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Structure of the human DDB1-CSA complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4A11
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 0.2 M sodium citrate, 24% PEG 3350, 0.1 M bis-tris propane pH 8.0, 3% glycerol
Crystal Properties Matthews coefficient Solvent content 4.06 69.71
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 140.79 α = 90 b = 140.79 β = 90 c = 249.331 γ = 120
Symmetry Space Group P 32 2 1
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 210 2011-02-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-1 0.934 ESRF ID14-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) 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 2.9 87.17 89.5 0.059 6.8 3.96 55130
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Rpim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.9 3.06 92.75 0.43 1.2
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 4A11 2.92 68.67 52821 2867 88.69 0.19557 0.19296 0.24528 0.2269 RANDOM 88.441
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] 34.83 34.83 -69.65
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.293 r_dihedral_angle_3_deg 17.728 r_dihedral_angle_4_deg 17.446 r_long_range_B_refined 17 r_long_range_B_other 16.999 r_mcangle_it 11.269 r_mcangle_other 11.268 r_scangle_other 10.655 r_mcbond_it 7.672 r_mcbond_other 7.665
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.293 r_dihedral_angle_3_deg 17.728 r_dihedral_angle_4_deg 17.446 r_long_range_B_refined 17 r_long_range_B_other 16.999 r_mcangle_it 11.269 r_mcangle_other 11.268 r_scangle_other 10.655 r_mcbond_it 7.672 r_mcbond_other 7.665 r_scbond_it 7.338 r_scbond_other 7.337 r_dihedral_angle_1_deg 7.248 r_angle_refined_deg 1.039 r_angle_other_deg 0.72 r_chiral_restr 0.067 r_bond_refined_d 0.012 r_gen_planes_refined 0.007 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 11412 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling MOLREP phasing