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Crystal structure of the complex of bovine lactoperoxidase with OSCN at 1.89 A resolution
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3OGW
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.8 298 Ammonium Iodide, PEG3350, pH6.8, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.37 48.14
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 53.99 α = 90 b = 79.93 β = 102.18 c = 76.31 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 CCD MARRESEARCH mirror 2010-05-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE BM14 0.97 ESRF BM14
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.89 74.59 99.4 0.091 10.8 8.2 50831
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.89 1.94 100 0.341
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 3ogw 1.89 35.325 50802 2579 99.945 0.208 0.2055 0.2113 0.2637 0.2663 33.677
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] -0.998 -0.406 -2.166 3.055
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.242 r_dihedral_angle_4_deg 16.371 r_dihedral_angle_3_deg 15.324 r_lrange_it 10.588 r_lrange_other 10.588 r_dihedral_angle_1_deg 7.152 r_mcangle_it 4.863 r_mcangle_other 4.86 r_scangle_it 4.307 r_scangle_other 4.306
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.242 r_dihedral_angle_4_deg 16.371 r_dihedral_angle_3_deg 15.324 r_lrange_it 10.588 r_lrange_other 10.588 r_dihedral_angle_1_deg 7.152 r_mcangle_it 4.863 r_mcangle_other 4.86 r_scangle_it 4.307 r_scangle_other 4.306 r_mcbond_other 3.076 r_mcbond_it 3.07 r_scbond_it 2.755 r_scbond_other 2.755 r_angle_refined_deg 1.745 r_angle_other_deg 1.295 r_symmetry_xyhbond_nbd_refined 0.265 r_nbd_other 0.253 r_xyhbond_nbd_refined 0.247 r_nbd_refined 0.243 r_chiral_restr_other 0.238 r_symmetry_nbd_other 0.209 r_symmetry_xyhbond_nbd_other 0.175 r_nbtor_refined 0.168 r_symmetry_nbd_refined 0.16 r_xyhbond_nbd_other 0.128 r_symmetry_metal_ion_refined 0.113 r_symmetry_nbtor_other 0.08 r_chiral_restr 0.074 r_bond_refined_d 0.012 r_gen_planes_refined 0.008 r_gen_planes_other 0.005 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4771 Nucleic Acid Atoms Solvent Atoms 562 Heterogen Atoms 178
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling CNS phasing