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Structure of beta-glycosidase from Acidilobus saccharovorans in complex with glycerol
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 293 Protein solution (1.5mcl): 13mg/ml Asbeta-Gly, 0.025M NaCl, 0.025M Hepes (pH 7.5). Reservoir solution (1.5mcl): 1.0M succinic acid (pH 7.0), 0.1M Hepes (pH 7.0), 1% w/v polyethylene glycol monomethyl ether 2000. The crystal was soaked in a cryoprotection solution containing 20% v/v glycerol., VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.65 53.62
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 84.12 α = 90 b = 84.12 β = 90 c = 166.27 γ = 90
Symmetry Space Group P 42 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 MAR CCD 165 mm 2010-06-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON KURCHATOV SNC BEAMLINE K4.4 0.9815 KURCHATOV SNC K4.4
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 1.37 19.827 98.8 0.063 17.2 124046 20.1
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 1.37 1.45 96.5 0.81 2.1 18722
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 1.37 19.827 117803 6243 98.83 0.13213 0.13049 0.1296 0.16333 0.1621 RANDOM 15.182
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 -0.27 0.55
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.875 r_dihedral_angle_4_deg 15.576 r_dihedral_angle_3_deg 12.343 r_sphericity_free 7.943 r_dihedral_angle_1_deg 6.226 r_scangle_it 3.974 r_sphericity_bonded 3.704 r_scbond_it 2.945 r_mcangle_it 2.075 r_angle_refined_deg 1.559
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.875 r_dihedral_angle_4_deg 15.576 r_dihedral_angle_3_deg 12.343 r_sphericity_free 7.943 r_dihedral_angle_1_deg 6.226 r_scangle_it 3.974 r_sphericity_bonded 3.704 r_scbond_it 2.945 r_mcangle_it 2.075 r_angle_refined_deg 1.559 r_mcbond_it 1.478 r_rigid_bond_restr 1.387 r_angle_other_deg 0.927 r_mcbond_other 0.722 r_chiral_restr 0.114 r_bond_refined_d 0.015 r_gen_planes_refined 0.009 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3909 Nucleic Acid Atoms Solvent Atoms 543 Heterogen Atoms 72
Software Software Software Name Purpose AUTOMAR data collection BALBES phasing REFMAC refinement XDS data reduction XSCALE data scaling