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GH124 cellulase from Ruminiclostridium thermocellum in complex with Mn and fructosylated cellopentaose
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2XQO
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5 293 Tacsimate, PEG 3350, Manganese (II) acetate
Crystal Properties Matthews coefficient Solvent content 2.01 38.87
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 71.14 α = 90 b = 74.173 β = 90 c = 77.328 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 PIXEL DECTRIS PILATUS3 S 6M 2016-04-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I02 0.98 Diamond I02
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 0.99 74.17 95.3 12.6 5.6 1203487 215828
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 0.99 1.01 62 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 MOLECULAR REPLACEMENT THROUGHOUT 2XQO 0.99 53.59 204772 10962 95.13 0.13138 0.13051 0.13 0.14734 RANDOM 11.953
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] -1.04 1.38 -0.34
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.624 r_sphericity_free 22.973 r_dihedral_angle_4_deg 18.961 r_sphericity_bonded 12.438 r_dihedral_angle_3_deg 11.888 r_dihedral_angle_1_deg 5.952 r_long_range_B_refined 5.023 r_long_range_B_other 4.876 r_scangle_other 4.844 r_scbond_it 3.903
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.624 r_sphericity_free 22.973 r_dihedral_angle_4_deg 18.961 r_sphericity_bonded 12.438 r_dihedral_angle_3_deg 11.888 r_dihedral_angle_1_deg 5.952 r_long_range_B_refined 5.023 r_long_range_B_other 4.876 r_scangle_other 4.844 r_scbond_it 3.903 r_scbond_other 3.902 r_rigid_bond_restr 3.83 r_angle_refined_deg 1.887 r_mcangle_it 1.406 r_mcangle_other 1.406 r_angle_other_deg 1.132 r_mcbond_other 1.09 r_mcbond_it 1.085 r_chiral_restr 0.114 r_bond_refined_d 0.016 r_gen_planes_refined 0.012 r_bond_other_d 0.002 r_gen_planes_other 0.002 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3412 Nucleic Acid Atoms Solvent Atoms 461 Heterogen Atoms 196
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling MOLREP phasing