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N-terminal domain of the human tumor suppressor ING5 C19S mutant
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5ME8
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 291 0.78 M NPS
0.08 HEPES/MOPS Buffer pH 7.5
32.8% MPD_PEG1K_PEG3350
Crystal Properties Matthews coefficient Solvent content 5.27 76.68
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 140.94 α = 90 b = 140.94 β = 90 c = 92.323 γ = 120
Symmetry Space Group P 65 2 2
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 2013-06-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SOLEIL BEAMLINE PROXIMA 1 0.98011 SOLEIL PROXIMA 1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym I (Observed) Rrim I (All) Rpim I (All) 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 3.1 122.058 100 0.174 0.179 0.042 9.7 18.3 10298
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Rrim I (All) Rpim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 3.1 3.27 100 0.938 0.938 0.964 0.221 0.8 18.8
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 5ME8 3.1 121 9761 512 99.99 0.2173 0.2153 0.2182 0.2538 0.2587 RANDOM 97.147
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] 2.36 1.18 2.36 -7.65
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.033 r_dihedral_angle_4_deg 17.145 r_dihedral_angle_3_deg 16.635 r_dihedral_angle_1_deg 4.839 r_angle_refined_deg 1.024 r_angle_other_deg 0.856 r_chiral_restr 0.047 r_bond_refined_d 0.007 r_gen_planes_refined 0.004 r_bond_other_d 0.001
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.033 r_dihedral_angle_4_deg 17.145 r_dihedral_angle_3_deg 16.635 r_dihedral_angle_1_deg 4.839 r_angle_refined_deg 1.024 r_angle_other_deg 0.856 r_chiral_restr 0.047 r_bond_refined_d 0.007 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1752 Nucleic Acid Atoms Solvent Atoms 3 Heterogen Atoms 6
Software Software Software Name Purpose REFMAC refinement SCALA data scaling PDB_EXTRACT data extraction MOSFLM data reduction MOLREP phasing