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Crystal structure of the complex of human chromobox homolog 2 (CBX2) and H3K27 peptide
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 298 30% PEG3350, 0.1 M Tris, pH8.5, 0.2M NaCl, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.49 50.62
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 58.145 α = 90 b = 84.013 β = 90 c = 65.499 γ = 90
Symmetry Space Group C 2 2 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 2009-01-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CLSI BEAMLINE 08ID-1 0.97934 CLSI 08ID-1
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 1.2 50 93.8 0.046 38.995 8.1 26030
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 1.24 61.7 0.695 3.3
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 1.5 19.99 24729 1294 99.8 0.21015 0.20945 0.2072 0.22299 0.2238 RANDOM 16.163
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] 0.57 -0.6 0.03
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 20.634 r_dihedral_angle_4_deg 14.836 r_dihedral_angle_3_deg 12.001 r_dihedral_angle_1_deg 6.588 r_scangle_it 3.418 r_scbond_it 2.443 r_mcangle_it 1.673 r_angle_refined_deg 1.461 r_mcbond_it 1.089 r_symmetry_vdw_refined 0.335
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 20.634 r_dihedral_angle_4_deg 14.836 r_dihedral_angle_3_deg 12.001 r_dihedral_angle_1_deg 6.588 r_scangle_it 3.418 r_scbond_it 2.443 r_mcangle_it 1.673 r_angle_refined_deg 1.461 r_mcbond_it 1.089 r_symmetry_vdw_refined 0.335 r_nbtor_refined 0.309 r_nbd_refined 0.19 r_xyhbond_nbd_refined 0.148 r_chiral_restr 0.13 r_symmetry_hbond_refined 0.126 r_bond_refined_d 0.012 r_gen_planes_refined 0.006 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_refined 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 1014 Nucleic Acid Atoms Solvent Atoms 152 Heterogen Atoms
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction