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Mono- and bivalent 14-3-3 inhibitors for characterizing supramolecular lysine-PEG interactions in proteins
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3NKX
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 277.15 0.09 M HEPES sodium salt pH 7.5
1.26 M tri-Sodium citrate
10 %(v/v) Glycerol
Crystal Properties Matthews coefficient Solvent content 3.98 69.12
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 71.8 α = 90 b = 103.31 β = 90 c = 113.06 γ = 90
Symmetry Space Group P 21 21 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 PILATUS 6M 2016-09-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA 1.000 SLS X10SA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 2.3 46.98 100 0.128 0.134 0.996 12.09 13.252 38130 60.572
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.3 2.4 99.9 1.106 1.151 0.858 2.42 13.04
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 3NKX 2.3 46.98 36165 1904 99.97 0.216 0.2143 0.2197 0.2484 0.2533 RANDOM 60.153
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] -1.91 5.66 -3.76
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.62 r_dihedral_angle_4_deg 16.352 r_dihedral_angle_3_deg 13.108 r_dihedral_angle_1_deg 4.945 r_angle_refined_deg 1.072 r_angle_other_deg 0.879 r_chiral_restr 0.055 r_bond_refined_d 0.007 r_gen_planes_refined 0.003 r_bond_other_d 0.002
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.62 r_dihedral_angle_4_deg 16.352 r_dihedral_angle_3_deg 13.108 r_dihedral_angle_1_deg 4.945 r_angle_refined_deg 1.072 r_angle_other_deg 0.879 r_chiral_restr 0.055 r_bond_refined_d 0.007 r_gen_planes_refined 0.003 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3532 Nucleic Acid Atoms Solvent Atoms 179 Heterogen Atoms 122
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling PHASER phasing PDB_EXTRACT data extraction