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Binary structure of 14-3-3sigma and interaction cassette phosphopeptide
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3P1N
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 277 the complex was set up for hanging-drop crystallization with precipitation buffer consisting of 0.095 M HEPES (pH 7.1), 27% or 29% (v/v) PEG 400, 0.19 M CaCl2 and 5% (v/v) glycerol
Crystal Properties Matthews coefficient Solvent content 2.54 51.6
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 82.195 α = 90 b = 112.202 β = 90 c = 62.667 γ = 90
Symmetry Space Group C 2 2 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 EIGER2 X 16M 2022-03-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PETRA III, DESY BEAMLINE P11 1.0332 PETRA III, DESY P11
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim 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 1.4 45.59 99.7 0.161 0.179 0.077 0.982 21.8 5.3 57109
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.4 1.42 96.4 0.457 0.51 0.223 0.797 4.9
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 (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 1.4 45.59 54250 2840 99.65 0.16385 0.16329 0.1635 0.17404 0.1744 RANDOM 16.589
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] -0.47 0.9 -0.43
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 12.613 r_dihedral_angle_2_deg 7.341 r_long_range_B_refined 5.334 r_long_range_B_other 5.106 r_dihedral_angle_1_deg 4.951 r_scangle_other 4.227 r_scbond_it 2.803 r_scbond_other 2.802 r_mcangle_other 2.261 r_mcangle_it 2.259
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 12.613 r_dihedral_angle_2_deg 7.341 r_long_range_B_refined 5.334 r_long_range_B_other 5.106 r_dihedral_angle_1_deg 4.951 r_scangle_other 4.227 r_scbond_it 2.803 r_scbond_other 2.802 r_mcangle_other 2.261 r_mcangle_it 2.259 r_angle_refined_deg 1.879 r_mcbond_it 1.515 r_mcbond_other 1.515 r_angle_other_deg 0.638 r_chiral_restr 0.097 r_bond_refined_d 0.011 r_gen_planes_refined 0.009 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_dihedral_angle_4_deg 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 1895 Nucleic Acid Atoms Solvent Atoms 311 Heterogen Atoms 4
Software Software Software Name Purpose REFMAC refinement Aimless data scaling DIALS data collection MOLREP phasing