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Small laccase from Streptomyces viridosporus T7A
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3CG8
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.5 282 Protein concentration was 20 mg/mL, containing 50 mM Hepes-K+ (pH 8.0), and 100 mM KCl; the precipitant contained 2.0 M Li2SO4, 5% polyethylene glycol 400, 100 mM MgSO4, 100 mM acetate, VAPOR DIFFUSION, HANGING DROP, temperature 282K
Crystal Properties Matthews coefficient Solvent content 3.18 61.31
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 102.3 α = 90 b = 157.18 β = 90 c = 162.33 γ = 90
Symmetry Space Group I 2 2 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD RAYONIX MX-300 2010-07-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-G 0.97857 APS 21-ID-G
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 2.3 20 99.8 0.221 10.51 58365 58241 -3 28.668
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.3 2.36 99.9 0.842 2.02
Refinement Statistics Diffraction ID Structure Solution Method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (All) 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 3CG8 2.3 19.692 1.99 58365 58235 2911 99.98 0.149 0.1467 0.1479 0.1929 0.1928 random 23.2416
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] 0.4003 -0.4838 0.0835
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 15.365 f_angle_d 1.269 f_chiral_restr 0.1 f_bond_d 0.008 f_plane_restr 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6918 Nucleic Acid Atoms Solvent Atoms 615 Heterogen Atoms 148
Software Software Software Name Purpose XSCALE data scaling PHENIX refinement PDB_EXTRACT data extraction HKL-2000 data collection XDS data reduction PHASER phasing