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Crystal structure of the GH12 domain from Acidothermus cellulolyticus GuxA bound to cellobiose
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3B7M PDB entry 3B7M
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 298 10% PEG8000, 0.2 M zinc chloride, 0.1 M sodium cacodylate
Crystal Properties Matthews coefficient Solvent content 3.14 60.82
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 66.235 α = 90 b = 66.235 β = 90 c = 127.176 γ = 120
Symmetry Space Group P 31 2 1
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 Bruker Platinum 135 2008-02-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE BRUKER X8 PROTEUM 1.542
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) 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 1.85 34.1 99.7 0.038 0.998 17.2 1.9 28178
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.85 1.89 95.5 0.292 0.755 2.8 1.7
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE PDB entry 3B7M 1.85 34.1 28165 1418 99.565 0.134 0.1328 0.1473 0.1649 0.1771 13.253
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] -0.156 -0.078 -0.156 0.506
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.094 r_dihedral_angle_4_deg 24.322 r_dihedral_angle_1_deg 15.337 r_dihedral_angle_3_deg 11.494 r_dihedral_angle_other_3_deg 7.112 r_lrange_it 5.377 r_lrange_other 5.376 r_scangle_it 2.767 r_scangle_other 2.766 r_mcangle_it 1.966
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.094 r_dihedral_angle_4_deg 24.322 r_dihedral_angle_1_deg 15.337 r_dihedral_angle_3_deg 11.494 r_dihedral_angle_other_3_deg 7.112 r_lrange_it 5.377 r_lrange_other 5.376 r_scangle_it 2.767 r_scangle_other 2.766 r_mcangle_it 1.966 r_mcangle_other 1.965 r_scbond_it 1.901 r_scbond_other 1.9 r_angle_refined_deg 1.776 r_angle_other_deg 1.61 r_mcbond_it 1.307 r_mcbond_other 1.279 r_symmetry_nbd_refined 0.442 r_nbd_other 0.344 r_symmetry_xyhbond_nbd_refined 0.241 r_nbd_refined 0.223 r_symmetry_nbd_other 0.194 r_xyhbond_nbd_refined 0.188 r_metal_ion_refined 0.176 r_nbtor_refined 0.167 r_symmetry_nbtor_other 0.089 r_chiral_restr 0.085 r_symmetry_metal_ion_refined 0.018 r_bond_refined_d 0.012 r_gen_planes_refined 0.011 r_gen_planes_other 0.002 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1773 Nucleic Acid Atoms Solvent Atoms 328 Heterogen Atoms 45
Software Software Software Name Purpose REFMAC refinement PROTEUM PLUS data reduction PROTEUM PLUS data scaling MOLREP phasing