☰ Navigation Tabs
14-3-3sigma protein binding to ChREBP peptide and macrocycle 4
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6YGJ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 277 0.095 M HEPES pH=7.1-7.7
0.19 M CaCl2
5% glycerol
24-29% PEG400
Crystal Properties Matthews coefficient Solvent content 2.59 52.58
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 82.866 α = 90 b = 112.997 β = 90 c = 63.468 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 EIGER X 9M 2024-04-10 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 2.3 56.56 92.72 0.98 5.5 7.6 128946
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 2.3 2.53 0.502 1.8
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 2.3 56.56 12003 606 92.75 0.2299 0.22712 0.2358 0.2848 0.2914 RANDOM 35.951
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] 1.77 -1.06 -0.71
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 18.513 r_dihedral_angle_3_deg 13.055 r_long_range_B_refined 9.295 r_long_range_B_other 9.291 r_scangle_other 6.939 r_dihedral_angle_1_deg 5.9 r_mcangle_it 5.08 r_mcangle_other 5.079 r_scbond_it 4.349 r_scbond_other 4.347
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 18.513 r_dihedral_angle_3_deg 13.055 r_long_range_B_refined 9.295 r_long_range_B_other 9.291 r_scangle_other 6.939 r_dihedral_angle_1_deg 5.9 r_mcangle_it 5.08 r_mcangle_other 5.079 r_scbond_it 4.349 r_scbond_other 4.347 r_mcbond_it 3.48 r_mcbond_other 3.461 r_angle_refined_deg 0.783 r_angle_other_deg 0.335 r_chiral_restr 0.035 r_bond_refined_d 0.005 r_gen_planes_refined 0.002 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1935 Nucleic Acid Atoms Solvent Atoms 68 Heterogen Atoms 63
Software Software Software Name Purpose PDB-REDO refinement autoPROC data reduction Aimless data scaling MOLREP phasing