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Monoclinic form of human peroxiredoxin 5
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5.3 PROTEIN WAS CRYSTALLIZED FROM 1.6 M AMMONIUM SULFATE, 0.1 M SODIUM CITRATE BUFFER PH 5.3, 0.2 M POTASSIUM SODIUM TARTRATE, 1 MM DTT, 0.02 % (W/V) SODIUM AZIDE
Crystal Properties Matthews coefficient Solvent content 3.75 67
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 130.79 α = 90 b = 66.49 β = 117.54 c = 141.24 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 IMAGE PLATE MAR scanner 345 mm plate TWO MIRRORS 2000-05-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE BM30A ESRF BM30A
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 1.95 24 96.6 0.032 21 1.83 151926
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 1.95 2 96.6 0.142 5 1.8
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 SIR THROUGHOUT 1.95 24 140398 7402 94.1 0.166 0.165 0.1754 0.19 0.1995 RANDOM
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]
RMS Deviations Key Refinement Restraint Deviation r_scangle_it 4.489 r_scbond_it 2.667 r_angle_other_deg 1.799 r_mcangle_it 1.284 r_dihedral_angle_3_deg 1.117 r_mcbond_it 0.674 r_nbd_refined 0.227 r_nbd_other 0.21 r_xyhbond_nbd_other 0.208 r_symmetry_vdw_other 0.178
RMS Deviations Key Refinement Restraint Deviation r_scangle_it 4.489 r_scbond_it 2.667 r_angle_other_deg 1.799 r_mcangle_it 1.284 r_dihedral_angle_3_deg 1.117 r_mcbond_it 0.674 r_nbd_refined 0.227 r_nbd_other 0.21 r_xyhbond_nbd_other 0.208 r_symmetry_vdw_other 0.178 r_xyhbond_nbd_refined 0.157 r_symmetry_vdw_refined 0.153 r_symmetry_hbond_refined 0.125 r_chiral_restr 0.112 r_bond_refined_d 0.018 r_gen_planes_refined 0.007 r_gen_planes_other 0.004 r_bond_other_d 0.002 r_angle_refined_deg r_dihedral_angle_1_deg r_dihedral_angle_2_deg r_dihedral_angle_4_deg r_nbtor_refined r_nbtor_other r_metal_ion_refined r_metal_ion_other 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 9520 Nucleic Acid Atoms Solvent Atoms 1213 Heterogen Atoms 72
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling MLPHARE phasing DM phasing REFMAC refinement