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Crystal Structure of mutant M54L/M64L/M96L of Two-Domain Laccase from Streptomyces griseoflavus dialyzed against solution containing 0.25 mM copper sulfate
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 39.84
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 76.933 α = 90.08 b = 94.931 β = 90.2 c = 116.587 γ = 91.65
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 0.9687 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 1.8 50 92.6 6.81 2.07 283032
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 1.8 50 269038 13997 92.59 0.17958 0.17741 0.1856 0.2215 0.2247 RANDOM 27.15
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] 0.89 -0.45 -0.11 0.2 -0.18 -1.07
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.122 r_dihedral_angle_4_deg 15.1 r_dihedral_angle_3_deg 14.12 r_dihedral_angle_1_deg 7.072 r_long_range_B_refined 4.883 r_long_range_B_other 4.883 r_scangle_other 3.587 r_mcangle_it 2.95 r_mcangle_other 2.95 r_scbond_it 2.495
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.122 r_dihedral_angle_4_deg 15.1 r_dihedral_angle_3_deg 14.12 r_dihedral_angle_1_deg 7.072 r_long_range_B_refined 4.883 r_long_range_B_other 4.883 r_scangle_other 3.587 r_mcangle_it 2.95 r_mcangle_other 2.95 r_scbond_it 2.495 r_scbond_other 2.489 r_mcbond_it 2.143 r_mcbond_other 2.142 r_angle_refined_deg 1.769 r_angle_other_deg 0.859 r_chiral_restr 0.108 r_bond_refined_d 0.017 r_gen_planes_refined 0.009 r_bond_other_d 0.002 r_gen_planes_other 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 25585 Nucleic Acid Atoms Solvent Atoms 924 Heterogen Atoms 314
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling PHASER phasing