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Crystal Structure of engineered Beta-Glucosidase from Soil metagenome
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1OIM PDB code 1OIM
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 295 Na/K tartrate, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.07 40.52
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 70.331 α = 90 b = 71.002 β = 90 c = 86.978 γ = 90
Symmetry Space Group P 21 21 21
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 QUANTUM 210 2008-01-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PAL/PLS BEAMLINE 6C1 1.23986 PAL/PLS 6C1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 1.6 20 94 0.062 35.57 5 54735 1 1
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.6 1.66 0.186 2.3
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 Selection Details Mean Isotropic B X-RAY DIFFRACTION THROUGHOUT PDB code 1OIM 1.6 20 54699 2756 94.16 0.165 0.163 0.1641 0.198 RANDOM 15.931
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] -0.35 0.5 -0.14
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.097 r_dihedral_angle_4_deg 18.971 r_dihedral_angle_1_deg 12.877 r_dihedral_angle_3_deg 12.591 r_scangle_it 3.108 r_scbond_it 1.895 r_angle_refined_deg 1.341 r_mcangle_it 1.118 r_mcbond_it 0.58 r_nbtor_refined 0.31
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.097 r_dihedral_angle_4_deg 18.971 r_dihedral_angle_1_deg 12.877 r_dihedral_angle_3_deg 12.591 r_scangle_it 3.108 r_scbond_it 1.895 r_angle_refined_deg 1.341 r_mcangle_it 1.118 r_mcbond_it 0.58 r_nbtor_refined 0.31 r_symmetry_vdw_refined 0.215 r_nbd_refined 0.211 r_chiral_restr 0.128 r_xyhbond_nbd_refined 0.107 r_symmetry_hbond_refined 0.095 r_metal_ion_refined 0.091 r_symmetry_metal_ion_refined 0.074 r_bond_refined_d 0.01 r_gen_planes_refined 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3531 Nucleic Acid Atoms Solvent Atoms 367 Heterogen Atoms 32
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data collection HKL-2000 data reduction HKL-2000 data scaling PHASES phasing