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18mer DNA mimic Foldamer with an aliphatic linker in complex with Sac7d wild protein
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1AZQ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6 293.15 10% PEG 400, 0.1 M MES pH 6.0
Crystal Properties Matthews coefficient Solvent content 2.88 79.17
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 71.41 α = 90 b = 71.41 β = 90 c = 116.17 γ = 120
Symmetry Space Group P 64 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 77.36 PIXEL DECTRIS EIGER2 S 16M 2022-11-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-1 0.8856 ESRF ID23-1
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 2.65 42.34 99.62 0.998 18.81 6.9 5508 74.99
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 2.65 2.75 0.81
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Cut-off Sigma (F) 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) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 2.65 42.34 1.39 5502 547 99.66 0.2651 0.2614 0.2618 0.2974 0.2974 66.5
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]
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 13.0023 f_angle_d 2.6861 f_chiral_restr 0.2531 f_plane_restr 0.0132 f_bond_d 0.0078
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 495 Nucleic Acid Atoms Solvent Atoms 7 Heterogen Atoms 346
Software Software Software Name Purpose PHENIX refinement PHASER phasing XDS data reduction XDS data scaling PHASER phasing