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Structure of beta-glycosidase from Acidilobus saccharovorans in complex with Tris
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1GOW
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 293 Protein solution (1.5mcl): 15mg/ml Asbeta-Gly, 0.025M NaCl, 0.05M Tris (pH 8.0). Reservoir solution (1.5mcl): 0.04M cellobiose, 0.16M magnesium acetate, 0.08M sodium cacodylate (pH 6.5), 16% w/v polyethylene glycol 8000, 20% v/v glycerol., VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.65 53.67
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 84.18 α = 90 b = 84.18 β = 90 c = 166.22 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 0.9779 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 1.46 19.841 98 0.063 26.8 102050 102050 20.3
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 1.46 1.55 91.1 0.519 4.5 15340
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 1gow 1.46 19.841 96870 5109 97.96 0.14394 0.14314 0.1429 0.15886 0.1595 RANDOM 14.262
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] -0.26 -0.26 0.51
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.266 r_dihedral_angle_4_deg 16.422 r_dihedral_angle_3_deg 11.759 r_dihedral_angle_1_deg 6.175 r_scangle_it 3.081 r_scbond_it 1.975 r_angle_refined_deg 1.531 r_mcangle_it 1.337 r_angle_other_deg 0.882 r_mcbond_it 0.774
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.266 r_dihedral_angle_4_deg 16.422 r_dihedral_angle_3_deg 11.759 r_dihedral_angle_1_deg 6.175 r_scangle_it 3.081 r_scbond_it 1.975 r_angle_refined_deg 1.531 r_mcangle_it 1.337 r_angle_other_deg 0.882 r_mcbond_it 0.774 r_mcbond_other 0.228 r_chiral_restr 0.099 r_bond_refined_d 0.015 r_gen_planes_refined 0.008 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3906 Nucleic Acid Atoms Solvent Atoms 516 Heterogen Atoms 38
Software Software Software Name Purpose AUTOMAR data collection BALBES phasing REFMAC refinement XDS data reduction XSCALE data scaling