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Crystal Structure of UFC1 C116E & K108A
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 298 0.1M Tris pH 8.0, 2M Ammonium sulfate
Crystal Properties Matthews coefficient Solvent content 1.96 37.4
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 46.458 α = 90 b = 46.458 β = 90 c = 143.776 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 EIGER X 9M 2024-01-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-2 0.87313 ESRF ID23-2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) Rrim I (All) 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 1.88 44.21 92.84 0.03682 0.999 15.5 2 12610 23.02
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Rrim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.88 1.947 0.3467 0.806 2.07
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 1.88 44.208 12610 601 92.83 0.182 0.1793 0.1904 0.2288 0.2395 21.539
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] 0.014 0.014 -0.028
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.307 r_dihedral_angle_4_deg 16.338 r_dihedral_angle_3_deg 13.138 r_dihedral_angle_1_deg 6.607 r_lrange_it 5.361 r_lrange_other 5.319 r_scangle_it 4.053 r_scangle_other 4.009 r_scbond_it 2.668 r_scbond_other 2.642
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.307 r_dihedral_angle_4_deg 16.338 r_dihedral_angle_3_deg 13.138 r_dihedral_angle_1_deg 6.607 r_lrange_it 5.361 r_lrange_other 5.319 r_scangle_it 4.053 r_scangle_other 4.009 r_scbond_it 2.668 r_scbond_other 2.642 r_mcangle_it 2.218 r_mcangle_other 2.217 r_mcbond_it 1.634 r_mcbond_other 1.599 r_angle_refined_deg 1.525 r_angle_other_deg 1.394 r_nbd_refined 0.209 r_symmetry_nbd_refined 0.207 r_symmetry_nbd_other 0.193 r_symmetry_xyhbond_nbd_refined 0.172 r_nbd_other 0.169 r_nbtor_refined 0.168 r_xyhbond_nbd_refined 0.155 r_chiral_restr 0.086 r_symmetry_nbtor_other 0.081 r_bond_refined_d 0.01 r_gen_planes_refined 0.008 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1317 Nucleic Acid Atoms Solvent Atoms 107 Heterogen Atoms 11
Software Software Software Name Purpose REFMAC refinement EDNA data collection autoPROC data scaling Coot model building