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Crystal Structure of UFC1 K108R
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2Z6O
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.5 298 0.1M Bis-Tris pH 5.5, 2M Ammonium Sulfate
Crystal Properties Matthews coefficient Solvent content 1.96 37.39
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 47.01 α = 90 b = 47.01 β = 90 c = 142.15 γ = 90
Symmetry Space Group P 41 21 2
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 PILATUS 200K 2022-08-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU 1.54187
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 1.9 44.63 96.78 0.99 8.52 1.2 13433 11.33
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 1.9 1.95 100 0.474
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 1.9 44.63 13268 669 99.527 0.207 0.205 0.2138 0.2475 0.2587 17.341
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] -0.211 -0.211 0.421
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.279 r_dihedral_angle_4_deg 22.048 r_dihedral_angle_3_deg 13.685 r_dihedral_angle_1_deg 6.928 r_lrange_it 4.514 r_lrange_other 4.358 r_scangle_it 2.72 r_scangle_other 2.718 r_mcangle_it 1.743 r_mcangle_other 1.742
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.279 r_dihedral_angle_4_deg 22.048 r_dihedral_angle_3_deg 13.685 r_dihedral_angle_1_deg 6.928 r_lrange_it 4.514 r_lrange_other 4.358 r_scangle_it 2.72 r_scangle_other 2.718 r_mcangle_it 1.743 r_mcangle_other 1.742 r_scbond_it 1.696 r_scbond_other 1.696 r_angle_refined_deg 1.483 r_angle_other_deg 1.368 r_mcbond_it 1.126 r_mcbond_other 1.125 r_symmetry_nbd_refined 0.242 r_nbd_other 0.212 r_nbd_refined 0.202 r_symmetry_nbd_other 0.188 r_nbtor_refined 0.167 r_xyhbond_nbd_refined 0.16 r_symmetry_xyhbond_nbd_refined 0.152 r_symmetry_nbtor_other 0.082 r_chiral_restr 0.079 r_bond_refined_d 0.008 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1335 Nucleic Acid Atoms Solvent Atoms 159 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement XSCALE data scaling XDS data reduction Coot model building