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Structure of p97 N-D1 R86A 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 3.03 59.41
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 90.892 α = 97.52 b = 102.645 β = 90.63 c = 107.182 γ = 91.45
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 2.85 40 0.049 13.8 85163
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 2.85 40 79168 4194 93.01 0.25936 0.25773 0.2258 0.29027 0.2564 RANDOM 70.682
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] 3.47 -0.14 0.9 -0.62 -2.48 -3.49
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.298 r_dihedral_angle_3_deg 19.527 r_dihedral_angle_4_deg 16.891 r_dihedral_angle_1_deg 6.074 r_scangle_it 1.646 r_angle_refined_deg 1.52 r_scbond_it 1.124 r_mcangle_it 0.65 r_mcbond_it 0.433 r_symmetry_hbond_refined 0.325
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.298 r_dihedral_angle_3_deg 19.527 r_dihedral_angle_4_deg 16.891 r_dihedral_angle_1_deg 6.074 r_scangle_it 1.646 r_angle_refined_deg 1.52 r_scbond_it 1.124 r_mcangle_it 0.65 r_mcbond_it 0.433 r_symmetry_hbond_refined 0.325 r_nbtor_refined 0.264 r_symmetry_vdw_refined 0.222 r_metal_ion_refined 0.211 r_nbd_refined 0.161 r_chiral_restr 0.127 r_xyhbond_nbd_refined 0.107 r_bond_refined_d 0.02 r_gen_planes_refined 0.015 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 21168 Nucleic Acid Atoms Solvent Atoms 93 Heterogen Atoms 192
Software Software Software Name Purpose HKL-2000 data collection PHASER phasing REFMAC refinement DENZO data reduction SCALEPACK data scaling