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Common mode of remodeling AAA ATPases p97/CDC48 by their disassembly cofactors ASPL/PUX1
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1S3S 1S3S, 5IFS experimental model PDB 5IFS 1S3S, 5IFS
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 293 6% (v/v) PEG1500, 0.2M sodium acetate, 0.1M Hepes pH 7.0
Crystal Properties Matthews coefficient Solvent content 3.5 64.83
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 185.12 α = 90 b = 185.12 β = 90 c = 122.426 γ = 120
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL DECTRIS PILATUS3 6M 2014-08-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.1 0.91841 BESSY 14.1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) 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 3.728 48.98 90.7 0.306 0.34 0.148 0.983 6.2 5.3 28980
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Rrim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 3.88 4.03 98.1 0.2686 0.324 0.75
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 1S3S, 5IFS 3.728 48.98 26254 2606 58.94 0.2117 0.2077 0.2186 0.2529 0.2623 RANDOM 123.914
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] -50.75 -50.75 101.5
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 24.589 r_dihedral_angle_4_deg 11.934 r_dihedral_angle_3_deg 11.257 r_dihedral_angle_1_deg 4.187 r_angle_refined_deg 1.168 r_angle_other_deg 1.04 r_chiral_restr 0.033 r_gen_planes_refined 0.003 r_bond_refined_d 0.002 r_bond_other_d 0.002
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 24.589 r_dihedral_angle_4_deg 11.934 r_dihedral_angle_3_deg 11.257 r_dihedral_angle_1_deg 4.187 r_angle_refined_deg 1.168 r_angle_other_deg 1.04 r_chiral_restr 0.033 r_gen_planes_refined 0.003 r_bond_refined_d 0.002 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 24272 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 162
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling PHASER phasing PDB_EXTRACT data extraction