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Structure of the PQQ-bound form of Aldose Sugar Dehydrogenase (Adh) from Streptomyces coelicolor
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 289 0.1M HEPES, 20% PEG 6000, 0.1M calcium chloride, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 289K
Crystal Properties Matthews coefficient Solvent content 2.36 47.9
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 49.033 α = 90 b = 41.26 β = 93.58 c = 85.931 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 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID29 0.9184 ESRF ID29
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.6 50 95.2 43328 43328
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Cut-off Sigma (F) 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 SAD THROUGHOUT 1.6 48.91 2 41068 2249 94.89 0.13378 0.13238 0.1316 0.15939 0.1578 RANDOM 10.734
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] -0.03 -0.05 0.31 -0.29
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.28 r_dihedral_angle_4_deg 18.794 r_dihedral_angle_3_deg 10.634 r_dihedral_angle_1_deg 6.036 r_sphericity_free 2.455 r_scangle_it 2.086 r_sphericity_bonded 1.442 r_scbond_it 1.434 r_angle_refined_deg 1.28 r_mcangle_it 0.956
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.28 r_dihedral_angle_4_deg 18.794 r_dihedral_angle_3_deg 10.634 r_dihedral_angle_1_deg 6.036 r_sphericity_free 2.455 r_scangle_it 2.086 r_sphericity_bonded 1.442 r_scbond_it 1.434 r_angle_refined_deg 1.28 r_mcangle_it 0.956 r_rigid_bond_restr 0.816 r_mcbond_it 0.646 r_nbtor_refined 0.309 r_nbd_refined 0.192 r_symmetry_vdw_refined 0.174 r_symmetry_hbond_refined 0.168 r_xyhbond_nbd_refined 0.129 r_chiral_restr 0.083 r_metal_ion_refined 0.039 r_bond_refined_d 0.008 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_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2771 Nucleic Acid Atoms Solvent Atoms 490 Heterogen Atoms 78
Software Software Software Name Purpose REFMAC refinement MAR345dtb data collection MOSFLM data reduction SCALA data scaling MLPHARE phasing