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Crystal structure of the complex of goat lactoperoxidase with hypothiocyanite at 3.3 A resolution
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2OJV
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.6 280 0.2 M Ammonium Formate 20%w/v PEG 3350, PH 6.6, VAPOR DIFFUSION, HANGING DROP, temperature 280K
Crystal Properties Matthews coefficient Solvent content 2.5 50.74
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 57.991 α = 85.45 b = 72.272 β = 84.04 c = 83.652 γ = 75.89
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 298 IMAGE PLATE MARRESEARCH MIRROR 2006-10-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU300 1.5418
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 3.3 20 94.8 18655 18655
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 3.3 3.42 97 1.8
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 (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 MOLECULAR REPLACEMENT THROUGHOUT 2OJV 3.3 19.87 18592 17642 950 94.49 0.251 0.20772 0.20473 0.2077 0.243 0.2809 RANDOM 25.473
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] 1.8 2.32 -0.93 0.28 -2.04
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.972 r_dihedral_angle_3_deg 17.466 r_dihedral_angle_4_deg 15.135 r_dihedral_angle_1_deg 5.467 r_scangle_it 1.358 r_angle_refined_deg 1.191 r_scbond_it 0.742 r_mcangle_it 0.656 r_mcbond_it 0.365 r_symmetry_vdw_refined 0.314
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.972 r_dihedral_angle_3_deg 17.466 r_dihedral_angle_4_deg 15.135 r_dihedral_angle_1_deg 5.467 r_scangle_it 1.358 r_angle_refined_deg 1.191 r_scbond_it 0.742 r_mcangle_it 0.656 r_mcbond_it 0.365 r_symmetry_vdw_refined 0.314 r_nbtor_refined 0.31 r_symmetry_hbond_refined 0.306 r_metal_ion_refined 0.241 r_nbd_refined 0.212 r_xyhbond_nbd_refined 0.147 r_chiral_restr 0.084 r_bond_refined_d 0.008 r_gen_planes_refined 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 9514 Nucleic Acid Atoms Solvent Atoms 186 Heterogen Atoms 398
Software Software Software Name Purpose DENZO data reduction MOLREP phasing REFMAC refinement AUTOMAR data reduction SCALEPACK data scaling