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Structure of hsDDB1-drDDB2 bound to a 16 bp CPD-duplex (pyrimidine at D-1 position) at 3.6 A resolution (CPD 3)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3EI1 PDB ENTRY 3EI1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5.6 100 MM MES, 28 MM NAOH, 16% PEG 350MME., pH 5.6
Crystal Properties Matthews coefficient Solvent content 3.09 60.27
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 155.64 α = 90 b = 227.14 β = 90 c = 114.32 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 MARRESEARCH 2009-06-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06DA SLS X06DA
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 3.6 50 99.4 0.23 8.7 5.3 23751 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 3.6 3.7 99.2 0.57 3.4 5.4
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 3EI1 3.6 46.25 22561 1188 100 0.26728 0.26309 0.2591 0.34718 0.3397 RANDOM 73.463
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] 0.83 -0.46 -0.37
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.293 r_dihedral_angle_3_deg 19.769 r_dihedral_angle_4_deg 16.828 r_dihedral_angle_1_deg 5.773 r_angle_refined_deg 1.076 r_scangle_it 0.749 r_mcangle_it 0.446 r_scbond_it 0.386 r_mcbond_it 0.245 r_chiral_restr 0.071
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.293 r_dihedral_angle_3_deg 19.769 r_dihedral_angle_4_deg 16.828 r_dihedral_angle_1_deg 5.773 r_angle_refined_deg 1.076 r_scangle_it 0.749 r_mcangle_it 0.446 r_scbond_it 0.386 r_mcbond_it 0.245 r_chiral_restr 0.071 r_bond_refined_d 0.007 r_gen_planes_refined 0.004 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_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 8972 Nucleic Acid Atoms 646 Solvent Atoms Heterogen Atoms 1
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling PHASER phasing