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Structure of p97 N-D1 R95G mutant in complex with ATPgS
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.8 288 100mM NaCl, 4% benzamidine, 100mM citrate, pH 5.8, 16.5% PEG3350 and 20% glycerol, VAPOR DIFFUSION, HANGING DROP, temperature 288K
Crystal Properties Matthews coefficient Solvent content 3.13 60.65
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 92.756 α = 97.66 b = 103.279 β = 91.88 c = 107.688 γ = 89.75
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 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-ID 1.0 APS 22-ID
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 2.81 43.92 0.05 12.3 151406 87240
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 2.81 25 82809 4323 90.15 0.24141 0.23988 0.2206 0.27144 0.2537 RANDOM 64.976
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] 1.72 0.74 1.17 -0.23 -1.27 -1.75
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.368 r_dihedral_angle_3_deg 20.019 r_dihedral_angle_4_deg 17.786 r_dihedral_angle_1_deg 6.027 r_scangle_it 1.785 r_angle_refined_deg 1.507 r_scbond_it 1.216 r_mcangle_it 0.698 r_mcbond_it 0.472 r_symmetry_hbond_refined 0.306
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.368 r_dihedral_angle_3_deg 20.019 r_dihedral_angle_4_deg 17.786 r_dihedral_angle_1_deg 6.027 r_scangle_it 1.785 r_angle_refined_deg 1.507 r_scbond_it 1.216 r_mcangle_it 0.698 r_mcbond_it 0.472 r_symmetry_hbond_refined 0.306 r_nbtor_refined 0.263 r_symmetry_vdw_refined 0.228 r_metal_ion_refined 0.187 r_nbd_refined 0.161 r_chiral_restr 0.129 r_xyhbond_nbd_refined 0.108 r_bond_refined_d 0.021 r_gen_planes_refined 0.014 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 21132 Nucleic Acid Atoms Solvent Atoms 121 Heterogen Atoms 192
Software Software Software Name Purpose MAR345dtb data collection PHASER phasing REFMAC refinement DENZO data reduction SCALEPACK data scaling