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Suprafacial orientation of the SCFCdc4 dimer accommodates multiple geometries for substrate ubiquitination
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 300 50%MPD, 100 mM (NH4)H2PO4 ph 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 300K
Crystal Properties Matthews coefficient Solvent content 2.41 49.03
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 37.816 α = 90 b = 37.816 β = 90 c = 298.118 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 SBC Rosenbaum-Rock double-crystal monochromator: Water cooled; sagitally focusing 2nd crystal, Rosenbaum-Rock vertical focusing mirror 2005-06-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-BM 0.9788 APS 19-BM
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 2.67 49.69 99.3 0.0702 0.0349 21.15 9.81 6882 6756 8.4 8.4
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.67 2.73 98 0.1712 0.1228 8.47 6.95 383
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Cut-off Sigma (I) Cut-off Sigma (F) 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 Selection Details Mean Isotropic B X-RAY DIFFRACTION SAD THROUGHOUT 2.67 49.69 8.47 8.47 6284 6284 472 99.08 0.22396 0.22396 0.21974 0.1959 0.27851 RANDOM 25.025
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] 3.17 1.59 3.17 -4.76
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.38 r_dihedral_angle_4_deg 23.917 r_dihedral_angle_3_deg 22.595 r_dihedral_angle_1_deg 5.045 r_scangle_it 2.044 r_mcangle_it 1.32 r_angle_refined_deg 1.27 r_scbond_it 1.264 r_mcbond_it 0.775 r_nbtor_refined 0.303
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.38 r_dihedral_angle_4_deg 23.917 r_dihedral_angle_3_deg 22.595 r_dihedral_angle_1_deg 5.045 r_scangle_it 2.044 r_mcangle_it 1.32 r_angle_refined_deg 1.27 r_scbond_it 1.264 r_mcbond_it 0.775 r_nbtor_refined 0.303 r_nbd_refined 0.221 r_symmetry_vdw_refined 0.169 r_xyhbond_nbd_refined 0.148 r_symmetry_hbond_refined 0.148 r_chiral_restr 0.093 r_bond_refined_d 0.009 r_gen_planes_refined 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1678 Nucleic Acid Atoms Solvent Atoms 37 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement EPICS-based data collection data data collection HKL-2000 data reduction HKL-2000 data scaling SHELXD phasing