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MISREADING CHAPERONE-SUBSTRATE COMPLEXES FROM RANDOM NOISE
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5INA
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 EVAPORATION 273 PEG 3000, IMIDAZOLE, ZINC ACETATE,
VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K
Crystal Properties Matthews coefficient Solvent content 2.58 52.33
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 42.96 α = 90 b = 42.96 β = 90 c = 258.169 γ = 90
Symmetry Space Group P 41 2 2
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 MARMOSAIC 300 mm CCD 2014-12-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-D 0.9786 APS 21-ID-D
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 1.769 64.54 100 0.062 15.3 8.7 25052
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 1.77 1.8 99.5 1.34 1.6 8.2
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 5INA 1.77 64.54 23687 1267 99.85 0.17899 0.17535 0.1761 0.24785 0.2469 RANDOM 53.398
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] -0.12 -0.12 0.24
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 39.447 r_dihedral_angle_2_deg 38.542 r_sphericity_bonded 28.693 r_dihedral_angle_3_deg 14.991 r_dihedral_angle_4_deg 13.703 r_long_range_B_refined 8.542 r_long_range_B_other 8.373 r_scangle_other 7.061 r_mcangle_it 6.46 r_mcangle_other 6.457
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 39.447 r_dihedral_angle_2_deg 38.542 r_sphericity_bonded 28.693 r_dihedral_angle_3_deg 14.991 r_dihedral_angle_4_deg 13.703 r_long_range_B_refined 8.542 r_long_range_B_other 8.373 r_scangle_other 7.061 r_mcangle_it 6.46 r_mcangle_other 6.457 r_dihedral_angle_1_deg 6.036 r_scbond_other 5.908 r_scbond_it 5.895 r_mcbond_it 4.927 r_mcbond_other 4.922 r_angle_other_deg 3.578 r_rigid_bond_restr 1.859 r_angle_refined_deg 1.322 r_chiral_restr 0.091 r_bond_refined_d 0.011 r_gen_planes_refined 0.007 r_gen_planes_other 0.005 r_bond_other_d 0.004 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
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1608 Nucleic Acid Atoms Solvent Atoms 224 Heterogen Atoms 36
Software Software Software Name Purpose REFMAC refinement iMOSFLM data reduction Aimless data scaling PHENIX phasing