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Crystal structure of trimeric frataxin from the yeast Saccharomyces cerevisiae, with full length n-terminus
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2FQL
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 288 1.7 M (NH4)2SO4, 0.2 M Li2SO4, 4 % -butyrolactone, 0.1 M Tris pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 288K
Crystal Properties Matthews coefficient Solvent content 5.45 77.42
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 121.36 α = 90 b = 121.36 β = 90 c = 121.36 γ = 90
Symmetry Space Group I 21 3
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 MAR CCD 165 mm 2008-09-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON MAX II BEAMLINE I911-2 1.04 MAX II I911-2
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 2.96 30 99 0.056 22.6 6002 1 1
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 2.96 3.03 99.1 0.653 2.54
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 2FQL 2.96 28.6 1 5714 5714 617 99.17 0.26838 0.26838 0.26581 0.2608 0.29235 0.2914 RANDOM 73.164
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_dihedral_angle_2_deg 44.778 r_dihedral_angle_4_deg 36.808 r_dihedral_angle_3_deg 22.931 r_dihedral_angle_1_deg 10.994 r_angle_refined_deg 1.96 r_scangle_it 0.964 r_scbond_it 0.609 r_mcangle_it 0.458 r_mcbond_it 0.253 r_chiral_restr 0.119
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 44.778 r_dihedral_angle_4_deg 36.808 r_dihedral_angle_3_deg 22.931 r_dihedral_angle_1_deg 10.994 r_angle_refined_deg 1.96 r_scangle_it 0.964 r_scbond_it 0.609 r_mcangle_it 0.458 r_mcbond_it 0.253 r_chiral_restr 0.119 r_bond_refined_d 0.018 r_gen_planes_refined 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 931 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms
Software Software Software Name Purpose MAR345dtb data collection AMoRE phasing REFMAC refinement XDS data reduction XSCALE data scaling