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Semi-active E176Q mutant of rice BGlu1, a plant exoglucanase/beta-glucosidase
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1CBG PDB ENTRY 1CBG
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.7 288 22% PEG MME 5000, 0.18M ammonium sulfate, 0.1M MES, pH 6.7, VAPOR DIFFUSION, HANGING DROP, temperature 288K
Crystal Properties Matthews coefficient Solvent content 2.34 47.46
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 79.731 α = 90 b = 100.843 β = 90 c = 127.472 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 105 CCD ADSC QUANTUM 315 2007-03-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSRRC BEAMLINE BL13C1 0.98 NSRRC BL13C1
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 1.95 30 97.4 0.083 19.18 6.3 73603
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) 1.95 2.02 93.7 0.292 6.91 5.8 6964
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 PDB ENTRY 1CBG 1.95 23.84 69743 3611 97.21 0.17993 0.17817 0.1801 0.21365 0.2159 Copy R-free from 2RGL 10.214
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.175 r_dihedral_angle_4_deg 22.102 r_dihedral_angle_3_deg 12.959 r_dihedral_angle_1_deg 6.351 r_scangle_it 3.452 r_scbond_it 2.32 r_angle_refined_deg 1.585 r_mcangle_it 1.34 r_mcbond_it 0.875 r_nbtor_refined 0.311
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.175 r_dihedral_angle_4_deg 22.102 r_dihedral_angle_3_deg 12.959 r_dihedral_angle_1_deg 6.351 r_scangle_it 3.452 r_scbond_it 2.32 r_angle_refined_deg 1.585 r_mcangle_it 1.34 r_mcbond_it 0.875 r_nbtor_refined 0.311 r_symmetry_vdw_refined 0.215 r_nbd_refined 0.201 r_chiral_restr 0.169 r_symmetry_hbond_refined 0.164 r_xyhbond_nbd_refined 0.148 r_bond_refined_d 0.018 r_gen_planes_refined 0.007 r_metal_ion_refined 0.004 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 r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7618 Nucleic Acid Atoms Solvent Atoms 727 Heterogen Atoms 125
Software Software Software Name Purpose HKL-2000 data collection AMoRE phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling