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UFL1/DDRGK1 bound to UFC1
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3EVX for UFC1 other AlphaFold for UFL1 and UFBP1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.2 292 0.1M HEPES, 1.03M Li2SO4
Crystal Properties Matthews coefficient Solvent content 2.99 58.91
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 79.21 α = 90 b = 124.565 β = 90 c = 131.292 γ = 90
Symmetry Space Group P 21 21 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 PIXEL DECTRIS PILATUS3 X 2M 2022-06-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-2 0.873128 ESRF ID23-2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) CC (Half) 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 2.564 65.732 93.8 0.997 8.2 12.8 25858
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.564 2.892 0.674
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 2.564 65.732 25858 1222 60.97 0.235 0.232 0.2296 0.2858 0.2879 47.927
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] -1.116 1.319 -0.203
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 19.53 r_dihedral_angle_6_deg 16.81 r_dihedral_angle_2_deg 14.431 r_lrange_it 7.918 r_lrange_other 7.918 r_dihedral_angle_1_deg 6.066 r_scangle_it 5.348 r_scangle_other 5.347 r_mcangle_it 4.215 r_mcangle_other 4.215
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 19.53 r_dihedral_angle_6_deg 16.81 r_dihedral_angle_2_deg 14.431 r_lrange_it 7.918 r_lrange_other 7.918 r_dihedral_angle_1_deg 6.066 r_scangle_it 5.348 r_scangle_other 5.347 r_mcangle_it 4.215 r_mcangle_other 4.215 r_scbond_it 3.353 r_scbond_other 3.353 r_mcbond_it 2.656 r_mcbond_other 2.656 r_angle_refined_deg 1.888 r_angle_other_deg 0.595 r_nbd_refined 0.244 r_nbd_other 0.217 r_symmetry_nbd_other 0.215 r_nbtor_refined 0.198 r_symmetry_xyhbond_nbd_refined 0.185 r_symmetry_nbd_refined 0.164 r_xyhbond_nbd_refined 0.13 r_symmetry_nbtor_other 0.087 r_chiral_restr 0.07 r_symmetry_xyhbond_nbd_other 0.046 r_bond_refined_d 0.011 r_gen_planes_refined 0.007 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6511 Nucleic Acid Atoms Solvent Atoms 7 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing