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Structure of GH1 Br2 beta-glucosidase from bovine rumen metagenome
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other E350G mutant
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.4 277 0.1M sodium acetate trihydrate pH 7.4,
1.6M ammonium sulfate
Crystal Properties Matthews coefficient Solvent content 2.62 53
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 105.701 α = 90 b = 113.873 β = 90 c = 181.865 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 315r 2018-06-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSRRC BEAMLINE BL13C1 0.976 NSRRC BL13C1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym I (Observed) Rrim I (All) CC (Half) 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 1.999 48.26 91.4 0.073 0.083 0.998 12.03 4.6 135781 45.447
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Rrim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.999 2.12 97.1 0.725 0.821 0.645 1.76 4.3
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-Work (Depositor) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 1.999 48.26 133972 1979 90.33 0.2329 0.2651 0.2602 43.22
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] 0.384 0.374 -0.758
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 14.549 r_dihedral_angle_3_deg 13.008 r_dihedral_angle_1_deg 6.516 r_dihedral_angle_2_deg 5.035 r_lrange_it 4.723 r_lrange_other 4.723 r_scangle_it 3.451 r_scangle_other 3.435 r_mcangle_it 3.06 r_mcangle_other 3.06
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 14.549 r_dihedral_angle_3_deg 13.008 r_dihedral_angle_1_deg 6.516 r_dihedral_angle_2_deg 5.035 r_lrange_it 4.723 r_lrange_other 4.723 r_scangle_it 3.451 r_scangle_other 3.435 r_mcangle_it 3.06 r_mcangle_other 3.06 r_scbond_it 2.182 r_scbond_other 2.162 r_mcbond_it 2.044 r_mcbond_other 2.044 r_angle_refined_deg 0.965 r_angle_other_deg 0.349 r_nbd_refined 0.213 r_symmetry_xyhbond_nbd_refined 0.194 r_symmetry_nbd_other 0.187 r_nbtor_refined 0.187 r_nbd_other 0.16 r_xyhbond_nbd_refined 0.139 r_symmetry_nbd_refined 0.087 r_symmetry_nbtor_other 0.074 r_chiral_restr 0.048 r_symmetry_xyhbond_nbd_other 0.04 r_gen_planes_refined 0.004 r_bond_refined_d 0.003 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 14482 Nucleic Acid Atoms Solvent Atoms 132 Heterogen Atoms 74
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling PHENIX phasing