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Crystal Structure of Blue Laccase from Trametes trogii complexed with p-methylbenzoate
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2QT6 Blue Laccase from Panus tigrinus (not yet deposited)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 296 PEG 8000, calcium acetate, PEG 400, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 296K
Crystal Properties Matthews coefficient Solvent content 3.67 66.45
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 84.385 α = 90 b = 85.128 β = 90 c = 108.561 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 CCD MARRESEARCH mirrors 2005-11-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE BW7B 0.8423 EMBL/DESY, HAMBURG BW7B
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 1.58 85.13 99.6 0.059 15.1 4.1 106985 16.515
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 1.58 1.67 98.6 0.32 3.2 3.3 15300
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) 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 THROUGHOUT Blue Laccase from Panus tigrinus (not yet deposited) 1.58 22.33 106932 101597 5334 99.49 0.17467 0.17375 0.1765 0.19215 0.1941 RANDOM 19.701
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] -0.18 -0.45 0.63
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.774 r_dihedral_angle_4_deg 18.958 r_dihedral_angle_3_deg 11.094 r_dihedral_angle_1_deg 6.151 r_scangle_it 2.165 r_scbond_it 1.504 r_angle_refined_deg 1.382 r_mcangle_it 1.004 r_mcbond_it 0.585 r_nbtor_refined 0.312
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.774 r_dihedral_angle_4_deg 18.958 r_dihedral_angle_3_deg 11.094 r_dihedral_angle_1_deg 6.151 r_scangle_it 2.165 r_scbond_it 1.504 r_angle_refined_deg 1.382 r_mcangle_it 1.004 r_mcbond_it 0.585 r_nbtor_refined 0.312 r_symmetry_vdw_refined 0.224 r_nbd_refined 0.209 r_symmetry_metal_ion_refined 0.161 r_metal_ion_refined 0.145 r_symmetry_hbond_refined 0.141 r_chiral_restr 0.13 r_xyhbond_nbd_refined 0.11 r_bond_refined_d 0.008 r_gen_planes_refined 0.008
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3755 Nucleic Acid Atoms Solvent Atoms 548 Heterogen Atoms 113
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling MOLREP phasing