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Thermus thermophilus HB27 laccase (Tth-Lac) mutant with partial deletion of beta-hairpin sequence
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2XU9
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 293 0.1M MES (pH6.5), 12% PEG 20K
Crystal Properties Matthews coefficient Solvent content 2.6 52.69
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 51.927 α = 90 b = 66.032 β = 100.14 c = 74.057 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 100 PIXEL DECTRIS EIGER X 9M 2022-08-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CLSI BEAMLINE 08ID-1 0.95371 CLSI 08ID-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) 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 1.6 66.03 99.9 0.184 0.218 0.116 0.993 7.2 6.9 65047
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.6 1.63 99.8 2.33 2.789 1.515 0.464 1.7 6.7
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 1.6 51.17 61869 3149 99.92 0.15484 0.15346 0.1646 0.18152 0.1885 RANDOM 17.78
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] 0.43 0.55 -0.1 -0.5
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 12.339 r_dihedral_angle_1_deg 7.56 r_long_range_B_other 7.466 r_long_range_B_refined 7.465 r_dihedral_angle_2_deg 6.901 r_scangle_other 5.18 r_scbond_it 3.326 r_scbond_other 3.326 r_mcangle_other 2.634 r_mcangle_it 2.631
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 12.339 r_dihedral_angle_1_deg 7.56 r_long_range_B_other 7.466 r_long_range_B_refined 7.465 r_dihedral_angle_2_deg 6.901 r_scangle_other 5.18 r_scbond_it 3.326 r_scbond_other 3.326 r_mcangle_other 2.634 r_mcangle_it 2.631 r_angle_refined_deg 1.853 r_mcbond_it 1.809 r_mcbond_other 1.8 r_angle_other_deg 0.631 r_chiral_restr 0.092 r_bond_refined_d 0.012 r_gen_planes_refined 0.01 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_dihedral_angle_4_deg 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 3364 Nucleic Acid Atoms Solvent Atoms 477 Heterogen Atoms 29
Software Software Software Name Purpose REFMAC refinement DIALS data reduction Aimless data scaling PHASER phasing