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Crystal structure of Xyn11 double mutant L271S, K275H from Psedothermotoga thermarum
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 7NL2 7NL2
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 291 20% PEG 3350, 0.1M Bis-Tris pH 8.5, 0.2M Na formate
Crystal Properties Matthews coefficient Solvent content 2.53 51.48
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 90.324 α = 90 b = 95.549 β = 90 c = 101.344 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 6M KB focusing mirrors 2021-03-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALBA BEAMLINE XALOC 0.979185 ALBA XALOC
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rpim 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 2.1 47.77 99.9 0.064 0.031 0.999 15.8 5 51806
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.1 2.16 99.9 0.593 0.29 0.781 2.6 5.1
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 7NL2 2.1 44.81 49073 2674 99.77 0.1627 0.161 0.1706 0.196 0.2025 RANDOM 35.547
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] 1.75 -0.27 -1.48
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.184 r_dihedral_angle_4_deg 14.339 r_dihedral_angle_3_deg 13.578 r_dihedral_angle_1_deg 7.249 r_angle_refined_deg 1.469 r_angle_other_deg 1.338 r_chiral_restr 0.079 r_bond_refined_d 0.009 r_gen_planes_refined 0.007 r_bond_other_d 0.001
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.184 r_dihedral_angle_4_deg 14.339 r_dihedral_angle_3_deg 13.578 r_dihedral_angle_1_deg 7.249 r_angle_refined_deg 1.469 r_angle_other_deg 1.338 r_chiral_restr 0.079 r_bond_refined_d 0.009 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5602 Nucleic Acid Atoms Solvent Atoms 275 Heterogen Atoms 66
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction XDS data reduction XDS data scaling MOLREP phasing