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Crystal Structure of mutant M54L/M64L/M96L of Two-Domain Laccase from Streptomyces griseoflavus with 0.25 mM copper sulfate on growth medium
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5O3K
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 295 23% PEG 4000, 0.05M Tris-HCl
Crystal Properties Matthews coefficient Solvent content 2.04 39.72
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 76.841 α = 90.04 b = 94.85 β = 90.29 c = 116.614 γ = 91.49
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 PILATUS 6M-F 2016-10-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.1 0.9793 BESSY 14.1
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 1.9 50 95.69 6.8 3.4 235821
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 5O3K 1.9 50 235821 12501 95.69 0.18846 0.18718 0.1885 0.21309 0.2121 RANDOM 30.373
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] 0.74 -0.61 -0.08 -0.2 0.09 -0.5
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.197 r_sphericity_free 28.687 r_dihedral_angle_4_deg 16.915 r_rigid_bond_restr 15.469 r_dihedral_angle_3_deg 15.342 r_sphericity_bonded 13.72 r_dihedral_angle_1_deg 6.323 r_long_range_B_refined 4.98 r_long_range_B_other 4.98 r_mcangle_it 3.991
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.197 r_sphericity_free 28.687 r_dihedral_angle_4_deg 16.915 r_rigid_bond_restr 15.469 r_dihedral_angle_3_deg 15.342 r_sphericity_bonded 13.72 r_dihedral_angle_1_deg 6.323 r_long_range_B_refined 4.98 r_long_range_B_other 4.98 r_mcangle_it 3.991 r_mcangle_other 3.991 r_scangle_other 3.722 r_mcbond_other 2.923 r_mcbond_it 2.922 r_scbond_it 2.8 r_scbond_other 2.799 r_angle_other_deg 1.96 r_angle_refined_deg 1.119 r_chiral_restr 0.059 r_bond_refined_d 0.006 r_gen_planes_refined 0.004 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 25526 Nucleic Acid Atoms Solvent Atoms 751 Heterogen Atoms 66
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling PHASER phasing