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Crystal structure of Thermothelomyces thermophila (double mutant EE) in complex with aldotetrauronic acid
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 7NCX
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 Na/K Tartrate, PEG3350
Crystal Properties Matthews coefficient Solvent content 1.86 33.98
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 41.203 α = 90 b = 107.129 β = 95.75 c = 87.781 γ = 90
Symmetry Space Group P 1 21 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 120 PIXEL DECTRIS PILATUS3 S 6M 2022-03-30 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.1 0.9184 BESSY 14.1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.37 45.66 99 0.999 14.3 6.7 156777
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.37 1.39 0.546
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-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 1.37 45.7 148952 7771 98.89 0.16436 0.16317 0.1727 0.18743 0.1939 RANDOM 17.2
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] 0.59 -0.09 -0.01 -0.56
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.541 r_dihedral_angle_4_deg 19.441 r_dihedral_angle_3_deg 11.876 r_dihedral_angle_1_deg 6.843 r_long_range_B_other 4.531 r_long_range_B_refined 4.53 r_scangle_other 2.852 r_scbond_it 1.925 r_scbond_other 1.925 r_mcangle_it 1.852
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.541 r_dihedral_angle_4_deg 19.441 r_dihedral_angle_3_deg 11.876 r_dihedral_angle_1_deg 6.843 r_long_range_B_other 4.531 r_long_range_B_refined 4.53 r_scangle_other 2.852 r_scbond_it 1.925 r_scbond_other 1.925 r_mcangle_it 1.852 r_mcangle_other 1.852 r_angle_refined_deg 1.615 r_angle_other_deg 1.52 r_mcbond_it 1.274 r_mcbond_other 1.269 r_chiral_restr 0.078 r_bond_refined_d 0.01 r_gen_planes_refined 0.009 r_gen_planes_other 0.002 r_bond_other_d 0.001 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 r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6652 Nucleic Acid Atoms Solvent Atoms 859 Heterogen Atoms 191
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing