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Crystal structure of versatile peroxidase
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6.5 CRYST9 MG/ML PROTEIN, 10 MM SODIUM TARTRATE PH=5.5 17% PEG10000, 200MM ZN ACETATE, 100 MM SODIUM CACODYLATE PH=6.5, pH 6.50
Crystal Properties Matthews coefficient Solvent content 2.6 53
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 62.799 α = 90 b = 62.799 β = 90 c = 98.222 γ = 90
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 2003-02-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06SA SLS X06SA
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 1.33 80 98.8 0.08 10.4 4.3 86158 1.5
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 1.33 1.38 96.4 0.48 2.86 3.9
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 1.33 63.25 81833 4321 98.9 0.16 0.159 0.1806 0.182 0.2002 RANDOM 19.89
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] -0.12 -0.12 0.23
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.752 r_scangle_it 4.146 r_scbond_it 2.794 r_mcangle_it 1.859 r_angle_refined_deg 1.796 r_mcbond_it 1.065 r_symmetry_hbond_refined 0.268 r_xyhbond_nbd_refined 0.233 r_symmetry_vdw_refined 0.224 r_nbd_refined 0.205
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.752 r_scangle_it 4.146 r_scbond_it 2.794 r_mcangle_it 1.859 r_angle_refined_deg 1.796 r_mcbond_it 1.065 r_symmetry_hbond_refined 0.268 r_xyhbond_nbd_refined 0.233 r_symmetry_vdw_refined 0.224 r_nbd_refined 0.205 r_chiral_restr 0.117 r_bond_refined_d 0.016 r_gen_planes_refined 0.009 r_bond_other_d r_angle_other_deg r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg r_gen_planes_other r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2361 Nucleic Acid Atoms Solvent Atoms 384 Heterogen Atoms 59
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling AMoRE phasing