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Laccase from Streptomyces coelicolor
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 9 298 39 % (v/v) PEG monomethyl ether 550, 0.1 M NaCl, 0.1 M glycine, pH 9.0; 2:1 protein:reservoir ratio in a drop; data from this crystal were used for structure refinement, VAPOR DIFFUSION, HANGING DROP, temperature 298K 2 VAPOR DIFFUSION, HANGING DROP 7 298 45 % (w/v) Jeffamine ED-2001, pH 7.0, 0.05 M HEPES, pH 7.0; data from this crystal were consulted during structure refinement but not used as refinement target, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 180.868 α = 90 b = 180.868 β = 90 c = 177.111 γ = 90
Symmetry Space Group P 43 21 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 MARMOSAIC 225 mm CCD Si(111) monochromator and mirrors 2007-02-22 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE BM14 1.3775, 1.380, 0.954 ESRF BM14
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 2.65 50 94.1 0.095 0.095 11.6 17 80263 80263 -999 -999 61
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2.65 2.74 70.6 0.64 0.64 9.4 15.3 5942
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 MAD THROUGHOUT 2.679 28.54 78462 78462 1569 96.89 0.172 0.172 0.172 0.1744 0.194 0.1813 RANDOM 29.146
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 -0.18 0.36
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.255 r_dihedral_angle_4_deg 19.615 r_dihedral_angle_3_deg 15.368 r_dihedral_angle_1_deg 6.61 r_scangle_it 2.93 r_scbond_it 2.067 r_angle_refined_deg 1.558 r_mcangle_it 1.321 r_mcbond_it 1.172 r_angle_other_deg 0.886
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.255 r_dihedral_angle_4_deg 19.615 r_dihedral_angle_3_deg 15.368 r_dihedral_angle_1_deg 6.61 r_scangle_it 2.93 r_scbond_it 2.067 r_angle_refined_deg 1.558 r_mcangle_it 1.321 r_mcbond_it 1.172 r_angle_other_deg 0.886 r_nbd_other 0.209 r_nbd_refined 0.191 r_nbtor_refined 0.186 r_xyhbond_nbd_refined 0.172 r_symmetry_vdw_refined 0.146 r_mcbond_other 0.146 r_metal_ion_refined 0.113 r_symmetry_vdw_other 0.112 r_symmetry_hbond_refined 0.105 r_chiral_restr 0.092 r_nbtor_other 0.092 r_bond_refined_d 0.016 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6321 Nucleic Acid Atoms Solvent Atoms 360 Heterogen Atoms 71
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction MxCuBE data collection HKL-2000 data reduction HKL-2000 data scaling SHELX phasing SHELXD phasing SHELXE model building