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Structure of p97 N-D1 wild-type in complex with ADP
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6 289 0.1 M sodium citrate, pH 6.0, 0.3 M NaCl, 15.2 % PEG3350, 20 % glycerol, 2 % benzamidine
Crystal Properties Matthews coefficient Solvent content 2.53 51.38
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 146.44 α = 90 b = 176.21 β = 90 c = 256.87 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 100 CCD RAYONIX MX300HS 2009-03-01 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) 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 3.71 50 88.8 7.12 4.9 62997
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 THROUGHOUT 3.71 50 45977 2448 68.08 0.25037 0.24855 0.249 0.28527 0.2818 RANDOM 140.215
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] -3.59 2.14 1.45
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.871 r_dihedral_angle_4_deg 20.77 r_dihedral_angle_3_deg 19.582 r_long_range_B_refined 9.939 r_long_range_B_other 9.939 r_dihedral_angle_1_deg 7.921 r_mcangle_it 4.128 r_mcangle_other 4.128 r_scangle_other 3.445 r_mcbond_it 2.298
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.871 r_dihedral_angle_4_deg 20.77 r_dihedral_angle_3_deg 19.582 r_long_range_B_refined 9.939 r_long_range_B_other 9.939 r_dihedral_angle_1_deg 7.921 r_mcangle_it 4.128 r_mcangle_other 4.128 r_scangle_other 3.445 r_mcbond_it 2.298 r_mcbond_other 2.298 r_scbond_it 1.83 r_scbond_other 1.83 r_angle_refined_deg 1.635 r_angle_other_deg 1.173 r_chiral_restr 0.081 r_bond_refined_d 0.012 r_gen_planes_refined 0.008 r_bond_other_d 0.003 r_gen_planes_other 0.003 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 r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 41255 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 324
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling MOLREP phasing