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ACTIVATION OF NUCLEOPLASMIN, AN OLIGOMERIC HISTONE CHAPERONE, CHALLENGES ITS STABILITY
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1K5J PDB ENTRY 1K5J
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 4.6 15 MG/ML PROTEIN, 100MM NAAC, 20MM CACL2, 30% MPD, pH 4.6
Crystal Properties Matthews coefficient Solvent content 2.75 54.86
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 67.034 α = 90 b = 94.601 β = 90 c = 176.1 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 ADSC CCD M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-4 ESRF ID14-4
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 2.5 40 100 0.07 7.7 6 57758 2
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 2.5 2.64 100 0.31 17.5 6.1
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 PDB ENTRY 1K5J 2.5 40 37569 1984 100 0.187 0.182 0.1888 0.269 0.2712 RANDOM 39.25
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] 1.3 0.66 -1.96
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.109 r_dihedral_angle_4_deg 30.05 r_dihedral_angle_3_deg 18.298 r_dihedral_angle_1_deg 8.961 r_scangle_it 4.9 r_scbond_it 3.582 r_mcangle_it 2.644 r_angle_refined_deg 2.483 r_mcbond_it 1.858 r_angle_other_deg 1.252
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.109 r_dihedral_angle_4_deg 30.05 r_dihedral_angle_3_deg 18.298 r_dihedral_angle_1_deg 8.961 r_scangle_it 4.9 r_scbond_it 3.582 r_mcangle_it 2.644 r_angle_refined_deg 2.483 r_mcbond_it 1.858 r_angle_other_deg 1.252 r_xyhbond_nbd_refined 0.31 r_symmetry_vdw_refined 0.306 r_nbd_refined 0.218 r_nbd_other 0.211 r_symmetry_hbond_refined 0.211 r_nbtor_refined 0.197 r_symmetry_vdw_other 0.166 r_chiral_restr 0.149 r_nbtor_other 0.107 r_bond_refined_d 0.034 r_gen_planes_refined 0.01 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7086 Nucleic Acid Atoms Solvent Atoms 173 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling EPMR phasing