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A complex of of RNF4-RING domain, UbeV2, Ubc13-Ub (isopeptide crosslink)
Crystallization Crystal Properties Matthews coefficient Solvent content 2.87 60
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 77.58 α = 90 b = 77.58 β = 90 c = 328.84 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 CCD 2014-02-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04 Diamond I04
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 3.4 67 88.9 0.03 25.7 4.1 14922
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 3.4 3.49 35 0.68 1.9 3.4
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION OTHER THROUGHOUT NONE 3.4 67.19 14864 753 89.01 0.21156 0.20771 0.28617 0.2809 RANDOM 139.669
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] 0.88 0.44 0.88 -2.86
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.257 r_mcangle_it 17.504 r_dihedral_angle_4_deg 15.824 r_dihedral_angle_3_deg 13.832 r_scbond_it 13.8 r_mcbond_it 11.752 r_mcbond_other 11.749 r_dihedral_angle_1_deg 6.584 r_angle_other_deg 2.34 r_angle_refined_deg 1.556
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.257 r_mcangle_it 17.504 r_dihedral_angle_4_deg 15.824 r_dihedral_angle_3_deg 13.832 r_scbond_it 13.8 r_mcbond_it 11.752 r_mcbond_other 11.749 r_dihedral_angle_1_deg 6.584 r_angle_other_deg 2.34 r_angle_refined_deg 1.556 r_chiral_restr 0.072 r_bond_refined_d 0.014 r_gen_planes_other 0.01 r_gen_planes_refined 0.008 r_bond_other_d 0.002 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_mcangle_other r_scbond_other r_scangle_it 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 6738 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 4
Software Software Software Name Purpose REFMAC refinement xia2 data reduction