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Reduced Native Intermediate of the Multicopper Oxidase CueO
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1KV7 PDB entry 1KV7
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.6 293 16% POLYETHYLENE GLYCOL 4000, 0.2 M AMMONIUM ACETATE,
0.1 M SODIUM ACETATE, pH 4.6, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.2 44.04
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 50.173 α = 90 b = 91.375 β = 102.22 c = 54.328 γ = 90
Symmetry Space Group P 1 21 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 IMAGE PLATE RIGAKU RAXIS IV++ Osmic Confocal Blue 2007-03-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RUH3R 1.5418
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 1.5 53.07 96 0.055 9.8 2.3 73797 73797
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 1.5 1.55 93 0.338 2.2 1.9 7106
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 THROUGHOUT PDB entry 1KV7 1.5 24.35 73702 69981 3721 96.4 0.20774 0.2059 0.2148 0.24226 0.2491 RANDOM 22.68
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] -0.13 -0.69 -0.45 0.29
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.75 r_dihedral_angle_4_deg 21.851 r_dihedral_angle_3_deg 12.761 r_dihedral_angle_1_deg 6.676 r_scangle_it 3.573 r_scbond_it 2.304 r_angle_refined_deg 1.54 r_mcangle_it 1.431 r_angle_other_deg 0.919 r_mcbond_it 0.845
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.75 r_dihedral_angle_4_deg 21.851 r_dihedral_angle_3_deg 12.761 r_dihedral_angle_1_deg 6.676 r_scangle_it 3.573 r_scbond_it 2.304 r_angle_refined_deg 1.54 r_mcangle_it 1.431 r_angle_other_deg 0.919 r_mcbond_it 0.845 r_mcbond_other 0.254 r_chiral_restr 0.089 r_bond_refined_d 0.014 r_gen_planes_refined 0.007 r_bond_other_d 0.001 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3640 Nucleic Acid Atoms Solvent Atoms 579 Heterogen Atoms 10
Software Software Software Name Purpose CrystalClear data collection REFMAC refinement CrystalClear data reduction CrystalClear data scaling