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Human peroxiredoxin-1 C83S mutant
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1QQ2
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 295 100mM imidazole, 0.8M potassium sodium tartrate, 200mM sodium chloride, pH 8.0, Temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.4 48.66
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 138.788 α = 90 b = 80.128 β = 89.99 c = 125.618 γ = 90
Symmetry Space Group C 1 2 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 ADSC QUANTUM 210 2009-03-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PAL/PLS BEAMLINE 4A 1.0 PAL/PLS 4A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 2.1 50 100 0.06 0.38 31.9 6.9 79872
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 2.1 2.18 100 0.4 4.9 6.9
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 1QQ2 2.1 50 75843 4013 99.73 0.17793 0.17551 0.1831 0.2223 0.2232 RANDOM 33.329
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] 0.27 0.07 0.38 -0.65
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.664 r_dihedral_angle_4_deg 17.937 r_dihedral_angle_3_deg 17.654 r_dihedral_angle_1_deg 10.471 r_long_range_B_refined 7.578 r_long_range_B_other 7.577 r_scangle_other 5.982 r_mcangle_it 3.951 r_mcangle_other 3.951 r_scbond_it 3.936
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.664 r_dihedral_angle_4_deg 17.937 r_dihedral_angle_3_deg 17.654 r_dihedral_angle_1_deg 10.471 r_long_range_B_refined 7.578 r_long_range_B_other 7.577 r_scangle_other 5.982 r_mcangle_it 3.951 r_mcangle_other 3.951 r_scbond_it 3.936 r_scbond_other 3.936 r_mcbond_it 2.977 r_mcbond_other 2.97 r_angle_refined_deg 2.036 r_angle_other_deg 1.173 r_chiral_restr 0.182 r_bond_refined_d 0.019 r_gen_planes_refined 0.01 r_gen_planes_other 0.002 r_bond_other_d 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8298 Nucleic Acid Atoms Solvent Atoms 399 Heterogen Atoms 144
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction PDB_EXTRACT data extraction HKL-2000 data scaling MOLREP phasing