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Human Myeloperoxidase inactivated by TX5
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1CXP PDB ENTRY 1CXP
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5.5 16-17% PEG3350, 100 MM NACL, pH 5.5
Crystal Properties Matthews coefficient Solvent content 2.5 51
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 93.13 α = 90 b = 63.79 β = 97.32 c = 111.35 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 RIGAKU A200 VARIMAX-VHF 2010-05-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU FR-E SUPERBRIGHT
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 2.6 30.79 99.9 0.14 10.9 4.3 40244 2
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 2.6 2.67 99.6 0.36 3.9 4.1
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 (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 PDB ENTRY 1CXP 2.6 110.43 38218 2015 99.83 0.19019 0.1873 0.1886 0.24446 0.2438 RANDOM 13.621
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] 1.06 -0.24 0.68 -1.81
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.631 r_dihedral_angle_4_deg 15.553 r_dihedral_angle_3_deg 14.993 r_dihedral_angle_1_deg 4.816 r_scangle_it 2.702 r_angle_refined_deg 1.818 r_scbond_it 1.604 r_mcangle_it 1.053 r_mcbond_it 0.535 r_chiral_restr 0.127
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.631 r_dihedral_angle_4_deg 15.553 r_dihedral_angle_3_deg 14.993 r_dihedral_angle_1_deg 4.816 r_scangle_it 2.702 r_angle_refined_deg 1.818 r_scbond_it 1.604 r_mcangle_it 1.053 r_mcbond_it 0.535 r_chiral_restr 0.127 r_bond_refined_d 0.009 r_gen_planes_refined 0.009 r_bond_other_d r_angle_other_deg r_gen_planes_other 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_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 9138 Nucleic Acid Atoms Solvent Atoms 259 Heterogen Atoms 303
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling MOLREP phasing