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Structure of the complex of sheep lactoperoxidase with hypoiodite at 2.70 A resolution
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2IKC
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.8 298 Ammonium iodide, PEG 3350, pH6.8
Crystal Properties Matthews coefficient Solvent content 2.3 46.6
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 53.942 α = 90 b = 80.179 β = 102.86 c = 76.122 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 2011-02-13 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 2.7 43.974 98.1 0.07 46 4.2 17167
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 2.7 2.75 93 0.24 10
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 2IKC 2.7 43.974 17092 860 97.635 0.199 0.1947 0.1945 0.2769 0.277 68.42
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] -0.164 -0.001 -0.284 0.406
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.154 r_dihedral_angle_4_deg 19.208 r_dihedral_angle_3_deg 17.459 r_lrange_it 13.467 r_mcangle_it 7.834 r_scangle_it 7.655 r_dihedral_angle_1_deg 7.336 r_scbond_it 5.234 r_mcbond_it 4.949 r_angle_refined_deg 1.459
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.154 r_dihedral_angle_4_deg 19.208 r_dihedral_angle_3_deg 17.459 r_lrange_it 13.467 r_mcangle_it 7.834 r_scangle_it 7.655 r_dihedral_angle_1_deg 7.336 r_scbond_it 5.234 r_mcbond_it 4.949 r_angle_refined_deg 1.459 r_symmetry_xyhbond_nbd_refined 0.342 r_nbtor_refined 0.313 r_symmetry_nbd_refined 0.237 r_nbd_refined 0.234 r_xyhbond_nbd_refined 0.194 r_chiral_restr 0.118 r_metal_ion_refined 0.101 r_gen_planes_refined 0.007 r_bond_refined_d 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4806 Nucleic Acid Atoms Solvent Atoms 157 Heterogen Atoms 62
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling AMoRE phasing