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Crystal structure of the tandem tudor domains of the E3 ubiquitin-protein ligase UHRF1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 298 10 % PEG 8000, 0.1 M SODIUM CACODYLATE, 0.2 M AMMONIUM SULFATE, 0.001 M TCEP, pH 6.50, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 3.2 61.6
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 98.654 α = 90 b = 98.654 β = 90 c = 43.345 γ = 120
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 MARMOSAIC 300 mm CCD MIRRORS 2008-03-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-B 1.00000 APS 23-ID-B
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 2.4 38.66 99.7 0.105 25.55 11.9 9579 9579 -3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.4 2.49 97.4 0.451 4.76 10.9 923
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 SAD THROUGHOUT 2.4 38.66 9579 9112 458 99.66 0.22008 0.22008 0.21695 0.2159 0.28462 0.2793 RANDOM 55.018
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] -2.37 -1.19 -2.37 3.56
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.181 r_dihedral_angle_4_deg 18.259 r_dihedral_angle_3_deg 15.823 r_dihedral_angle_1_deg 6.078 r_scangle_it 2.231 r_scbond_it 1.692 r_mcangle_it 1.186 r_angle_refined_deg 1.055 r_mcbond_it 0.723 r_nbtor_refined 0.304
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.181 r_dihedral_angle_4_deg 18.259 r_dihedral_angle_3_deg 15.823 r_dihedral_angle_1_deg 6.078 r_scangle_it 2.231 r_scbond_it 1.692 r_mcangle_it 1.186 r_angle_refined_deg 1.055 r_mcbond_it 0.723 r_nbtor_refined 0.304 r_symmetry_vdw_refined 0.214 r_nbd_refined 0.196 r_xyhbond_nbd_refined 0.132 r_symmetry_hbond_refined 0.07 r_chiral_restr 0.067 r_bond_refined_d 0.007 r_gen_planes_refined 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1111 Nucleic Acid Atoms Solvent Atoms 34 Heterogen Atoms 5
Software Software Software Name Purpose SOLVE phasing REFMAC refinement HKL-2000 data collection HKL-2000 data reduction HKL-2000 data scaling