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Crystal structure of trimeric frataxin from the yeast Saccharomyces cerevisiae
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1EKG PDB ENTRIES 1EKG AND 1EW4 experimental model PDB 1EW4 PDB ENTRIES 1EKG AND 1EW4
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5.5 298 2 M AmSO4, 0.1 M BIS-TRIS, 4% GAMMA-Butyrolactone, pH 5.5, VAPOR DIFFUSION, temperature 298K, pH 5.50
Crystal Properties Matthews coefficient Solvent content 5.43 77.38
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 121.22 α = 90 b = 121.22 β = 90 c = 121.22 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 MARRESEARCH 2004-11-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON MAX II BEAMLINE I911-2 MAX II I911-2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 3.01 20 98.3 6059 2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 3.01 3.19 94.7
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 ENTRIES 1EKG AND 1EW4 3.01 19.74 6059 6042 302 100 0.286 0.286 0.2379 0.305 0.2551 RANDOM 77.5
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 c_dihedral_angle_d 26.2 c_scangle_it 13.39 c_mcangle_it 12.14 c_scbond_it 9.43 c_mcbond_it 7.82 c_angle_deg 1.9 c_improper_angle_d 1.24 c_bond_d 0.011 c_bond_d_na c_bond_d_prot
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 26.2 c_scangle_it 13.39 c_mcangle_it 12.14 c_scbond_it 9.43 c_mcbond_it 7.82 c_angle_deg 1.9 c_improper_angle_d 1.24 c_bond_d 0.011 c_bond_d_na c_bond_d_prot c_angle_d c_angle_d_na c_angle_d_prot c_angle_deg_na c_angle_deg_prot c_dihedral_angle_d_na c_dihedral_angle_d_prot c_improper_angle_d_na c_improper_angle_d_prot
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 883 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms
Software Software Software Name Purpose CNS refinement PDB_EXTRACT data extraction MAR345 data collection XDS data scaling PHASER phasing