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Structural Basis of Selective Binding of Non-Methylated CpG islands by the CXXC Domain of CFP1
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3QMB
Crystallization Crystal Properties Matthews coefficient Solvent content 2.13 42.15
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 30.436 α = 90 b = 74.91 β = 90 c = 125.755 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 100 CCD ADSC QUANTUM 315 2010-12-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 0.97924 APS 19-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 2.3 100 6364
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 3QMB 2.3 62.88 6364 315 99.21 0.21904 0.21633 0.2165 0.27872 0.2657 RANDOM 14.949
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] -0.58 -0.52 1.1
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.105 r_dihedral_angle_4_deg 19.486 r_dihedral_angle_3_deg 17.818 r_dihedral_angle_1_deg 7.558 r_scangle_it 5.199 r_scbond_it 3.841 r_mcangle_it 2.235 r_mcbond_it 1.401 r_angle_refined_deg 1.063 r_chiral_restr 0.069
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.105 r_dihedral_angle_4_deg 19.486 r_dihedral_angle_3_deg 17.818 r_dihedral_angle_1_deg 7.558 r_scangle_it 5.199 r_scbond_it 3.841 r_mcangle_it 2.235 r_mcbond_it 1.401 r_angle_refined_deg 1.063 r_chiral_restr 0.069 r_gen_planes_refined 0.021 r_bond_refined_d 0.005 r_bond_other_d r_angle_other_deg r_gen_planes_other 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_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 406 Nucleic Acid Atoms 486 Solvent Atoms 10 Heterogen Atoms 9
Software Software Software Name Purpose REFMAC refinement