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Crystal structure of the G262S mutant of human apoptosis inducing factor
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5FS8 PDB ENTRY 5FS8
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 8.5 0.2 M LITHIUM SULFATE, 0.1M TRIS, PH 8.5, AND 25% POLY-ETHYLENE GLYCOL 3350
Crystal Properties Matthews coefficient Solvent content 2.82 56.5
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 91.41 α = 90 b = 114.57 β = 90 c = 120.79 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 110 CCD ADSC QUANTUM 315r MIRRORS 2015-09-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.2.2 ALS 8.2.2
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 1.85 83.13 98.6 0.12 9.2 5.5 106911 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 1.85 1.95 97.4 1.04 1.5 5.3
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) 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 5FS8 1.85 114.53 2 101544 5232 98.3 0.18072 0.17885 0.1876 0.21691 0.221 RANDOM 20.89
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] 0.32 -20 -0.12
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.025 r_dihedral_angle_4_deg 17.511 r_dihedral_angle_3_deg 14.6 r_dihedral_angle_1_deg 6.08 r_scangle_it 3.094 r_mcangle_it 2.152 r_scbond_it 1.871 r_angle_refined_deg 1.444 r_mcbond_it 1.306 r_mcbond_other 1.306
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.025 r_dihedral_angle_4_deg 17.511 r_dihedral_angle_3_deg 14.6 r_dihedral_angle_1_deg 6.08 r_scangle_it 3.094 r_mcangle_it 2.152 r_scbond_it 1.871 r_angle_refined_deg 1.444 r_mcbond_it 1.306 r_mcbond_other 1.306 r_angle_other_deg 0.764 r_chiral_restr 0.085 r_bond_refined_d 0.01 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 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_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 6952 Nucleic Acid Atoms Solvent Atoms 1079 Heterogen Atoms 106
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling PHASER phasing