtor_refined 0.308 r_symmetry_vdw_refined 0.219 r_symmetry_hbond_refined 0.217 r_nbd_refined 0.2 r_xyhbond_nbd_refined 0.127 r_chiral_restr 0.095 r_bond_refined_d 0.011 r_gen_planes_refined 0.005 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_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4566 Nucleic Acid Atoms Solvent Atoms 931 Heterogen Atoms 217
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling CCP4 model building REFMAC refinement CCP4 phasing