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SidC in complex with UbcH7~Ub
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4TRG
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 9 298 16% PEG 3000, 0.1 M Tris pH 9.0
Crystal Properties Matthews coefficient Solvent content 2.95 58.29
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 101.528 α = 90 b = 101.528 β = 90 c = 352.326 γ = 120
Symmetry Space Group P 65 2 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 80 PIXEL DECTRIS PILATUS 6M-F 2016-12-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CHESS BEAMLINE F1 0.98 CHESS F1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.9 50 99.9 30.3 13.8 24890
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.9 2.95
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 4TRG 2.9 50 23471 1260 99.67 0.21372 0.20975 0.2169 0.28807 0.2835 RANDOM 70.854
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] 0.41 0.2 0.41 -1.32
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.842 r_dihedral_angle_3_deg 18.989 r_dihedral_angle_4_deg 17.652 r_long_range_B_refined 8.142 r_long_range_B_other 8.142 r_dihedral_angle_1_deg 6.683 r_scangle_other 5.446 r_mcangle_it 5.374 r_mcangle_other 5.373 r_mcbond_it 3.313
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.842 r_dihedral_angle_3_deg 18.989 r_dihedral_angle_4_deg 17.652 r_long_range_B_refined 8.142 r_long_range_B_other 8.142 r_dihedral_angle_1_deg 6.683 r_scangle_other 5.446 r_mcangle_it 5.374 r_mcangle_other 5.373 r_mcbond_it 3.313 r_mcbond_other 3.313 r_scbond_it 3.226 r_scbond_other 3.226 r_angle_refined_deg 1.478 r_angle_other_deg 0.791 r_chiral_restr 0.076 r_bond_refined_d 0.011 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001 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 5928 Nucleic Acid Atoms Solvent Atoms 29 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling AMoRE phasing